Strain	Gene	Zyg	FClass	FTerms	similarity score	p-value	rank	description	GOBP	GOMF	GOCC
YDR158W	HOM2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEUS	1	0	1	Aspartic beta semi-aldehyde dehydrogenase, catalyzes the second step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis	methionine biosynthetic process|threonine biosynthetic process|homoserine biosynthetic process	aspartate-semialdehyde dehydrogenase activity	nucleus|plasma membrane|cytoplasm
YCR053W	THR4	hom	FT	VESICLE-MEDIATED TRANSPORT|KETONE METABOLISM|MEMBRANE ORGANIZATION|AMINO ACID METABOLISM|NUCLEUS	0.494340586221232	3.34197360664765e-205	2	Threonine synthase, conserved protein that catalyzes formation of threonine from O-phosphohomoserine; expression is regulated by the GCN4-mediated general amino acid control pathway	endocytosis|threonine metabolic process	threonine synthase activity	nucleus|cytoplasm
YER052C	HOM3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.472122008299469	4.70298814295078e-185	3	Aspartate kinase (L-aspartate 4-P-transferase); cytoplasmic enzyme that catalyzes the first step in the common pathway for methionine and threonine biosynthesis; expression regulated by Gcn4p and the general control of amino acid synthesis	threonine biosynthetic process|methionine biosynthetic process|homoserine biosynthetic process	aspartate kinase activity	cytoplasm
YOR184W	SER1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.356571622090406	1.28728536708313e-100	4	3-phosphoserine aminotransferase; catalyzes the formation of phosphoserine from 3-phosphohydroxypyruvate, required for serine and glycine biosynthesis; regulated by the general control of amino acid biosynthesis mediated by Gcn4p; protein abundance increases in response to DNA replication stress	serine family amino acid biosynthetic process|L-serine biosynthetic process|purine nucleobase biosynthetic process	O-phospho-L-serine:2-oxoglutarate aminotransferase activity	cytoplasm
YDR230W_d	YDR230W	hom			0.349384572539985	1.81621896822538e-96	5	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene COX20	Unknown	Unknown	Unknown
YGR208W	SER2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.348591649937323	4.88206868076931e-96	6	Phosphoserine phosphatase of the phosphoglycerate pathway, involved in serine and glycine biosynthesis, expression is regulated by the available nitrogen source	L-serine biosynthetic process	phosphoserine phosphatase activity	nucleus|cytoplasm
YJL022W_d	YJL022W	hom			0.346655658997241	4.88965683301414e-95	7	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene PET130	Unknown	Unknown	Unknown
YKL203C	TOR2	het	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|MEMBRANE ORGANIZATION|RIBOSOME BIOGENESIS|SIGNALING|CYTOSKELETON ORGANIZATION|MITOCHONDRION|PLASMA MEMBRANE	0.326720425972999	5.0539384632203e-84	8	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that regulates growth in response to nutrients and TORC2, a complex that regulates cell-cycle dependent polarization of the actin cytoskeleton; involved in meiosis; TOR2 has a paralog, TOR1, that arose from the whole genome duplication	G1 phase of mitotic cell cycle|regulation of cell cycle|actin filament reorganization involved in cell cycle|positive regulation of endocytosis|regulation of cell growth|establishment or maintenance of actin cytoskeleton polarity|Rho protein signal transduction|ribosome biogenesis|signal transduction|TOR signaling cascade|cytoskeleton organization|negative regulation of autophagy	protein binding|protein serine/threonine kinase activity	TORC1 complex|TORC2 complex|mitochondrion|fungal-type vacuole membrane|extrinsic to internal side of plasma membrane|plasma membrane|cytoplasm
YHR116W	COX23	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.324824734135125	5.40981928429773e-83	9	Mitochondrial intermembrane space protein that functions in mitochondrial copper homeostasis, essential for functional cytochrome oxidase expression; homologous to Cox17p; contains twin cysteine-x9-cysteine motifs	mitochondrial respiratory chain complex assembly	molecular_function	mitochondrion|cytoplasm
YJL166W	QCR8	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.320962338242734	5.43111297140657e-81	10	Subunit 8 of ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; oriented facing the intermembrane space; expression is regulated by Abf1p and Cpf1p	mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration	ubiquinol-cytochrome-c reductase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex III
YMR151W_d	YIM2	hom			0.316887127530653	6.92454451181882e-79	11	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 5% of ORF overlaps the verified gene IMP1	Unknown	Unknown	Unknown
YKL194C	MST1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.304273529078834	1.41651337420233e-72	12	Mitochondrial threonyl-tRNA synthetase; aminoacylates both the canonical threonine tRNA tT(UGU)Q1 and the unusual threonine tRNA tT(XXX)Q2 in vitro	mitochondrial threonyl-tRNA aminoacylation	threonine-tRNA ligase activity	mitochondrion
YPL013C	MRPS16	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.295800759380403	1.65276704737023e-68	13	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YPL132W	COX11	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION|RIBOSOME	0.294677781664374	5.58489293400244e-68	14	Mitochondrial inner membrane protein required for delivery of copper to the Cox1p subunit of cytochrome c oxidase; association with mitochondrial ribosomes suggests that copper delivery may occur during translation of Cox1p	protein complex assembly|aerobic respiration	copper ion binding	mitochondrial envelope|mitochondrion|mitochondrial ribosome|mitochondrial inner membrane
YPL215W	CBP3	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.288441834209129	4.36844111125292e-65	15	Mitochondrial protein required for assembly of cytochrome bc1 complex; forms a complex with Cbp6p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex	positive regulation of mitochondrial translation|mitochondrial respiratory chain complex III assembly	ribosome binding	integral to mitochondrial membrane|mitochondrion|mitochondrial ribosome
YEL059C-A	SOM1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.28838103586451	4.65775753741803e-65	16	Subunit of the mitochondrial inner membrane peptidase, which is required for maturation of mitochondrial proteins of the intermembrane space; Som1p facilitates cleavage of a subset of substrates; contains twin cysteine-x9-cysteine motifs	proteolysis|mitochondrial respiratory chain complex assembly	endopeptidase activity	mitochondrial inner membrane peptidase complex|mitochondrial inner membrane
YJL062W-A	COA3	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.285863149985407	6.53911919500616e-64	17	Mitochondrial inner membrane protein that participates in regulation of COX1 translation, Cox1p stabilization, and cytochrome oxidase assembly	mitochondrial respiratory chain complex IV assembly|negative regulation of mitochondrial translation	molecular_function	mitochondrion|mitochondrial inner membrane|integral to mitochondrial inner membrane
YLL009C	COX17	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.284753109939267	2.07776825420126e-63	18	Copper metallochaperone that transfers copper to Sco1p and Cox11p for eventual delivery to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs	mitochondrial respiratory chain complex IV assembly|intracellular copper ion transport	copper chaperone activity	cytosol|mitochondrion|mitochondrial intermembrane space
YDL067C	COX9	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.278604382520328	1.1414995076262e-60	19	Subunit VIIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain	mitochondrial electron transport, cytochrome c to oxygen	cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YKL110C	KTI12	hom	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.27502586520513	4.69405262731286e-59	20	Protein that plays a role, with Elongator complex, in modification of wobble nucleosides in tRNA; involved in sensitivity to G1 arrest induced by zymocin; interacts with chromatin throughout the genome; also interacts with Cdc19p	regulation of transcription from RNA polymerase II promoter|cell growth|tRNA wobble uridine modification	chromatin binding	nucleus|cytoplasm
YJR139C	HOM6	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEUS	0.273973323357439	1.75941527067549e-58	21	Homoserine dehydrogenase (L-homoserine:NADP oxidoreductase), dimeric enzyme that catalyzes the third step in the common pathway for methionine and threonine biosynthesis; enzyme has nucleotide-binding, dimerization and catalytic regions	threonine biosynthetic process|methionine biosynthetic process|homoserine biosynthetic process	homoserine dehydrogenase activity	nucleus|cytoplasm
YER141W	COX15	hom	FT	OXIDATION-REDUCTION PROCESS|COFACTOR METABOLISM|MITOCHONDRION	0.271501261428142	1.369027786238e-57	22	Protein required for the hydroxylation of heme O to form heme A, which is an essential prosthetic group for cytochrome c oxidase	heme a biosynthetic process	oxidoreductase activity, acting on NADH or NADPH, heme protein as acceptor	mitochondrion|integral to membrane|mitochondrial inner membrane
YER058W	PET117	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.270225162825496	4.78454782946246e-57	23	Protein required for assembly of cytochrome c oxidase	mitochondrial respiratory chain complex IV assembly	molecular_function	mitochondrion
YOR065W	CYT1	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.26706811359487	1.19172822787501e-55	24	Cytochrome c1, component of the mitochondrial respiratory chain; expression is regulated by the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex	oxidative phosphorylation|mitochondrial electron transport, ubiquinol to cytochrome c	electron transporter, transferring electrons within CoQH2-cytochrome c reductase complex activity	mitochondrion|mitochondrial respiratory chain|integral to membrane|mitochondrial inner membrane|mitochondrial respiratory chain complex III
YIR021W	MRS1	hom	FT	RNA PROCESSING|MITOCHONDRION	0.266905834037492	1.44604474487949e-55	25	Protein required for the splicing of two mitochondrial group I introns (BI3 in COB and AI5beta in COX1); forms a splicing complex, containing four subunits of Mrs1p and two subunits of the BI3-encoded maturase, that binds to the BI3 RNA	Group I intron splicing	endodeoxyribonuclease activity|RNA binding	mitochondrion
YMR286W	MRPL33	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.266750517271345	1.74257009855675e-55	26	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YOR330C	MIP1	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.266259802406534	2.69097405380366e-55	27	Mitochondrial DNA polymerase; conserved C-terminal segment is required for the maintenance of mitochondrial genome; mutations in the human ortholog POLG are associated with Alpers-Huttenlocher syndrome (AHS) and other mitochondrial diseases; Mip1p is the single subunit of mitochondrial DNA polymerase in yeast, in contrast to metazoans in which there is a complex of a catalytic subunit and an accessory subunit	mitochondrial DNA replication	3'-5' exonuclease activity|DNA-directed DNA polymerase activity	mitochondrion
YGR183C	QCR9	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.265441238836196	5.68417750879847e-55	28	Subunit 9 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; required for electron transfer at the ubiquinol oxidase site of the complex	iron-sulfur cluster assembly|mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration	ubiquinol-cytochrome-c reductase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex III
YDR375C	BCS1	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.259507941190556	1.39153870443441e-52	29	Protein translocase and chaperone required for Complex III assembly; member of the AAA ATPase family; forms a homo-oligomeric complex in the mitochondrial inner membrane that translocates the C-terminal domain of Rip1p from the matrix across the inner membrane, and then delivers it to an assembly intermediate of respiratory Complex III in an ATP-dependent reaction; also required for assembly of the Qcr10p subunit; mutations in human homolog BCS1L linked to neonatal diseases	protein insertion into mitochondrial membrane from inner side|chaperone-mediated protein complex assembly|mitochondrial respiratory chain complex III assembly	protein transmembrane transporter activity|ATPase activity	mitochondrion|mitochondrial inner membrane
YJR066W	TOR1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RIBOSOME BIOGENESIS|SIGNALING|RESPONSE TO DNA DAMAGE|CELL WALL ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|NUCLEUS|GOLGI APPARATUS|PLASMA MEMBRANE	0.258372439233209	3.86904996507309e-52	30	PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that controls growth in response to nutrients by regulating translation, transcription, ribosome biogenesis, nutrient transport and autophagy; involved in meiosis; TOR1 has a paralog, TOR2, that arose from the whole genome duplication	regulation of cell cycle|G1 phase of mitotic cell cycle|transcription of nuclear large rRNA transcript from RNA polymerase I promoter|regulation of cell growth|response to DNA damage stimulus|mitochondria-nucleus signaling pathway|ribosome biogenesis|meiosis|signal transduction|TOR signaling cascade|fungal-type cell wall organization|negative regulation of autophagy	protein binding|protein kinase activity	TORC1 complex|fungal-type vacuole membrane|endosome membrane|extrinsic to internal side of plasma membrane|plasma membrane|nucleus|Golgi membrane|cytoplasm
YNL119W	NCS2	hom	FT	RNA PROCESSING	0.255715315375364	6.11283094673267e-51	31	Protein required for thiolation of the uridine at the wobble position of Lys(UUU) and Glu(UUC) tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae	tRNA wobble position uridine thiolation|pseudohyphal growth|protein urmylation|invasive growth in response to glucose limitation	molecular_function	cytosol|cytoplasm
YMR035W	IMP2	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.255035817012687	8.39603545563592e-51	32	Catalytic subunit of the mitochondrial inner membrane peptidase complex, required for maturation of mitochondrial proteins of the intermembrane space; complex contains Imp1p and Imp2p (both catalytic subunits), and Som1p	protein processing involved in protein targeting to mitochondrion	endopeptidase activity	mitochondrial inner membrane peptidase complex
YHR025W	THR1	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.252522054930724	8.27922616039533e-50	33	Homoserine kinase, conserved protein required for threonine biosynthesis; expression is regulated by the GCN4-mediated general amino acid control pathway	threonine biosynthetic process|methionine metabolic process|isoleucine metabolic process|homoserine metabolic process	homoserine kinase activity	cellular_component
YML121W	GTR1	hom	FF|FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|ION HOMEOSTASIS|GENE SILENCING|NUCLEUS	0.252059241416878	1.25826285430362e-49	34	Cytoplasmic GTP binding protein and negative regulator of the Ran/Tc4 GTPase cycle; component of GSE complex, which is required for sorting of Gap1p; involved in phosphate transport and telomeric silencing; similar to human RagA and RagB	phosphate ion transport|transcription from RNA polymerase I promoter|transcription from RNA polymerase III promoter|chromatin silencing at telomere	GDP binding|GTP binding	fungal-type vacuole membrane|EGO complex|nucleus|late endosome membrane|cytoplasm
YDR231C	COX20	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.247609732484564	6.7344792350312e-48	35	Mitochondrial inner membrane protein, required for proteolytic processing of Cox2p and its assembly into cytochrome c oxidase	mitochondrial respiratory chain complex IV assembly|protein processing|aerobic respiration	unfolded protein binding	mitochondrion|mitochondrial inner membrane
YKL155C	RSM22	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.246619581224005	1.77553030434823e-47	36	Mitochondrial ribosomal protein of the small subunit; also predicted to be an S-adenosylmethionine-dependent methyltransferase	mitochondrial translation	structural constituent of ribosome|S-adenosylmethionine-dependent methyltransferase activity	mitochondrion|mitochondrial small ribosomal subunit
YHR187W	IKI1	hom	FT	RNA PROCESSING|NUCLEUS	0.24636434774592	2.02265697181294e-47	37	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; iki1 mutations confer resistance to the K. lactis toxin zymocin	tRNA modification	tRNA binding|ATPase activity	Elongator holoenzyme complex|nucleus|cytoplasm
YDR197W	CBS2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.245120968398931	6.02673853101946e-47	38	Mitochondrial translational activator of the COB mRNA; interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader	mitochondrial respiratory chain complex III biogenesis|positive regulation of mitochondrial translation	translation regulator activity	mitochondrion|extrinsic to mitochondrial inner membrane|mitochondrial ribosome
YNR045W	PET494	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.245070926493049	6.29665002716001e-47	39	Mitochondrial translational activator specific for the COX3 mRNA, acts together with Pet54p and Pet122p; located in the mitochondrial inner membrane	mitochondrial respiratory chain complex IV biogenesis|positive regulation of mitochondrial translation	translation regulator activity	mitochondrion|mitochondrial inner membrane
YJL209W	CBP1	hom	FT	RNA PROCESSING|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.244296071107317	1.40243253050059e-46	40	Mitochondrial protein, regulator of COB mRNA stability and translation; interacts with the 5'-untranslated region of the COB mRNA; found in a complex at the inner membrane along with Pet309p; localizes to mitochondrial foci upon DNA replication stress	mitochondrial mRNA catabolic process|aerobic respiration	mRNA binding	mitochondrion|extrinsic to mitochondrial inner membrane
YGR220C	MRPL9	hom	FT	TRANSLATION|MITOCHONDRION|RIBOSOME	0.244149657122995	1.40806893264838e-46	41	Mitochondrial ribosomal protein of the large subunit	cytoplasmic translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YGL107C	RMD9	hom	FT	TRANSLATION|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.239965466627577	5.21876339474967e-45	42	Mitochondrial protein required for respiratory growth; mutant phenotype and genetic interactions suggest a role in delivering mt mRNAs to ribosomes; located on matrix face of the inner membrane and loosely associated with mitoribosomes	translational initiation|regulation of mRNA stability|aerobic respiration	molecular_function	extrinsic to mitochondrial inner membrane|mitochondrion
YGL191W	COX13	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.239266970955148	9.75906040654018e-45	43	Subunit VIa of cytochrome c oxidase; present in a subclass of cytochrome c oxidase complexes that may have a role in mimimizing generation of reactive oxygen species; not essential for cytochrome c oxidase activity but may modulate activity in response to ATP; required for assembly of Rcf2p into cytochrome c oxidase - cytochrome bc1 supercomplexes	mitochondrial respiratory chain supercomplex assembly|aerobic respiration	enzyme regulator activity|cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YDL172C_d	YDL172C	hom			0.238246761530657	2.25573783288112e-44	44	Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR114C	AVL9	hom	FT	VESICLE-MEDIATED TRANSPORT	0.235414171227198	2.45447739964047e-43	45	Conserved protein involved in exocytic transport from the Golgi; mutation is synthetically lethal with apl2 vps1 double mutation; member of a protein superfamily with orthologs in diverse organisms; relocalizes from bud neck to cytoplasm upon DNA replication stress	post-Golgi vesicle-mediated transport	molecular_function	cytoplasm
YHL038C	CBP2	hom	FT	RNA PROCESSING|MITOCHONDRION	0.232881488820733	2.01954797769396e-42	46	Required for splicing of the group I intron bI5 of the COB pre-mRNA; nuclear-encoded mitochondrial protein that binds to the RNA to promote splicing; also involved in but not essential for splicing of the COB bI2 intron and the intron in the 21S rRNA gene	Group I intron splicing	RNA binding	mitochondrion
YGR112W	SHY1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.23241026631736	2.9808800954664e-42	47	Mitochondrial inner membrane protein required for assembly of cytochrome c oxidase (complex IV); associates with complex IV assembly intermediates and complex III/complex IV supercomplexes; similar to human SURF1 involved in Leigh Syndrome	mitochondrial respiratory chain complex IV assembly|aerobic respiration	unfolded protein binding	mitochondrion|integral to membrane|mitochondrial inner membrane
YPL189C-A	COA2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.230760863873572	1.15672645341952e-41	48	Cytochrome oxidase assembly factor; null mutation results in respiratory deficiency with specific loss of cytochrome oxidase activity; functions downstream of assembly factors Mss51p and Coa1p and interacts with assembly factor Shy1p	mitochondrial respiratory chain complex IV assembly	molecular_function	mitochondrial matrix
YGR163W	GTR2	hom	FF|FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|MEMBRANE ORGANIZATION|NUCLEUS|CHROMOSOME	0.230549075091066	1.37565902472723e-41	49	Putative GTP binding protein that negatively regulates Ran/Tc4 GTPase cycle; activates transcription; subunit of EGO and GSE complexes; required for sorting of Gap1p; localizes to cytoplasm and to chromatin; homolog of human RagC and RagD	microautophagy|positive regulation of transcription from RNA polymerase II promoter	GTP binding	nuclear chromatin|fungal-type vacuole membrane|integral to membrane|EGO complex|nucleus|late endosome membrane|cytoplasm
YJL054W	TIM54	het	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.229468719180189	3.32153092709651e-41	50	Component of the mitochondrial TIM22 complex involved in insertion of polytopic proteins into the inner membrane	protein import into mitochondrial inner membrane	protein channel activity	mitochondrion|integral to membrane|mitochondrial inner membrane protein insertion complex
YLR038C	COX12	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.226736449388816	3.02488018423056e-40	51	Subunit VIb of cytochrome c oxidase; cytochrome c oxidase is also known as respiratory Complex IV and is the terminal member of the mitochondrial inner membrane electron transport chain; required for assembly of cytochrome c oxidase but not required for activity after assembly; phosphorylated; easily released from the intermembrane space, suggesting a loose association with Complex IV	mitochondrial respiratory chain complex IV assembly	cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YOR297C	TIM18	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.224237223284758	2.22441464895168e-39	52	Component of the mitochondrial TIM22 complex involved in insertion of polytopic proteins into the inner membrane; may mediate assembly or stability of the complex	cellular response to oxidative stress|protein import into mitochondrial inner membrane|apoptotic process|response to acid|response to osmotic stress|response to arsenic-containing substance	protein channel activity	mitochondrion|integral to membrane|mitochondrial inner membrane protein insertion complex
YDR023W	SES1	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.222339386820866	9.95855442686687e-39	53	Cytosolic seryl-tRNA synthetase, class II aminoacyl-tRNA synthetase that aminoacylates tRNA(Ser), displays tRNA-dependent amino acid recognition which enhances discrimination of the serine substrate, interacts with peroxin Pex21p	seryl-tRNA aminoacylation	serine-tRNA ligase activity	cytoplasm
YGR076C	MRPL25	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.220847662402565	3.20357198009939e-38	54	Mitochondrial ribosomal protein of the large subunit; mutation confers increased replicative lifespan	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YMR256C	COX7	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.220231229133255	6.01727254956421e-38	55	Subunit VII of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain	mitochondrial electron transport, cytochrome c to oxygen	cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YLR384C	IKI3	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.217199007601622	5.38410206554712e-37	56	Subunit of Elongator complex, which is required for modification of wobble nucleosides in tRNA; maintains structural integrity of Elongator; homolog of human IKAP, mutations in which cause familial dysautonomia (FD)	regulation of transcription from RNA polymerase II promoter|tRNA wobble uridine modification	molecular_function	Elongator holoenzyme complex|nucleus|cytoplasm
YML129C	COX14	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.217148023826099	5.59860676922146e-37	57	Mitochondrial membrane protein, involved in translational regulation of Cox1p and assembly of cytochrome c oxidase (complex IV); associates with complex IV assembly intermediates and complex III/complex IV supercomplexes	mitochondrial respiratory chain complex IV assembly|negative regulation of mitochondrial translation	molecular_function	mitochondrial envelope|mitochondrion|integral to membrane|mitochondrial inner membrane|mitochondrial matrix|extrinsic to membrane
YBL021C	HAP3	hom	FT	TRANSCRIPTION FROM RNA POL II|OXIDATION-REDUCTION PROCESS|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.216938098982839	6.57497933653239e-37	58	Subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; contains sequences contributing to both complex assembly and DNA binding	carbon catabolite activation of transcription from RNA polymerase II promoter|regulation of cellular respiration	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	CCAAT-binding factor complex
YHR186C	KOG1	het	FT	SIGNALING|RESPONSE TO NUTRIENT LEVELS|MITOCHONDRION|PLASMA MEMBRANE	0.215136803067403	2.59379627907271e-36	59	Subunit of TORC1, a rapamycin-sensitive complex involved in growth control that contains Tor1p or Tor2p, Lst8p and Tco89p; contains four HEAT repeats and seven WD-40 repeats; may act as a scaffold protein to couple TOR and its effectors	TOR signaling cascade|regulation of cell growth|cellular response to starvation	ubiquitin binding	TORC1 complex|fungal-type vacuole membrane|mitochondrion|plasma membrane
YNL213C	RRG9	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.213665929519054	7.88216109704588e-36	60	Protein of unknown function; null mutant lacks mitochondrial DNA and cannot grow on glycerol; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	mitochondrion organization|mitochondrial genome maintenance	molecular_function	mitochondrion
YBR077C	SLM4	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|SIGNALING	0.212465226526357	2.39268150140582e-35	61	Component of the EGO complex, which is involved in the regulation of microautophagy, and of the GSE complex, which is required for proper sorting of amino acid permease Gap1p; gene exhibits synthetic genetic interaction with MSS4	signal transduction|microautophagy	phosphatidylinositol-3,4-bisphosphate binding	fungal-type vacuole membrane|EGO complex|late endosome membrane|cytoplasm
YJR120W	YJR120W	hom	FT	OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.212260919764932	2.5396058656694e-35	62	Protein of unknown function; essential for growth under anaerobic conditions; mutation causes decreased expression of ATP2, impaired respiration, defective sterol uptake, and altered levels/localization of ABC transporters Aus1p and Pdr11p	cellular respiration|sterol transport|mitochondrion organization	molecular_function	cellular_component
YLR218C	COA4	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|NUCLEUS|MITOCHONDRION	0.209470459580703	1.79405353810096e-34	63	Twin Cx(9)C protein involved in cytochrome c oxidase assembly or stability; localizes to the mitochondrial intermembrane space via the Mia40p-Erv1p system; interacts genetically with CYC1 and with cytochrome c oxidase assembly factors	mitochondrial respiratory chain complex IV assembly|mitochondrial respiratory chain complex assembly	molecular_function	nucleus|mitochondrial intermembrane space|cytoplasm
YGR150C	CCM1	hom	FT	RNA PROCESSING|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.206606898909534	1.69926779225583e-33	64	Mitochondrial 15s rRNA-binding protein; required for intron removal of COB and COX1 pre-mRNAs; contains pentatricopeptide repeat (PPR) motifs; mutant is respiratory deficient and has defective plasma membrane electron transport	rRNA metabolic process|mitochondrial RNA processing|mitochondrial genome maintenance	rRNA binding	mitochondrion
YJL023C	PET130	hom	FT	MITOCHONDRION	0.205946581687082	2.35154575925611e-33	65	Protein required for respiratory growth; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YHR036W	BRL1	het	FF|FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.205858214866725	2.50677181922174e-33	66	Essential nuclear envelope integral membrane protein identified as a suppressor of a conditional mutation in the major karyopherin, CRM1; homologous to and interacts with Brr6p, a nuclear envelope protein involved in nuclear export	mRNA export from nucleus|protein export from nucleus|nuclear envelope organization	molecular_function	nuclear envelope|endoplasmic reticulum
YBR049C	REB1	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.204814466964409	5.32170403575027e-33	67	RNA polymerase I enhancer binding protein; DNA binding protein that binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription; REB1 has a paralog, NSI1, that arose from the whole genome duplication	termination of RNA polymerase I transcription|regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding	nucleoplasm
YJR013W	GPI14	het	FT	LIPID METABOLISM|CELL WALL ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.201705889007622	4.88876042257662e-32	68	Glycosylphosphatidylinositol-alpha 1,4 mannosyltransferase I, involved in GPI anchor biosynthesis, requires Pbn1p for function; homolog of mammalian PIG-M	fungal-type cell wall organization|GPI anchor biosynthetic process	mannosyltransferase activity	integral to membrane|endoplasmic reticulum membrane
YKL208W	CBT1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|MITOCHONDRION	0.201346213721012	7.44777716687109e-32	69	Protein involved in 5' end processing of mitochondrial COB, 15S_rRNA, and RPM1 transcripts; may also have a role in 3' end processing of the COB pre-mRNA; displays genetic interaction with cell cycle-regulated kinase Dbf2p	cytochrome complex assembly|mRNA processing|mRNA stabilization	molecular_function	mitochondrion
YOR274W	MOD5	hom	FT	RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.198739344293874	3.92320667866215e-31	70	Delta 2-isopentenyl pyrophosphate:tRNA isopentenyl transferase; required for biosynthesis of the modified base isopentenyladenosine in mitochondrial and cytoplasmic tRNAs; gene is nuclear and encodes two isozymic forms; converts to a prion form, and prion conversion contributes to azole antifungal resistance by upregulating ergosterol biosynthesis	tRNA modification	tRNA dimethylallyltransferase activity	cytosol|mitochondrion|nucleolus|nucleus
YHR050W-A_p	YHR050W-A	hom			0.198132648336624	5.98202336884847e-31	71	Protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YDR237W	MRPL7	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.197601973508398	8.64188653928819e-31	72	Mitochondrial ribosomal protein of the large subunit; MRPL7 produces both YmL5 and YmL7, which are two different modified forms of the same protein	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YOR125C	CAT5	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.197332851892461	1.04100638510412e-30	73	Protein required for ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes; required for gluconeogenic gene activation	ubiquinone biosynthetic process	monooxygenase activity	mitochondrion|mitochondrial inner membrane
YDR079W	PET100	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.196999855633305	1.31015819743323e-30	74	Chaperone that specifically facilitates the assembly of cytochrome c oxidase, integral to the mitochondrial inner membrane; interacts with a subcomplex of subunits VII, VIIa, and VIII (Cox7p, Cox9p, and Cox8p) but not with the holoenzyme	mitochondrial respiratory chain complex IV assembly|aerobic respiration	unfolded protein binding	mitochondrion|mitochondrial inner membrane|integral to mitochondrial inner membrane
YJL019W	MPS3	het	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|ENDOMEMBRANE SYSTEM|NUCLEUS|CHROMOSOME|CYTOSKELETON	0.195353133686428	4.14067628409705e-30	75	Nuclear envelope protein required for SPB insertion; initiation of SPB duplication and nuclear fusion; acetylation of Mps3p by Eco1p regulates its role in nuclear organization; localizes to the SPB half bridge and at telomeres during meiosis; required with Ndj1p and Csm4p for meiotic bouquet formation and telomere-led rapid prophase movement; N-terminal acetylated by Eco1p	meiotic telomere clustering|synapsis|nuclear migration involved in conjugation with cellular fusion|spindle pole body duplication associated with nuclear envelope|telomere tethering at nuclear periphery|mitotic sister chromatid cohesion	molecular_function	nuclear envelope|nuclear periphery|integral to membrane|nuclear chromosome, telomeric region|half bridge of spindle pole body
YDL107W	MSS2	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.193744869465189	1.21362697119062e-29	76	Peripherally bound inner membrane protein of the mitochondrial matrix involved in membrane insertion of C-terminus of Cox2p, interacts genetically and physically with Cox18p	protein insertion into mitochondrial membrane from inner side	molecular_function	extrinsic to mitochondrial inner membrane|mitochondrial matrix
YDR518W	EUG1	hom	FT	ENDOPLASMIC RETICULUM	0.191956060944542	4.05592489808664e-29	77	Protein disulfide isomerase of the endoplasmic reticulum lumen; EUG1 has a paralog, PDI1, that arose from the whole genome duplication; function overlaps with that of Pdi1p; may interact with nascent polypeptides in the ER	protein folding	protein disulfide isomerase activity|protein disulfide oxidoreductase activity	endoplasmic reticulum
YKR035C_d	OPI8	hom			0.191471527279626	6.16611655275559e-29	78	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene DID2/YKR035W-A	Unknown	Unknown	Unknown
YFL024C	EPL1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.189867284703029	2.32349413085736e-28	79	Subunit of NuA4, an essential histone H4/H2A acetyltransferase complex; conserved region at N-terminus is essential for interaction with the NPC (nucleosome core particle); required for autophagy; homologous to Drosophila Enhancer of Polycomb	DNA repair|histone acetylation|regulation of transcription from RNA polymerase II promoter	histone acetyltransferase activity	Piccolo NuA4 histone acetyltransferase complex|NuA4 histone acetyltransferase complex
YGL211W	NCS6	hom	FT	RNA PROCESSING|MITOCHONDRION	0.188946447972599	3.00666020074617e-28	80	Protein required for thiolation of the uridine at the wobble position of Gln, Lys, and Glu tRNAs; has a role in urmylation and in invasive and pseudohyphal growth; inhibits replication of Brome mosaic virus in S. cerevisiae	tRNA wobble position uridine thiolation|protein urmylation|tRNA wobble uridine modification	tRNA binding	cytosol|mitochondrion
YGL237C	HAP2	hom	FT	TRANSCRIPTION FROM RNA POL II|OXIDATION-REDUCTION PROCESS|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.18601825440372	2.15636296564021e-27	81	Subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; contains sequences sufficient for both complex assembly and DNA binding	carbon catabolite activation of transcription from RNA polymerase II promoter|regulation of cellular respiration	RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	CCAAT-binding factor complex|nucleus
YPL035C_d	YPL035C	hom			0.184770250921941	5.00343877312292e-27	82	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YPL034W; YPL035C is not an essential gene	Unknown	Unknown	Unknown
YDR148C	KGD2	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.184214345329415	7.0285584606902e-27	83	Dihydrolipoyl transsuccinylase, component of the mitochondrial alpha-ketoglutarate dehydrogenase complex, which catalyzes the oxidative decarboxylation of alpha-ketoglutarate to succinyl-CoA in the TCA cycle; phosphorylated	tricarboxylic acid cycle|mitochondrial genome maintenance|2-oxoglutarate metabolic process	dihydrolipoyllysine-residue succinyltransferase activity	mitochondrial nucleoid|mitochondrion|mitochondrial oxoglutarate dehydrogenase complex
YJL180C	ATP12	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.183529144055969	1.03509252045268e-26	84	Conserved protein required for assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase; mutation of human ATP12 reduces active ATP synthase levels and is associated with the disorder ATPAF2 deficiency	mitochondrial proton-transporting ATP synthase complex assembly	protein domain specific binding	mitochondrion
YNR041C	COQ2	hom	FT	KETONE METABOLISM|LIPID METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.181499253413091	3.70234707960312e-26	85	Para hydroxybenzoate: polyprenyl transferase, catalyzes the second step in ubiquinone (coenzyme Q) biosynthesis	ubiquinone biosynthetic process	4-hydroxybenzoate octaprenyltransferase activity	mitochondrion|integral to mitochondrial membrane|integral to membrane
YKL087C	CYT2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION	0.179613181884894	1.21299099890593e-25	86	Cytochrome c1 heme lyase, involved in maturation of cytochrome c1, which is a subunit of the mitochondrial ubiquinol-cytochrome-c reductase; links heme covalently to apocytochrome c1	cytochrome c-heme linkage	holocytochrome-c synthase activity	mitochondrion|mitochondrial intermembrane space
YMR138W	CIN4	hom	FT	SIGNALING	0.179058515445683	1.71533407509149e-25	87	GTP-binding protein involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl; regulated by the GTPase-activating protein, Cin2p, the human retinitis pigmentosa 2 (RP2) homolog	protein folding|tubulin complex assembly|tubulin complex biogenesis	GTP binding	cytoplasm
YJL046W	AIM22	hom	FT	MITOCHONDRION	0.178878928588807	1.91853324115753e-25	88	Putative lipoate-protein ligase, required along with Lip2 and Lip5 for lipoylation of Lat1p and Kgd2p; similar to E. coli LplA; null mutant displays reduced frequency of mitochondrial genome loss	protein lipoylation	lipoate-protein ligase activity	mitochondrion
YMR150C	IMP1	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.178639221064188	2.22734290432073e-25	89	Catalytic subunit of the mitochondrial inner membrane peptidase complex, required for maturation of mitochondrial proteins of the intermembrane space; complex contains Imp1p and Imp2p (both catalytic subunits), and Som1p	protein processing involved in protein targeting to mitochondrion	endopeptidase activity	mitochondrion|mitochondrial inner membrane peptidase complex
YKL028W	TFA1	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|MITOCHONDRION|RNA POL II, HOLOENZYME	0.178590745873175	2.29553474718454e-25	90	TFIIE large subunit, involved in recruitment of RNA polymerase II to the promoter, activation of TFIIH, and promoter opening	transcriptional open complex formation at RNA polymerase II promoter|transcription from RNA polymerase II promoter	single-stranded DNA binding|TFIIH-class transcription factor binding|RNA polymerase II core binding	mitochondrion|transcription factor TFIIE complex
YJL003W	COX16	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.178141367336368	3.03471186956192e-25	91	Mitochondrial inner membrane protein, required for assembly of cytochrome c oxidase	mitochondrial respiratory chain complex IV assembly	molecular_function	mitochondrion|mitochondrial inner membrane
YKR007W	MEH1	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|ION HOMEOSTASIS|ION HOMEOSTASIS	0.176395372458848	9.65510935018956e-25	92	Component of the EGO complex, which is involved in the regulation of microautophagy, and of the GSE complex, which is required for proper sorting of amino acid permease Gap1p; loss results in a defect in vacuolar acidification	microautophagy|vacuolar acidification	molecular_function	fungal-type vacuole membrane|EGO complex|late endosome membrane
YDL040C	NAT1	hom	FT	MITOCHONDRION|RIBOSOME	0.175230596636824	1.81822103241006e-24	93	Subunit of the N-terminal acetyltransferase NatA (Nat1p, Ard1p, Nat5p); N-terminally acetylates many proteins, which influences multiple processes such as the cell cycle, heat-shock resistance, mating, sporulation, and telomeric silencing	N-terminal protein amino acid acetylation	peptide alpha-N-acetyltransferase activity	mitochondrion|NatA complex|cytosolic ribosome
YDL173W	PAR32	hom			0.174372156746732	3.06477058663191e-24	94	Putative protein of unknown function; hyperphosphorylated upon rapamycin treatment in a Tap42p-dependent manner; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; PAR32 is not an essential gene	biological_process	molecular_function	cytoplasm
YEL064C	AVT2	hom	FT	ENDOPLASMIC RETICULUM	0.173876724338545	4.47079625996433e-24	95	Putative transporter, member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters	transport	transporter activity	integral to membrane|endoplasmic reticulum
YIL052C	RPL34B	hom	FF|FT	TRANSLATION|RIBOSOME	0.173713498363014	4.56657042619392e-24	96	Ribosomal 60S subunit protein L34B; homologous to mammalian ribosomal protein L34, no bacterial homolog; RPL34B has a paralog, RPL34A, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YNL252C	MRPL17	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.172527335906886	9.32746874467472e-24	97	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YMR208W	ERG12	het	FF|FT	LIPID METABOLISM|COFACTOR METABOLISM	0.172228423576162	1.11577837025243e-23	98	Mevalonate kinase, acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate	ergosterol biosynthetic process|isopentenyl diphosphate biosynthetic process, mevalonate pathway|farnesyl diphosphate biosynthetic process, mevalonate pathway	mevalonate kinase activity	cytosol
YFL018C	LPD1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.171714951174714	1.51676791087252e-23	99	Dihydrolipoamide dehydrogenase, the lipoamide dehydrogenase component (E3) of the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase multi-enzyme complexes	L-serine biosynthetic process|2-oxoglutarate metabolic process|leucine catabolic process|glycine catabolic process|isoleucine catabolic process|pyruvate metabolic process|valine catabolic process|hydrogen peroxide metabolic process	glycine dehydrogenase (decarboxylating) activity|pyruvate dehydrogenase activity|oxoglutarate dehydrogenase (succinyl-transferring) activity|dihydrolipoyl dehydrogenase activity	mitochondrial nucleoid|mitochondrion|glycine cleavage complex|mitochondrial oxoglutarate dehydrogenase complex
YHR111W	UBA4	hom	FT	RNA PROCESSING|CELL DIVISION|RESPONSE TO OXIDATIVE STRESS	0.171493632890935	1.81093133224714e-23	100	Protein that activates Urm1p before its conjugation to proteins (urmylation); also acts in thiolation of the wobble base of cytoplasmic tRNAs by adenylating and then thiolating Urm1p; receives sulfur from Tum1p	cellular response to oxidative stress|tRNA wobble position uridine thiolation|cell budding|protein urmylation|tRNA thio-modification|Unknown|invasive growth in response to glucose limitation	URM1 activating enzyme activity|sulfurtransferase activity|thiosulfate sulfurtransferase activity|protein adenylyltransferase activity	cytoplasm
YGL119W	COQ8	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.170259588950479	3.88026036838165e-23	101	Protein required for ubiquinone biosynthesis and respiratory growth; exhibits genetic interaction with COQ9, suggesting a common function; similar to prokaryotic proteins involved in early steps of ubiquinone biosynthesis; COQ8 has a paralog, YBR230W-A, that arose from the whole genome duplication	ubiquinone biosynthetic process|aerobic respiration	molecular_function	mitochondrion|extrinsic to mitochondrial inner membrane|mitochondrial matrix
YKL068W-A_p	YKL068W-A	hom			0.168790131894915	8.56154221657614e-23	102	Putative protein of unknown function; identified by homology to <i>Ashbya gossypii</i>	biological_process	molecular_function	cellular_component
YPL101W	ELP4	hom	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.168062652508529	1.31044575047096e-22	103	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity	regulation of transcription from RNA polymerase II promoter|tRNA wobble uridine modification	ATPase activity|tRNA binding	Elongator holoenzyme complex|cytoplasm
YIR008C	PRI1	het	FT	NUCLEUS|CHROMOSOME	0.16773333235377	1.58793726515431e-22	104	Subunit of DNA primase, which is required for DNA synthesis and double-strand break repair	lagging strand elongation|DNA replication, synthesis of RNA primer|DNA replication initiation|DNA replication	single-stranded DNA binding|DNA primase activity	alpha DNA polymerase:primase complex|nuclear replication fork
YOR158W	PET123	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.16719937971254	2.16630070824069e-22	105	Mitochondrial ribosomal protein of the small subunit; PET123 exhibits genetic interactions with PET122, which encodes a COX3 mRNA-specific translational activator	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YDR204W	COQ4	hom	FT	KETONE METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.167034051018611	2.38447679461964e-22	106	Protein with a role in ubiquinone (Coenzyme Q) biosynthesis, possibly functioning in stabilization of Coq7p; located on the matrix face of the mitochondrial inner membrane; component of a mitochondrial ubiquinone-synthesizing complex	ubiquinone biosynthetic process	molecular_function	mitochondrial inner membrane
YER061C	CEM1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|MITOCHONDRION	0.165455904873777	5.92987156425576e-22	107	Mitochondrial beta-keto-acyl synthase with possible role in fatty acid synthesis; required for mitochondrial respiration	fatty acid biosynthetic process	fatty acid synthase activity	mitochondrion
YOR069W	VPS5	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.165028212096056	8.12640891985653e-22	108	Nexin-1 homolog required for localizing membrane proteins from a prevacuolar/late endosomal compartment back to the late Golgi apparatus; structural component of the retromer membrane coat complex; forms a retromer subcomplex with Vps17p; required for recruiting the retromer complex to the endosome membranes	protein retention in Golgi apparatus|retrograde transport, endosome to Golgi	protein transporter activity|phosphatidylinositol-3-phosphate binding	cytosol|endosome|retromer complex, outer shell|retromer complex
YBR179C	FZO1	hom	FT	MEMBRANE ORGANIZATION|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.164557044063027	1.03450350322054e-21	109	Mitofusin; integral membrane protein involved in mitochondrial outer membrane tethering and fusion; role in mitochondrial genome maintenance; efficient tethering and degradation of Fzo1p requires an intact N-terminal GTPase domain; targeted for destruction by the ubiquitin ligase SCF-Mdm30p and the cytosolic ubiquitin-proteasome system	mitochondrial fusion	GTPase activity|protein homodimerization activity	mitochondrial outer membrane|mitochondrion|mitochondrial inner membrane|integral to mitochondrial outer membrane
YJR077C	MIR1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.164402223973193	1.08403939787813e-21	110	Mitochondrial phosphate carrier, imports inorganic phosphate into mitochondria; functionally redundant with Pic2p but more abundant than Pic2p under normal conditions; phosphorylated	phosphate ion transmembrane transport	inorganic phosphate transmembrane transporter activity	mitochondrion|integral to membrane|integral to mitochondrial inner membrane
YLL018C-A	COX19	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.162982445222944	2.46177058233474e-21	111	Protein required for cytochrome c oxidase assembly, located in the cytosol and mitochondrial intermembrane space; putative copper metallochaperone that delivers copper to cytochrome c oxidase; contains twin cysteine-x9-cysteine motifs	mitochondrial respiratory chain complex IV assembly|metal ion transport	copper ion binding|copper chaperone activity	cytosol|mitochondrial intermembrane space
YDL068W_d	YDL068W	hom			0.162653267461838	2.92486149492428e-21	112	Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR533C	HSP31	hom	FT	PROTEOLYSIS	0.161913279056881	4.43664013172541e-21	113	Possible chaperone and cysteine protease; has similarity to E. coli Hsp31; member of the DJ-1/ThiJ/PfpI superfamily, which includes human DJ-1 involved in Parkinson's disease; exists as a dimer and contains a putative metal-binding site; protein abundance increases in response to DNA replication stress	biological_process	unfolded protein binding|cysteine-type peptidase activity	cellular_component
YGR174C	CBP4	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.160132203362037	1.21560818744599e-20	114	Mitochondrial protein required for assembly of cytochrome bc1 complex; interacts with the Cbp3p-Cbp6p complex and newly synthesized cytochrome b (Cobp) to promote assembly of Cobp into the cytochrome bc1 complex	mitochondrial respiratory chain complex III assembly	molecular_function	mitochondrion|integral to mitochondrial membrane
YGR200C	ELP2	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.160018417990288	1.27797600901416e-20	115	Subunit of Elongator complex, which is required for modification of wobble nucleosides in tRNA; target of Kluyveromyces lactis zymocin	regulation of transcription from RNA polymerase II promoter|protein urmylation|tRNA wobble uridine modification	molecular_function	Elongator holoenzyme complex|nucleus|cytoplasm
YCR024C	SLM5	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.159096772068155	2.12808821791749e-20	116	Mitochondrial asparaginyl-tRNA synthetase	asparaginyl-tRNA aminoacylation|mitochondrial asparaginyl-tRNA aminoacylation	asparagine-tRNA ligase activity	mitochondrion
YMR044W	IOC4	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS	0.156799462613472	7.9732864206251e-20	117	Member of a complex (Isw1b) with Isw1p and Ioc2p; interacts directly with H3K36me3 nucleosomes through its PWWP domain to recruit the Isw1b complex to open reading frames in a Set2p-dependent manner; Isw1b exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing	chromatin remodeling	nucleosome binding|ATPase activity|DNA binding	ISW1 complex
YLR201C	COQ9	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.156506988078182	8.77519066432706e-20	118	Protein required for ubiquinone (coenzyme Q) biosynthesis and respiratory growth; localizes to the matrix face of the mitochondrial inner membrane in a large complex with ubiquinone biosynthetic enzymes	ubiquinone biosynthetic process|aerobic respiration	molecular_function	mitochondrion|mitochondrial inner membrane
YIL008W	URM1	hom	FT	RNA PROCESSING|CELL DIVISION|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.156291776360133	9.86094092077148e-20	119	Ubiquitin-like protein involved in thiolation of cytoplasmic tRNAs; receives sulfur from the E1-like enzyme Uba4p and transfers it to tRNA; also functions as a protein tag with roles in nutrient sensing and oxidative stress response	cellular response to oxidative stress|tRNA wobble position uridine thiolation|cell budding|protein urmylation|invasive growth in response to glucose limitation|tRNA wobble uridine modification	protein tag	cytosol|nucleus|cytoplasm
YPL175W	SPT14	het	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.155819766684929	1.35451966728992e-19	120	UDP-GlcNAc-binding and catalytic subunit of the enzyme that mediates the first step in glycosylphosphatidylinositol (GPI) biosynthesis, mutations cause defects in transcription and in biogenesis of cell wall proteins	GPI anchor biosynthetic process	UDP-glycosyltransferase activity	glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|endoplasmic reticulum
YOR322C	LDB19	hom	FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|GOLGI APPARATUS|PLASMA MEMBRANE	0.15538172383545	1.61197219703271e-19	121	Protein involved in regulating the endocytosis of plasma membrane proteins by recruiting the ubiquitin ligase Rsp5p to its target; inhibited by Npr1p-mediated phosphorylation, which affects translocation between the cytosol and the plasma membrane; null mutant has reduced affinity for alcian blue dye	ubiquitin-dependent endocytosis	ubiquitin protein ligase binding	cytosol|Golgi apparatus|plasma membrane|clathrin-coated vesicle|cytoplasm
YOR257W	CDC31	het	FF|FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|PROTEOLYSIS|CYTOSKELETON ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|CYTOSKELETON|NUCLEAR PORE	0.154586705075122	2.47041919932216e-19	122	Calcium-binding component of the spindle pole body (SPB) half-bridge, required for SPB duplication in mitosis and meiosis II; homolog of mammalian centrin; binds multiubiquitinated proteins and is involved in proteasomal protein degradation	microtubule nucleation|proteasomal ubiquitin-dependent protein catabolic process|spindle pole body duplication associated with nuclear envelope	structural constituent of cytoskeleton	integral to membrane|transcription export complex 2|nucleotide-excision repair factor 2 complex|half bridge of spindle pole body|nuclear pore
YFL037W	TUB2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|NUCLEOTIDE METABOLISM|CHROMOSOME SEGREGATION|NUCLEUS|CYTOSKELETON	0.153857391399118	3.69205465341097e-19	123	Beta-tubulin; associates with alpha-tubulin (Tub1p and Tub3p) to form tubulin dimer, which polymerizes to form microtubules; mutation in human ortholog is associated with congenital fibrosis of the extraocular muscles (CFEOM) with polymicrogyria	nuclear migration along microtubule|nuclear migration involved in conjugation with cellular fusion|homologous chromosome segregation|mitotic sister chromatid segregation	structural constituent of cytoskeleton	tubulin complex|kinetochore microtubule|cytoplasmic microtubule|nuclear microtubule|spindle pole body|polar microtubule
YAL020C	ATS1	hom	FT	RNA PROCESSING|CELL DIVISION|CYTOSKELETON ORGANIZATION	0.152966338703547	5.85668493427973e-19	124	Protein required, with Elongator complex, Kti11p, and Kti12p, for modification of wobble nucleosides in tRNA; has a potential role in regulatory interactions between microtubules and the cell cycle	microtubule-based process|budding cell bud growth|microtubule cytoskeleton organization|tRNA wobble uridine modification	molecular_function	cytoplasm
YNL315C	ATP11	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.152602748777354	7.09928769011945e-19	125	Molecular chaperone, required for the assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase	mitochondrion organization|mitochondrial proton-transporting ATP synthase complex assembly	unfolded protein binding	mitochondrion|mitochondrial matrix
YPL148C	PPT2	hom	FF|FT	KETONE METABOLISM|LIPID METABOLISM|MITOCHONDRION	0.152058494375077	9.46060727808229e-19	126	Phosphopantetheine:protein transferase (PPTase), activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation	protein-cofactor linkage	holo-[acyl-carrier-protein] synthase activity	mitochondrion
YBR200W-A_p	YBR200W-A	hom			0.150756086358337	1.87278585823209e-18	127	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YGL252C	RTG2	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|SIGNALING|RESPONSE TO NUTRIENT LEVELS|NUCLEUS|CHROMOSOME|HISTONE ACETYLTRANSFERASE	0.149676297440694	3.28389082061291e-18	128	Sensor of mitochondrial dysfunction; regulates the subcellular location of Rtg1p and Rtg3p, transcriptional activators of the retrograde (RTG) and TOR pathways; Rtg2p is inhibited by the phosphorylated form of Mks1p	maintenance of DNA trinucleotide repeats|regulation of transcription from RNA polymerase II promoter|Unknown|nitrogen catabolite regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|mitochondria-nucleus signaling pathway|transcription factor import into nucleus	RNA polymerase II transcription factor binding transcription factor activity	SLIK (SAGA-like) complex|transcriptionally active chromatin|cytoplasm
YNR018W	RCF2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.149572921021993	3.46453761329598e-18	129	Cytochrome c oxidase subunit; has a role in assembly of respiratory supercomplexes; similar to Rcf1p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; associates with the cytochrome c oxidase - cytochrome bc1 supercomplex; null mutant accumulates reactive oxygen species; member of the conserved hypoxia induced gene family; C. elegans homolog is functional in yeast	mitochondrial respiratory chain complex IV assembly	molecular_function	mitochondrion|mitochondrial respiratory chain supercomplex|mitochondrial respiratory chain complex IV|integral to mitochondrial inner membrane
YKL109W	HAP4	hom	FT	TRANSCRIPTION FROM RNA POL II|OXIDATION-REDUCTION PROCESS|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.149540906697543	3.52244491831011e-18	130	Subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; provides the principal activation function of the complex	regulation of cellular respiration|carbon catabolite activation of transcription from RNA polymerase II promoter	RNA polymerase II activating transcription factor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription factor binding transcription factor activity	CCAAT-binding factor complex
YLR239C	LIP2	hom	FF|FT	KETONE METABOLISM|LIPID METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.148737021656562	5.33451712742366e-18	131	Lipoyl ligase, involved in the modification of mitochondrial enzymes by the attachment of lipoic acid groups	protein lipoylation	ligase activity	mitochondrion
YPL102C_d	YPL102C	hom			0.148619298309629	5.6677202536924e-18	132	Dubious open reading frame, not conserved in closely related Saccharomyces species; deletion mutation enhances replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene ELP4	Unknown	Unknown	Unknown
YMR312W	ELP6	hom	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.146746692477792	1.5257602848682e-17	133	Subunit of hexameric RecA-like ATPase Elp456 Elongator subcomplex; which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity	protein urmylation|regulation of transcription from RNA polymerase II promoter|tRNA wobble uridine modification	ATPase activity|tRNA binding	Elongator holoenzyme complex
YOL096C	COQ3	hom	FT	KETONE METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.146554682632403	1.62718142898644e-17	134	O-methyltransferase, catalyzes two different O-methylation steps in ubiquinone (Coenzyme Q) biosynthesis; component of a mitochondrial ubiquinone-synthesizing complex; phosphoprotein	ubiquinone biosynthetic process	hexaprenyldihydroxybenzoate methyltransferase activity	mitochondrion|mitochondrial inner membrane|extrinsic to membrane
YOR221C	MCT1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.146380083504643	1.77775104855463e-17	135	Predicted malonyl-CoA:ACP transferase, putative component of a type-II mitochondrial fatty acid synthase that produces intermediates for phospholipid remodeling	fatty acid metabolic process|aerobic respiration	[acyl-carrier-protein] S-malonyltransferase activity	mitochondrion
YNL239W	LAP3	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|AMINO ACID METABOLISM|PROTEOLYSIS|MITOCHONDRION	0.146277241760592	1.87278510777149e-17	136	Cysteine aminopeptidase with homocysteine-thiolactonase activity; protects cells against homocysteine toxicity; has bleomycin hydrolase activity in vitro; transcription is regulated by galactose via Gal4p; orthologous to human BLMH	response to antibiotic|negative regulation of transcription from RNA polymerase II promoter|homocysteine catabolic process	double-stranded DNA binding|cysteine-type peptidase activity|mRNA binding|single-stranded DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding	mitochondrion|cytoplasm
YKR035W-A	DID2	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM	0.144448355048471	4.74941267719103e-17	137	Class E protein of the vacuolar protein-sorting (Vps) pathway; binds Vps4p and directs it to dissociate ESCRT-III complexes; forms a functional and physical complex with Ist1p; human ortholog may be altered in breast tumors	late endosome to vacuole transport via multivesicular body sorting pathway|late endosome to vacuole transport|protein targeting to vacuole	molecular_function	late endosome|cytoplasm
YER086W	ILV1	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.144250527730327	5.18687705363111e-17	138	Threonine deaminase, catalyzes the first step in isoleucine biosynthesis; expression is under general amino acid control; ILV1 locus exhibits highly positioned nucleosomes whose organization is independent of known ILV1 regulation	threonine catabolic process|isoleucine biosynthetic process	L-threonine ammonia-lyase activity	mitochondrion
YLR203C	MSS51	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.143884684959995	6.22441764953875e-17	139	Specific translational activator for the mitochondrial COX1 mRNA; loosely associated with the matrix face of the mitochondrial inner membrane; influences both COX1 mRNA translation and Cox1p assembly into cytochrome c oxidase; binds to heme B, which may be a mechanism for sensing oxygen levels in order to regulate cytochrome c oxidase biogenesis	mitochondrial respiratory chain complex IV biogenesis|positive regulation of mitochondrial translation	translation regulator activity	extrinsic to mitochondrial inner membrane|mitochondrion
YPL237W	SUI3	het	FT	TRANSLATION|RIBOSOME	0.14381366055577	6.44836296427213e-17	140	Beta subunit of the translation initiation factor eIF2, involved in the identification of the start codon; proposed to be involved in mRNA binding	translational initiation	translation initiation factor activity	multi-eIF complex|ribosome|eukaryotic translation initiation factor 2 complex
YBR068C	BAP2	hom	FT	PLASMA MEMBRANE	0.143726252812621	6.73489223149292e-17	141	High-affinity leucine permease; functions as a branched-chain amino acid permease involved in uptake of leucine, isoleucine and valine; contains 12 predicted transmembrane domains; BAP2 has a paralog, BAP3, that arose from the whole genome duplication	amino acid transport|transmembrane transport	amino acid transmembrane transporter activity	integral to membrane|plasma membrane
YDR322C-A	TIM11	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.143441289941548	8.09312770919592e-17	142	Subunit e of mitochondrial F1F0-ATPase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; essential for the dimeric and oligomeric state of ATP synthase	protein oligomerization|cristae formation|ATP synthesis coupled proton transport	structural molecule activity|proton-transporting ATPase activity, rotational mechanism	mitochondrion|integral to membrane|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
YFL033C	RIM15	hom	FT	CELL CYCLE|SIGNALING|PROTEIN PHOSPHORYLATION|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.143203600119593	9.29743570312667e-17	143	Glucose-repressible protein kinase involved in signal transduction during cell proliferation in response to nutrients, specifically the establishment of stationary phase; identified as a regulator of IME2; substrate of Pho80p-Pho85p kinase	protein phosphorylation|age-dependent response to oxidative stress involved in chronological cell aging|response to stress|regulation of meiosis	protein serine/threonine kinase activity|protein kinase activity	nucleus|cytoplasm
YNR005C_d	YNR005C	hom			0.143078243538588	9.28849798144289e-17	144	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR377W	ATP17	hom	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.142729031631477	1.10387133455728e-16	145	Subunit f of the F0 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis	ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|ATPase activity|proton-transporting ATPase activity, rotational mechanism	mitochondrion|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
YOL127W	RPL25	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.140710721289669	2.968898149181e-16	146	Ribosomal 60S subunit protein L25; primary rRNA-binding ribosomal protein component of large ribosomal subunit; binds to 25S rRNA via a conserved C-terminal motif; homologous to mammalian ribosomal protein L23A and bacterial L23	cytoplasmic translation|ribosomal large subunit assembly	structural constituent of ribosome|RNA binding	cytosolic large ribosomal subunit
YPL078C	ATP4	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.140316804476787	3.59528440890008e-16	147	Subunit b of the stator stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; contributes to the oligomerization of the complex; phosphorylated	protein complex oligomerization|ATP synthesis coupled proton transport	proton-transporting ATPase activity, rotational mechanism	mitochondrion|mitochondrial proton-transporting ATP synthase, stator stalk|integral to membrane
YNL084C	END3	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CELL DIVISION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.140145334424079	3.90705135256811e-16	148	EH domain-containing protein involved in endocytosis, actin cytoskeletal organization and cell wall morphogenesis; forms a complex with Sla1p and Pan1p	bipolar cellular bud site selection|ascospore wall assembly|endocytosis|actin filament organization|cytokinesis|actin cortical patch assembly	protein binding, bridging	mating projection tip|actin cortical patch
YEL024W	RIP1	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.139830956977797	4.83120281595213e-16	149	Ubiquinol-cytochrome-c reductase, a Rieske iron-sulfur protein of the mitochondrial cytochrome bc1 complex; transfers electrons from ubiquinol to cytochrome c1 during respiration; during import, Rip1p is first imported into the mitochondrial matrix where it is processed, acquires its Fe-S cluster, and is folded, then is translocated into the inner membrane by the action of a homo-oligomer of Bcs1p, and finally is delivered by Bcs1p to Complex III for assembly	mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration	ubiquinol-cytochrome-c reductase activity	mitochondrion|mitochondrial respiratory chain complex III
YCR075W-A_p	YCR075W-A	hom			0.13972944894722	4.77814581379393e-16	150	Putative protein of unknown function; identified by homology to Ashbya gossypii; YCR075W-A has a paralog, YNR034W-A, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YGL116W	CDC20	het	FF|FT	CELL CYCLE|CELL DIVISION|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.139565420354707	5.17204714444439e-16	151	Activator of anaphase-promoting complex/cyclosome (APC/C); APC/C is required for metaphase/anaphase transition; directs ubiquitination of mitotic cyclins, Pds1p, and other anaphase inhibitors; cell-cycle regulated; potential Cdc28p substrate; relative distribution to the nucleus increases upon DNA replication stress	spindle checkpoint|activation of mitotic anaphase-promoting complex activity|meiotic anaphase I|positive regulation of protein catabolic process|activation of anaphase-promoting complex activity involved in meiotic cell cycle|positive regulation of mitotic metaphase/anaphase transition|cyclin catabolic process	anaphase-promoting complex binding|ubiquitin-protein ligase activator activity	mitotic checkpoint complex|anaphase-promoting complex
YNR042W_d	YNR042W	hom			0.13830344214522	9.48378543985867e-16	152	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps verified gene COQ2	Unknown	Unknown	Unknown
YDR462W	MRPL28	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.137945590229647	1.12514877062669e-15	153	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YPR191W	QCR2	hom	FT	OXIDATION-REDUCTION PROCESS|PROTEOLYSIS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.137842994915336	1.18155841948249e-15	154	Subunit 2 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; phosphorylated; transcription is regulated by Hap1p, Hap2p/Hap3p, and heme	mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration	ubiquinol-cytochrome-c reductase activity	mitochondrion|integral to membrane|mitochondrial crista|mitochondrial respiratory chain complex III
YNL184C_p	YNL184C	hom			0.137182033600718	1.61786919046653e-15	155	Protein of unknown function; expressed at both mRNA and protein levels	biological_process	molecular_function	cellular_component
YBL008W-A_p	YBL008W-A	hom			0.136999279361423	1.86908913855954e-15	156	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YDR049W	VMS1	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.136561020968344	2.17059704630676e-15	157	Component of a Cdc48p-complex involved in protein quality control; exhibits cytosolic and ER-membrane localization, with Cdc48p, during normal growth, and contributes to ER-associated degradation (ERAD) of specific substrates at a step after their ubiquitination; forms a mitochondrially-associated complex with Cdc48p and Npl4p under oxidative stress that is required for ubiquitin-mediated mitochondria-associated protein degradation (MAD); conserved in C. elegans and humans	ER-associated protein catabolic process|mitochondria-associated protein catabolic process|nucleus-associated proteasomal ubiquitin-dependent protein catabolic process	molecular_function	cytosol|mitochondrion|endoplasmic reticulum membrane|Cdc48p-Npl4p-Vms1p AAA ATPase complex|cytoplasm
YLR134W	PDC5	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.135717453680115	3.22865185154784e-15	158	Minor isoform of pyruvate decarboxylase, key enzyme in alcoholic fermentation, decarboxylates pyruvate to acetaldehyde, regulation is glucose- and ethanol-dependent, repressed by thiamine, involved in amino acid catabolism	L-phenylalanine catabolic process|glucose catabolic process to ethanol|pyruvate metabolic process|tryptophan catabolic process|aromatic amino acid family catabolic process to alcohol via Ehrlich pathway	pyruvate decarboxylase activity	nucleus|cytoplasm
YDL032W_d	YDL032W	hom			0.135364700752205	3.80900680904219e-15	159	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene SLM3/YDL033C; YDL032W is not an essential gene	Unknown	Unknown	Unknown
YLR369W	SSQ1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|COFACTOR METABOLISM|MITOCHONDRION	0.135269723137314	3.9820707443601e-15	160	Mitochondrial hsp70-type molecular chaperone, required for assembly of iron/sulfur clusters into proteins at a step after cluster synthesis, and for maturation of Yfh1p, which is a homolog of human frataxin implicated in Friedreich's ataxia	iron-sulfur cluster assembly|intracellular sequestering of iron ion|protein maturation	unfolded protein binding	mitochondrion|mitochondrial matrix
YGR257C	MTM1	hom	FF|FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.134732774030208	5.16403364176195e-15	161	Mitochondrial protein of the mitochondrial carrier family, involved in activating mitochondrial Sod2p probably by facilitating insertion of an essential manganese cofactor	manganese ion transport|transport	transporter activity|metallochaperone activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YIL041W	GVP36	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.134137026443025	7.00193812164093e-15	162	BAR domain-containing protein that localizes to both early and late Golgi vesicles; required for adaptation to varying nutrient concentrations, fluid-phase endocytosis, polarization of the actin cytoskeleton, and vacuole biogenesis	vacuole organization|endocytosis|establishment or maintenance of actin cytoskeleton polarity	molecular_function	integral to Golgi membrane|cytoplasm
YPL165C	SET6	hom			0.134127536987795	6.77807794811849e-15	163	SET domain protein of unknown function; deletion heterozygote is sensitive to compounds that target ergosterol biosynthesis, may be involved in compound availability	biological_process	molecular_function	cellular_component
YMR072W	ABF2	hom	FT	MITOCHONDRION ORGANIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.133910240749097	7.49600346445852e-15	164	Mitochondrial DNA-binding protein involved in mitochondrial DNA replication and recombination, member of HMG1 DNA-binding protein family; activity may be regulated by protein kinase A phosphorylation	mitochondrion inheritance|mitochondrial DNA packaging|mitochondrial genome maintenance	DNA binding, bending|DNA binding	mitochondrial nucleoid|mitochondrial chromosome|mitochondrion
YBR078W	ECM33	hom	FF|FT	CELL WALL ORG/BIOGENESIS|MITOCHONDRION|PLASMA MEMBRANE	0.133843866250328	7.72985052395956e-15	165	GPI-anchored protein of unknown function, has a possible role in apical bud growth; GPI-anchoring on the plasma membrane crucial to function; phosphorylated in mitochondria; similar to Sps2p and Pst1p	fungal-type cell wall organization	molecular_function	mitochondrion|fungal-type cell wall|plasma membrane
YHL004W	MRP4	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.132488999890616	1.44227213446449e-14	166	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome|tRNA binding	mitochondrion|mitochondrial small ribosomal subunit
YOL067C	RTG1	hom	FT	TRANSCRIPTION FROM RNA POL II|SIGNALING|NUCLEUS	0.132469892177082	1.45494838295011e-14	167	Transcription factor (bHLH) involved in interorganelle communication between mitochondria, peroxisomes, and nucleus	cellular response to oleic acid|positive regulation of transcription from RNA polymerase II promoter|mitochondria-nucleus signaling pathway	sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus|cytoplasm
YGR070W	ROM1	hom	FT	SIGNALING|NUCLEOTIDE METABOLISM	0.132217049944923	1.70823271195584e-14	168	GDP/GTP exchange protein (GEP) for Rho1p; mutations are synthetically lethal with mutations in rom2, which also encodes a GEP	small GTPase mediated signal transduction|activation of Rho GTPase activity	Rho guanyl-nucleotide exchange factor activity	intracellular
YFR019W	FAB1	hom	FT	LIPID METABOLISM|MITOCHONDRION	0.131461553413468	2.38787545832509e-14	169	1-phosphatidylinositol-3-phosphate 5-kinase; vacuolar membrane kinase that generates phosphatidylinositol (3,5)P2, which is involved in vacuolar sorting and homeostasis	phosphatidylinositol phosphorylation	1-phosphatidylinositol-3-phosphate 5-kinase activity|phosphatidylinositol-3-phosphate binding	endosome membrane|mitochondrion|fungal-type vacuole membrane|PAS complex
YJR144W	MGM101	hom	FT	RESPONSE TO DNA DAMAGE|MITOCHONDRION ORGANIZATION|MITOCHONDRION|CHROMOSOME	0.130860897919998	3.10692913494887e-14	170	Protein with a role in mitochondrial DNA recombinational repair;also involved in interstrand cross-link repair; binds to and catalyzes the annealing of single-stranded mtDNA; oligomerizes to form rings and filaments; related to Rad52-type recombination proteins, with limited overall similarity but sharing conserved functionally important residues; component of the mitochondrial nucleoid, required for the repair of oxidative mtDNA damage	DNA repair|recombinational repair|DNA strand renaturation	molecular_function	mitochondrial nucleoid|mitochondrion
YHR070W	TRM5	het	FT	RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.130590860887677	3.57170663903198e-14	171	tRNA(m(1)G37)methyltransferase, methylates a tRNA base adjacent to the anticodon that has a role in prevention of frameshifting; highly conserved across Archaea, Bacteria, and Eukarya	tRNA methylation	tRNA (guanine) methyltransferase activity	nucleus|mitochondrial matrix|cytoplasm
YHL005C_d	YHL005C	hom			0.130444231919471	3.68472374616546e-14	172	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YHL004W	Unknown	Unknown	Unknown
YOR196C	LIP5	hom	FT	KETONE METABOLISM|LIPID METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.130334805365592	3.83738157000073e-14	173	Protein involved in biosynthesis of the coenzyme lipoic acid, has similarity to E. coli lipoic acid synthase	protein lipoylation	lipoate synthase activity	mitochondrion
YGR062C	COX18	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.129571433158699	5.4070450882303e-14	174	Mitochondrial integral inner membrane protein required for membrane insertion of C-terminus of Cox2p; interacts genetically and physically with Mss2p and Pnt1p; similar to S. cerevisiae Oxa1, N. crassa Oxa2p, and E. coli YidC	protein insertion into mitochondrial membrane from inner side	membrane insertase activity	integral to membrane|integral to mitochondrial inner membrane
YPR120C	CLB5	hom	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.129387331864003	5.87144341473606e-14	175	B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1 phase	spindle assembly|G1/S transition of mitotic cell cycle|regulation of S phase of mitotic cell cycle|G2/M transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity|positive regulation of spindle pole body separation|premeiotic DNA replication|positive regulation of DNA replication	cyclin-dependent protein kinase regulator activity	nucleus
YLR058C	SHM2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|SITE OF POLARIZED GROWTH	0.129185996637101	6.53515933273295e-14	176	Cytosolic serine hydroxymethyltransferase, converts serine to glycine plus 5,10 methylenetetrahydrofolate; major isoform involved in generating precursors for purine, pyrimidine, amino acid, and lipid biosynthesis	one-carbon metabolic process	glycine hydroxymethyltransferase activity	plasma membrane|mating projection tip|cytoplasm
YLL043W	FPS1	hom	FT	ION HOMEOSTASIS|CARBOHYDRATE METABOLISM|ION HOMEOSTASIS|PLASMA MEMBRANE	0.128873131350596	7.38623931132764e-14	177	Plasma membrane channel, member of major intrinsic protein (MIP) family; involved in efflux of glycerol and in uptake of acetic acid and the trivalent metalloids arsenite and antimonite; phosphorylated by Hog1p MAPK under acetate stress	conjugation with cellular fusion|transport|arsenite transport|glycerol transport|acetate transport|response to arsenic-containing substance	glycerol transmembrane transporter activity|transporter activity	integral to membrane|plasma membrane|fungal-type vacuole|cytoplasm
YCL057C-A	MOS1	hom	FT	MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.128548757033635	8.53295559965095e-14	178	Mitochondrial protein essential for proper inner membrane organization; conserved component of the mitochondrial inner membrane organizing system (MICOS, MINOS, or MitOS), a scaffold-like structure on the intermembrane space side of the inner membrane which has a role in the maintenance of crista junctions and inner membrane architecture; ortholog of human MINOS1	cristae formation	molecular_function	mitochondrion|mitochondrial crista junction|integral to mitochondrial inner membrane
YGR255C	COQ6	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|COFACTOR METABOLISM|MITOCHONDRION	0.128419251916415	9.03812891681072e-14	179	Putative flavin-dependent monooxygenase; involved in ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes; human COX6 can rescue a yeast cox6 mutant and is implicated in steroid-resistant nephrotic syndrome (SRNS)	ubiquinone biosynthetic process	N,N-dimethylaniline monooxygenase activity	mitochondrion|mitochondrial inner membrane
YPL197C_d	YPL197C	hom			0.128245087166775	1.02710675111707e-13	180	Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data; partially overlaps the ribosomal gene RPB7B	Unknown	Unknown	Unknown
YGR156W	PTI1	het	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.127633576094679	1.27961882416327e-13	181	Essential protein that is a component of CPF (cleavage and polyadenylation factor); involved in 3' end formation of snoRNA and mRNA; interacts directly with Pta1p; has similarity to mammalian Cleavage-Stimulation Factor CstF-64	termination of RNA polymerase II transcription, exosome-dependent|mRNA cleavage|termination of RNA polymerase II transcription, poly(A)-coupled|mRNA polyadenylation|snoRNA 3'-end processing	RNA binding	mRNA cleavage and polyadenylation specificity factor complex|nucleus
YJL156C	SSY5	het	FT	PROTEOLYSIS|PLASMA MEMBRANE	0.127610812606441	1.30337647749585e-13	182	Serine protease of SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p); contains an inhibitory domain that dissociates in response to extracellular amino acids, freeing a catalytic domain to activate transcription factor Stp1p	protein processing|response to amino acid stimulus	serine-type endopeptidase activity	extrinsic to plasma membrane
YBL103C	RTG3	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|SIGNALING|NUCLEUS	0.127204219749179	1.54599797175861e-13	183	Basic helix-loop-helix-leucine zipper (bHLH/Zip) transcription factor that forms a complex with another bHLH/Zip protein, Rtg1p, to activate the retrograde (RTG) and TOR pathways	mitochondrion degradation|cellular response to oleic acid|mitochondria-nucleus signaling pathway|positive regulation of transcription from RNA polymerase II promoter|transcription factor import into nucleus	RNA polymerase II transcription factor binding|sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus|cytoplasm
YDL069C	CBS1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.127174184250829	1.64651264415447e-13	184	Mitochondrial translational activator of the COB mRNA; membrane protein that interacts with translating ribosomes, acts on the COB mRNA 5'-untranslated leader	mitochondrial respiratory chain complex III biogenesis|positive regulation of mitochondrial translation	translation regulator activity	extrinsic to mitochondrial inner membrane|mitochondrion|mitochondrial ribosome
YPR166C	MRP2	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.126314249333343	2.28330717485598e-13	185	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YPL262W	FUM1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.125916028146575	2.97046767284186e-13	186	Fumarase, converts fumaric acid to L-malic acid in the TCA cycle; cytosolic and mitochondrial distribution determined by the N-terminal targeting sequence, protein conformation, and status of glyoxylate shunt; phosphorylated in mitochondria	fumarate metabolic process|tricarboxylic acid cycle	fumarate hydratase activity	cytosol|mitochondrion|mitochondrial matrix
YLR027C	AAT2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.125568505594112	3.15907957372958e-13	187	Cytosolic aspartate aminotransferase, involved in nitrogen metabolism; localizes to peroxisomes in oleate-grown cells	aspartate biosynthetic process	L-aspartate:2-oxoglutarate aminotransferase activity	cytosol|peroxisome
YPR059C_d	YPR059C	hom			0.125416506992143	3.51337070143232e-13	188	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YMC1/YPR058W	Unknown	Unknown	Unknown
YDR458C	HEH2	hom	FT	ENDOMEMBRANE SYSTEM|NUCLEUS	0.124794054549931	4.59683353273465e-13	189	Inner nuclear membrane (INM) protein; contains helix-extension-helix (HEH) motif, nuclear localization signal sequence; targeting to the INM requires the Srp1p-Kap95p karyopherins and the Ran cycle	biological_process	molecular_function	nuclear envelope
YDL142C	CRD1	hom	FT	LIPID METABOLISM|MEMBRANE ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.124473344953092	5.07120731590146e-13	190	Cardiolipin synthase; produces cardiolipin, which is a phospholipid of the mitochondrial inner membrane that is required for normal mitochondrial membrane potential and function; also required for normal vacuolar ion homeostasis	lipid biosynthetic process|cellular ion homeostasis|mitochondrial membrane organization	cardiolipin synthase activity	mitochondrion|integral to membrane
YNR020C	ATP23	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.124161123673081	5.79940662848262e-13	191	Putative metalloprotease of the mitochondrial inner membrane, required for processing of Atp6p; has an additional role in assembly of the F0 sector of the F1F0 ATP synthase complex; substrate of the Mia40p-Erv1p disulfide relay system, and folding is assisted by Mia40p	protein processing|mitochondrial proton-transporting ATP synthase complex assembly	metalloendopeptidase activity	mitochondrial inner membrane|mitochondrial intermembrane space
YMR098C	ATP25	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.123958447347366	6.79141291690643e-13	192	Mitochondrial protein required for the stability of Oli1p (Atp9p) mRNA and for the Oli1p ring formation; YMR098C is not an essential gene	mRNA stabilization|mitochondrial proton-transporting ATP synthase complex assembly	molecular_function	mitochondrion|mitochondrial inner membrane
YHL029C_p	OCA5	hom	FT	SIGNALING|NUCLEOTIDE METABOLISM	0.123934237992207	6.39201083604555e-13	193	Cytoplasmic protein required for replication of Brome mosaic virus in S. cerevisiae, which is a model system for studying replication of positive-strand RNA viruses in their natural hosts	biological_process	molecular_function	cytoplasm
YGR161C_p	RTS3	hom	FT	NUCLEUS	0.123580244219576	7.43720401623752e-13	194	Putative component of the protein phosphatase type 2A complex	biological_process	molecular_function	nucleus|cytoplasm
YHR149C	SKG6	hom	FT	SITE OF POLARIZED GROWTH	0.123095206019126	9.14589037528485e-13	195	Integral membrane protein that localizes primarily to growing sites such as the bud tip or the cell periphery; potential Cdc28p substrate; Skg6p interacts with Zds1p and Zds2p	biological_process	molecular_function	cell cortex|incipient cellular bud site|integral to membrane|cellular bud neck|cellular bud tip
YML081C-A	ATP18	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.122648706420326	1.10559325946549e-12	196	Subunit of the mitochondrial F1F0 ATP synthase, which is a large enzyme complex required for ATP synthesis; termed subunit I or subunit j; does not correspond to known ATP synthase subunits in other organisms	mitochondrial proton-transporting ATP synthase complex assembly|ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism	mitochondrion|mitochondrial proton-transporting ATP synthase complex|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
YHR013C	ARD1	hom	FT	CHROMATIN ORGANIZATION|RIBOSOME	0.122454776348989	1.20026882867296e-12	197	Subunit of protein N-terminal acetyltransferase NatA; NatA is comprised of Nat1p, Ard1p, and Nat5p; acetylates many proteins and thus affects telomeric silencing, cell cycle, heat-shock resistance, mating, and sporulation; human Ard1p levels are elevated in cancer cells; protein abundance increases in response to DNA replication stress	histone acetylation|N-terminal protein amino acid acetylation	peptide alpha-N-acetyltransferase activity	cytosolic ribosome|NatA complex
YER099C	PRS2	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM	0.122338364772686	1.34081614528869e-12	198	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; PRS2 has a paralog, PRS4, that arose from the whole genome duplication	fungal-type cell wall organization|5-phosphoribose 1-diphosphate biosynthetic process	ribose phosphate diphosphokinase activity	cytoplasm
YJL005W	CYR1	het	FT	SIGNALING|NUCLEOTIDE METABOLISM|MITOCHONDRION|PLASMA MEMBRANE	0.122066135122165	1.41455422655399e-12	199	Adenylate cyclase, required for cAMP production and cAMP-dependent protein kinase signaling; the cAMP pathway controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation	adenylate cyclase-modulating G-protein coupled receptor signaling pathway|Ras protein signal transduction	adenylate cyclase activity	mitochondrion|plasma membrane
YKR095W	MLP1	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|CYTOSKELETON	0.122034101070629	1.43380433929674e-12	200	Myosin-like protein associated with the nuclear envelope, connects the nuclear pore complex with the nuclear interior; involved with Tel1p in telomere length control; involved with Pml1p and Pml39p in nuclear retention of unspliced mRNAs	protein localization to nuclear pore|poly(A)+ mRNA export from nucleus|protein import into nucleus|transcriptional activation by promoter-terminator looping|nuclear retention of unspliced pre-mRNA at the site of transcription|telomere tethering at nuclear periphery	ribonucleoprotein complex binding	nucleoplasm|nuclear envelope|integral to membrane|ribonucleoprotein complex|spindle pole body
YDL198C	GGC1	hom	FT	ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.121755291619376	1.67512267530571e-12	201	Mitochondrial GTP/GDP transporter, essential for mitochondrial genome maintenance; has a role in mitochondrial iron transport; member of the mitochondrial carrier family	cellular iron ion homeostasis|mitochondrial genome maintenance|transmembrane transport|guanine nucleotide transport	guanine nucleotide transmembrane transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YOR200W_d	YOR200W	hom			0.121715790700151	1.63959878938693e-12	202	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRM1/YOR201c	Unknown	Unknown	Unknown
YGL064C	MRH4	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|MITOCHONDRION	0.121703832548826	1.64786970308356e-12	203	Mitochondrial ATP-dependent RNA helicase of the DEAD-box family, plays an essential role in mitochondrial function	RNA metabolic process	RNA helicase activity	mitochondrion
YJR034W	PET191	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.120718419801062	2.49039665874722e-12	204	Protein required for assembly of cytochrome c oxidase; exists as an oligomer; described as both an integral mitochondrial inner membrane protein facing the intermembrane space (IMS) and as a soluble IMS protein; contains a twin Cx9C motif; imported into the IMS via the MIA import machinery	mitochondrial respiratory chain complex IV assembly	molecular_function	mitochondrion|integral to mitochondrial inner membrane
YFL001W	DEG1	hom	FT	RNA PROCESSING|NUCLEUS	0.120350157786967	3.10454893747461e-12	205	tRNA:pseudouridine synthase, introduces pseudouridines at position 38 or 39 in tRNA, important for maintenance of translation efficiency and normal cell growth, localizes to both the nucleus and cytoplasm; non-essential for viability	tRNA pseudouridine synthesis	pseudouridine synthase activity	nucleus|cytoplasm
YGR222W	PET54	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.119983103838982	3.45770422472275e-12	206	Mitochondrial inner membrane protein; binds to the 5' UTR of the COX3 mRNA to activate its translation together with Pet122p and Pet494p; also binds to the COX1 Group I intron AI5 beta to facilitate exon ligation during splicing	Group I intron splicing|positive regulation of mitochondrial translation|mitochondrial respiratory chain complex IV biogenesis	translation regulator activity|RNA binding	mitochondrion|extrinsic to mitochondrial inner membrane|mitochondrial inner membrane|mitochondrial matrix
YJL127C-B_p	YJL127C-B	hom			0.119695217514756	3.98233566332057e-12	207	Putative protein of unknown function; identified based on homology to the filamentous fungus, <i>Ashbya gossypii</i>	biological_process	molecular_function	cellular_component
YHR172W	SPC97	het	FT	CYTOSKELETON ORGANIZATION|NUCLEUS|CYTOSKELETON	0.119274342136348	4.66846702411963e-12	208	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque	microtubule nucleation	structural constituent of cytoskeleton	outer plaque of spindle pole body|gamma-tubulin small complex, spindle pole body|inner plaque of spindle pole body
YDR069C	DOA4	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|PROTEOLYSIS|MITOCHONDRION	0.119121021899349	4.82973353890709e-12	209	Ubiquitin isopeptidase, required for recycling ubiquitin from proteasome-bound ubiquitinated intermediates, acts at the late endosome/prevacuolar compartment to recover ubiquitin from ubiquitinated membrane proteins en route to the vacuole	protein deubiquitination|endocytosis|regulation of DNA replication|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|free ubiquitin chain depolymerization|ubiquitin homeostasis|ubiquitin-dependent protein catabolic process	endopeptidase activity|ubiquitin-specific protease activity|ubiquitin thiolesterase activity	endosome|proteasome complex|mitochondrion
YGR027C	RPS25A	hom	FT	TRANSLATION|RIBOSOME	0.11895235937318	5.17694778834421e-12	210	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S25, no bacterial homolog; RPS25A has a paralog, RPS25B, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic small ribosomal subunit
YJL085W	EXO70	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|SITE OF POLARIZED GROWTH	0.118728544018215	5.88498033330269e-12	211	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in an actin-independent manner, targeting and anchoring the exocyst with Sec3p; involved in exocyst assembly; direct downstream effector of Rho3p and Cdc42p; relocalizes from bud neck to cytoplasm upon DNA replication stress	Golgi to plasma membrane transport|exocytosis|exocyst localization|exocyst assembly|vesicle fusion|vesicle docking involved in exocytosis	Rho GTPase binding|phosphatidylinositol-4,5-bisphosphate binding	incipient cellular bud site|cellular bud neck|mating projection tip|cellular bud tip|exocyst
YPR024W	YME1	hom	FT	PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.11774617947234	8.72645668886866e-12	212	Catalytic subunit of the mitochondrial inner membrane i-AAA protease complex, which is responsible for degradation of unfolded or misfolded mitochondrial gene products; also has a role in intermembrane space protein folding; mutation causes an elevated rate of mitochondrial turnover	chronological cell aging|misfolded or incompletely synthesized protein catabolic process|mitochondrion organization	ATP-dependent peptidase activity	mitochondrion|mitochondrial inner membrane|i-AAA complex
YOR150W	MRPL23	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.117021563072474	1.13819398543299e-11	213	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YPL277C_p	YPL277C	hom			0.11666707482699	1.36026351782481e-11	214	Putative protein of unknown function; localized to the membranes; gene expression regulated by copper levels	biological_process	molecular_function	membrane
YBL071C_d	YBL071C	hom			0.116369886864596	1.48062693103432e-11	215	Dubious open reading frame, predicted protein contains a peroxisomal targeting signal	Unknown	Unknown	Unknown
YJL065C	DLS1	hom	FT	GENE SILENCING|NUCLEUS	0.115705065937983	1.98740573373256e-11	216	Subunit of ISW2/yCHRAC chromatin accessibility complex; ISW2/yCHRAC also includes Itc1p, Isw2p, and Dpb4p; involved in inheritance of telomeric silencing; DLS1 has a paralog, DPB3, that arose from the whole genome duplication	chromatin silencing at telomere	molecular_function	chromatin accessibility complex|nucleus
YML018C	YML018C	hom			0.115637710340307	2.0557140207365e-11	217	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of the vacuole; physical interaction with Atg27p suggests a possible role in autophagy; YML018C is not an essential gene; relative distribution to the vacuolar membrane decreases upon DNA replication stress; YML018C has a paralog, THI74, that arose from the whole genome duplication	biological_process	molecular_function	fungal-type vacuole membrane|integral to membrane
YOR293C-A_p	YOR293C-A	hom			0.115361474219281	2.218014168608e-11	218	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YBR182C-A_p	YBR182C-A	hom			0.114928286557046	2.72676829326698e-11	219	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YMR109W	MYO5	hom	FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CELL DIVISION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.114431062991191	3.21048007532463e-11	220	One of two type I myosins; contains proline-rich tail homology 2 (TH2) and SH3 domains; MYO5 deletion has little effect on growth, but myo3 myo5 double deletion causes severe defects in growth and actin cytoskeleton organization	bipolar cellular bud site selection|endocytosis|exocytosis|fungal-type cell wall organization|response to salt stress|receptor-mediated endocytosis|actin cortical patch localization|response to osmotic stress	microfilament motor activity	mating projection tip|actin cortical patch
YER003C	PMI40	het	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|NUCLEUS	0.114208459445511	3.50594676341199e-11	221	Mannose-6-phosphate isomerase, catalyzes the interconversion of fructose-6-P and mannose-6-P; required for early steps in protein mannosylation	protein glycosylation|cell wall mannoprotein biosynthetic process|GDP-mannose biosynthetic process	mannose-6-phosphate isomerase activity	nucleus|cytoplasm
YIL046W-A_p	YIL046W-A	hom			0.114183245930044	3.5410452324965e-11	222	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YNL052W	COX5A	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.113423795154588	4.77526896941909e-11	223	Subunit Va of cytochrome c oxidase; cytochrome c oxidase is the terminal member of the mitochondrial inner membrane electron transport chain; Cox5Ap is predominantly expressed during aerobic growth while its isoform Vb (Cox5Bp) is expressed during anaerobic growth; COX5A has a paralog, COX5B, that arose from the whole genome duplication	mitochondrial electron transport, cytochrome c to oxygen	cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YBL080C	PET112	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.113378918879071	4.86009772262921e-11	224	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; mutation is functionally complemented by the bacterial GatB ortholog	glutaminyl-tRNAGln biosynthesis via transamidation|mitochondrial translation	glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity	mitochondrion|glutamyl-tRNA(Gln) amidotransferase complex
YOL128C	YGK3	hom	FT	PROTEOLYSIS|PROTEIN PHOSPHORYLATION	0.113340188341196	4.93449261577476e-11	225	Protein kinase related to mammalian glycogen synthase kinases of the GSK-3 family; GSK-3 homologs (Mck1p, Rim11p, Mrk1p, Ygk3p) are involved in control of Msn2p-dependent transcription of stress responsive genes and in protein degradation	proteolysis|protein phosphorylation|response to stress	protein serine/threonine kinase activity|protein kinase activity	cellular_component
YKR016W	FCJ1	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.113008021046674	5.61997023046960e-11	226	Mitochondrial inner membrane protein, ortholog of mammalian mitofilin; involved in import of intermembrane space (IMS) proteins, probably by positioning Mia40p relative to the TOM complex to receive incoming proteins; also has an essential role in the maintenance of crista junctions and inner membrane architecture, as a component of the mitochondrial inner membrane organizing system (MICOS, MitOS or MINOS), a scaffold-like structure on the IMS side of the inner membrane	cristae formation|protein import into mitochondrial intermembrane space	molecular_function	mitochondrion|mitochondrial inner membrane|mitochondrial crista|mitochondrial crista junction|integral to mitochondrial inner membrane
YLR436C	ECM30	hom	FT	CELL WALL ORG/BIOGENESIS	0.112465735317058	6.94400117371916e-11	227	Putative protein of unknown function; may play a role in cell wall biosynthesis, mutants have abormal relative levels of mannose and glucose and have Gap1p sorting and transport defects; (GFP)-fusion protein localizes to the cytoplasm	fungal-type cell wall organization	molecular_function	cytoplasm
YIL022W	TIM44	het	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.112401196787399	7.1205767650086e-11	228	Essential component of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); tethers the import motor and regulatory factors (PAM complex) to the translocation channel (Tim23p-Tim17p core complex)	protein import into mitochondrial matrix	protein binding, bridging|chaperone binding	mitochondrion|integral to membrane|presequence translocase-associated import motor
YGL002W	ERP6	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.11211830987822	8.20898481526915e-11	229	Member of the p24 family involved in ER to Golgi transport; similar to Emp24p and Erv25p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; ERP6 has a paralog, ERP1, that arose from the whole genome duplication	ER to Golgi vesicle-mediated transport	molecular_function	mitochondrion|integral to membrane
YFL013W-A_d	YFL013W-A	hom			0.111726221629025	1.01870923925104e-10	230	Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps IES1/YFL013C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching	Unknown	Unknown	Unknown
YOR337W	TEA1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.111562435225722	1.00468696445992e-10	231	Ty1 enhancer activator required for full levels of Ty enhancer-mediated transcription; C6 zinc cluster DNA-binding protein	transcription, DNA-dependent	sequence-specific DNA binding|DNA binding	nucleus
YNL005C	MRP7	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.111339608199733	1.08089882711883e-10	232	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome|peptidyltransferase activity	mitochondrion|mitochondrial large ribosomal subunit
YDL023C_d	YDL023C	hom			0.111099188642081	1.17817024997325e-10	233	Dubious open reading frame, unlikely to encode a protein; not conserved in other Saccharomyces species; overlaps the verified gene GPD1; deletion confers sensitivity to GSAO; deletion in cyr1 mutant results in loss of stress resistance	Unknown	Unknown	Unknown
YHR067W	HTD2	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.111069939276146	1.19149495887303e-10	234	Mitochondrial 3-hydroxyacyl-thioester dehydratase involved in fatty acid biosynthesis, required for respiratory growth and for normal mitochondrial morphology	fatty acid biosynthetic process	3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity	mitochondrion
YDR417C_d	YDR417C	hom			0.110712271196992	1.36683077733851e-10	235	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RPL12B/YDR418W	Unknown	Unknown	Unknown
YLR044C	PDC1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.110563108685208	1.44718510711732e-10	236	Major of three pyruvate decarboxylase isozymes, key enzyme in alcoholic fermentation, decarboxylates pyruvate to acetaldehyde; subject to glucose-, ethanol-, and autoregulation; involved in amino acid catabolism	L-phenylalanine catabolic process|pyruvate metabolic process|glucose catabolic process to ethanol|tryptophan catabolic process|aromatic amino acid family catabolic process to alcohol via Ehrlich pathway	pyruvate decarboxylase activity	cytosol|nucleus|cytoplasm
YLL033W	IRC19	hom			0.110527704845868	1.46692456695275e-10	237	Putative protein of unknown function; YLL033W is not an essential gene but mutant is defective in spore formation; null mutant displays increased levels of spontaneous Rad52p foci	mitotic recombination|ascospore formation	molecular_function	cellular_component
YIL019W	FAF1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.110445449455269	1.52334321240484e-10	238	Protein required for pre-rRNA processing and 40S ribosomal subunit assembly	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	nucleolus|nucleus|cytoplasm
YOR305W	RRG7	hom	FT	MITOCHONDRION	0.109921846994272	1.8484502839535e-10	239	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YOR305W is not an essential gene	biological_process	molecular_function	mitochondrion
YDL202W	MRPL11	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.109314054735234	2.32800990114646e-10	240	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDR116C	MRPL1	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.109126592736229	2.49903732897375e-10	241	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YJR122W	IBA57	hom	FF|FT	COFACTOR METABOLISM|MITOCHONDRION	0.108981921820352	2.78873634195573e-10	242	Mitochondrial matrix protein involved in the incorporation of iron-sulfur clusters into mitochondrial aconitase-type proteins; activates the radical-SAM family members Bio2p and Lip5p; interacts with Ccr4p in the two-hybrid system	iron-sulfur cluster assembly	molecular_function	mitochondrion|mitochondrial matrix
YKL137W	CMC1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.108699363987556	2.93592906880338e-10	243	Evolutionarily conserved copper-binding protein of the mitochondrial intermembrane space, may be involved in delivering copper from the matrix to the cytochrome c oxidase complex; contains a twin CX9C motif	mitochondrial respiratory chain complex IV assembly	copper ion binding	extrinsic to mitochondrial inner membrane|mitochondrial intermembrane space
YNL288W	CAF40	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.108508202471614	3.15476904865999e-10	244	Evolutionarily conserved subunit of the CCR4-NOT complex involved in controlling mRNA initiation, elongation and degradation; binds Cdc39p	positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	molecular_function	CCR4-NOT core complex
YIL125W	KGD1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.108289517908795	3.42467153063634e-10	245	Component of the mitochondrial alpha-ketoglutarate dehydrogenase complex, which catalyzes a key step in the tricarboxylic acid (TCA) cycle, the oxidative decarboxylation of alpha-ketoglutarate to form succinyl-CoA	tricarboxylic acid cycle|2-oxoglutarate metabolic process	oxoglutarate dehydrogenase (succinyl-transferring) activity	mitochondrial nucleoid|mitochondrion|mitochondrial matrix|mitochondrial oxoglutarate dehydrogenase complex
YOR278W	HEM4	het	FT	COFACTOR METABOLISM	0.108211532671404	3.52626994112037e-10	246	Uroporphyrinogen III synthase, catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen III, the fourth step in heme biosynthesis; deficiency in the human homolog can result in the disease congenital erythropoietic porphyria	heme biosynthetic process	uroporphyrinogen-III synthase activity	cellular_component
YGL215W	CLG1	hom	FT	CELL CYCLE|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS	0.107735483445435	4.23860999299205e-10	247	Cyclin-like protein that interacts with Pho85p; has sequence similarity to G1 cyclins PCL1 and PCL2	positive regulation of macroautophagy	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex
YBR037C	SCO1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.107563058922645	4.49309841651239e-10	248	Copper-binding protein of mitochondrial inner membrane; required for cytochrome c oxidase activity and respiration; may function to deliver copper to cytochrome c oxidase; similar to thioredoxins; SCO1 has a paralog, SCO2, that arose from the whole genome duplication	copper ion transport|response to redox state|protein complex assembly	copper ion binding|thioredoxin peroxidase activity	mitochondrion|mitochondrial inner membrane
YOR132W	VPS17	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM	0.107423606692823	4.73254348291908e-10	249	Subunit of the membrane-associated retromer complex essential for endosome-to-Golgi retrograde protein transport; peripheral membrane protein that assembles onto the membrane with Vps5p to promote vesicle formation; required for recruiting the retromer complex to the endosome membranes	retrograde transport, endosome to Golgi	protein transporter activity|phosphatidylinositol-3-phosphate binding	endosome|retromer complex, outer shell|retromer complex
YIL046W	MET30	het	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|CELL CYCLE|AMINO ACID METABOLISM|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.105466596737588	9.79512767983178e-10	250	F-box protein containing five copies of the WD40 motif, controls cell cycle function, sulfur metabolism, and methionine biosynthesis as part of the ubiquitin ligase complex; interacts with and regulates Met4p, localizes within the nucleus	response to cadmium ion|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|regulation of DNA-dependent DNA replication initiation|M phase of mitotic cell cycle|response to arsenic-containing substance|G1/S transition of mitotic cell cycle|protein polyubiquitination|regulation of transcription involved in G1 phase of mitotic cell cycle|protein ubiquitination	ubiquitin binding	nuclear SCF ubiquitin ligase complex|SCF ubiquitin ligase complex|nucleus
YOR035C	SHE4	hom	FF|FT	CYTOSKELETON ORGANIZATION|RNA LOCALIZATION	0.105286167722233	1.09515495253435e-09	251	Protein containing a UCS (UNC-45/CRO1/SHE4) domain, binds to myosin motor domains to regulate myosin function; involved in endocytosis, polarization of the actin cytoskeleton, and asymmetric mRNA localization	mating type switching|intracellular mRNA localization|actin cytoskeleton organization	myosin binding	cytoplasm
YEL017C-A	PMP2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.104943477358844	1.24035941863672e-09	252	Proteolipid associated with plasma membrane H(+)-ATPase (Pma1p); regulates plasma membrane H(+)-ATPase activity; protein abundance increases in response to DNA replication stress; PMP2 has a paralog, PMP1, that arose from the whole genome duplication	cation transport	molecular_function	membrane
YBL047C	EDE1	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.104747380536242	1.26558968300227e-09	253	Endocytic protein; involved in a network of interactions with other endocytic proteins, binds membranes in a ubiquitin-dependent manner, may also bind ubiquitinated membrane-associated proteins; interacts with Cmk2 and functions upstream of CMK2 in regulating non-apoptotic cell death	endoplasmic reticulum unfolded protein response|endocytosis	ubiquitin binding	cellular bud neck|mating projection tip|actin cortical patch|cellular bud tip
YBL007C	SLA1	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|NUCLEUS|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.104666128135536	1.41076285432333e-09	254	Cytoskeletal protein binding protein required for assembly of the cortical actin cytoskeleton; interacts with proteins regulating actin dynamics and proteins required for endocytosis; found in the nucleus and cell cortex; has 3 SH3 domains	fungal-type cell wall organization|endocytosis|actin cortical patch assembly	ubiquitin binding|protein binding, bridging	cell cortex|nucleus|mating projection tip|actin cortical patch
YNL007C	SIS1	het	FT	CELL CYCLE|TRANSLATION|NUCLEUS|RIBOSOME	0.104278355141561	1.54262520748176e-09	255	Type II HSP40 co-chaperone that interacts with the HSP70 protein Ssa1p; not functionally redundant with Ydj1p due to due to substrate specificity; has similarity to bacterial DnaJ proteins; protein abundance increases in response to DNA replication stress	protein folding|translational initiation	unfolded protein binding	cytosolic small ribosomal subunit
YGR121W-A_p	YGR121W-A	hom			0.104033786221121	1.6384299293883e-09	256	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YER025W	GCD11	het	FT	TRANSLATION|NUCLEOTIDE METABOLISM|RIBOSOME	0.10393730362994	1.69641457026211e-09	257	Gamma subunit of the translation initiation factor eIF2, involved in the identification of the start codon; binds GTP when forming the ternary complex with GTP and tRNAi-Met	positive regulation of translational fidelity	GTP binding|tRNA binding|translation initiation factor activity	multi-eIF complex|ribosome|eukaryotic translation initiation factor 2 complex
YDR347W	MRP1	hom	FT	TRANSLATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.103812674560049	1.7742801758612e-09	258	Mitochondrial ribosomal protein of the small subunit; MRP1 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator, and with PET123, encoding a small subunit mitochondrial ribosomal protein	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YDR512C	EMI1	hom	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|MITOCHONDRION ORGANIZATION	0.103789269440677	1.7892865177464e-09	259	Non-essential protein required for transcriptional induction of the early meiotic-specific transcription factor IME1, also required for sporulation; contains twin cysteine-x9-cysteine motifs	ascospore formation|mitochondrial respiratory chain complex assembly|positive regulation of transcription from RNA polymerase II promoter	molecular_function	cellular_component
YLL039C	UBI4	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.103569723980904	1.93620267172184e-09	260	Ubiquitin; becomes conjugated to proteins, marking them for selective degradation via the ubiquitin-26S proteasome system; essential for the cellular stress response; encoded as a polyubiquitin precursor comprised of 5 head-to-tail repeats; protein abundance increases in response to DNA replication stress	protein deubiquitination|ascospore formation|protein monoubiquitination|protein polyubiquitination|protein ubiquitination|response to stress	ATP-dependent protein binding|protein tag	cytoplasm
YLR202C_d	YLR202C	hom			0.103234158986821	2.2445960476604e-09	261	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF YLR201C; ORF contains a putative intron	Unknown	Unknown	Unknown
YIL017C	VID28	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|CARBOHYDRATE METABOLISM|PROTEOLYSIS|NUCLEUS	0.102890037561967	2.4694609292368e-09	262	GID Complex subunit, serves as adaptor for regulatory subunit Vid24p; protein involved in proteasome-dependent catabolite degradation of fructose-1,6-bisphosphatase (FBPase); localized to the nucleus and the cytoplasm	negative regulation of gluconeogenesis|proteasomal ubiquitin-dependent protein catabolic process|vacuolar protein catabolic process|ascospore formation|positive regulation of transcription from RNA polymerase II promoter	molecular_function	nucleus|GID complex|cytoplasm
YLR224W_p	YLR224W	hom	FT	PROTEOLYSIS	0.102832362807476	2.52078661039345e-09	263	F-box protein and component of SCF ubiquitin ligase complexes involved in ubiquitin-dependent protein catabolism; readily monoubiquitinated in vitro by SCF-Ubc4 complexes; YLR224W is not an essential gene	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|cellular response to methylmercury	ubiquitin-protein ligase activity|protein binding, bridging	SCF ubiquitin ligase complex
YDR381W	YRA1	het	FT	RESPONSE TO DNA DAMAGE|RNA LOCALIZATION|NUCLEUS	0.102730120962695	2.61433701112493e-09	264	RNA binding protein required for export of poly(A)+ mRNA from the nucleus; proposed to couple mRNA export with 3' end processing via its interactions with Mex67p and Pcf11p; functionally redundant with Yra2p, another REF family member	mRNA export from nucleus|transcription-coupled nucleotide-excision repair	RNA binding	transcription export complex
YCR003W	MRPL32	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.102224076014926	3.12942508124864e-09	265	Mitochondrial ribosomal protein of the large subunit; protein abundance increases in response to DNA replication stress	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial inner membrane|mitochondrial large ribosomal subunit
YCR071C	IMG2	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.102201836649335	3.25791315126467e-09	266	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YPL075W	GCR1	het	FT	TRANSCRIPTION FROM RNA POL II|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|ENDOMEMBRANE SYSTEM|NUCLEUS	0.102179393514632	3.17938313388355e-09	267	Transcriptional activator of genes involved in glycolysis; DNA-binding protein that interacts and functions with the transcriptional activator Gcr2p	negative regulation of transcription from RNA polymerase II promoter by glucose|nucleosome organization|positive regulation of ribosomal protein gene transcription from RNA polymerase II promoter|regulation of glycolysis by positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from a mobile element promoter|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II distal enhancer sequence-specific DNA binding|RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nuclear envelope
YDL157C_p	YDL157C	hom	FT	MITOCHONDRION	0.101784770896278	3.65563928742234e-09	268	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YIL144W	TID3	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.101383807009192	4.21041447449813e-09	269	Component of the evolutionarily conserved kinetochore-associated Ndc80 complex (Ndc80p-Nuf2p-Spc24p-Spc25p); conserved coiled-coil protein involved in chromosome segregation, spindle checkpoint activity, kinetochore assembly and clustering	microtubule nucleation|chromosome segregation|protein localization to kinetochore	structural constituent of cytoskeleton	Ndc80 complex|condensed nuclear chromosome kinetochore|condensed nuclear chromosome, centromeric region
YMR064W	AEP1	hom	FT	TRANSLATION|MITOCHONDRION	0.100413966033386	5.91253472621294e-09	270	Protein required for expression of the mitochondrial OLI1 gene encoding subunit 9 of F1-F0 ATP synthase	regulation of translation	translation regulator activity	mitochondrion
YOR256C	TRE2	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS|VACUOLAR TRANSPORT	0.100327310005372	6.09370680721042e-09	271	Transferrin receptor-like protein; functions with Tre1p to regulate ubiquitylation and vacuolar degradation of the metal transporter Smf1p; inviability of null mutant in systematic studies is due to proximity to CDC31; TRE2 has a paralog, TRE1, that arose from the whole genome duplication	protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	molecular_function	cellular_component
YML047W-A_d	YML047W-A	hom			0.0997568324577805	7.62196763660999e-09	272	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YIL098C	FMC1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0997127443105035	7.54272492600575e-09	273	Mitochondrial matrix protein, required for assembly or stability at high temperature of the F1 sector of mitochondrial F1F0 ATP synthase; null mutant temperature sensitive growth on glycerol is suppressed by multicopy expression of Odc1p	mitochondrial proton-transporting ATP synthase complex assembly	molecular_function	mitochondrion|mitochondrial matrix
YJR121W	ATP2	hom	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.0994411958544485	8.28493610824994e-09	274	Beta subunit of the F1 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated	ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|ATPase activity|proton-transporting ATPase activity, rotational mechanism	proton-transporting ATP synthase complex, catalytic core F(1)|mitochondrion|mitochondrial proton-transporting ATP synthase, catalytic core|integral to membrane
YMR168C	CEP3	het	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CYTOSKELETON ORGANIZATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0993821193699349	8.45556488910348e-09	275	Essential kinetochore protein, component of the CBF3 complex that binds the CDEIII region of the centromere; contains an N-terminal Zn2Cys6 type zinc finger domain, a C-terminal acidic domain, and a putative coiled coil dimerization domain	septin ring assembly|mitotic cell cycle spindle assembly checkpoint	sequence-specific DNA binding|DNA binding, bending|centromeric DNA binding	condensed nuclear chromosome kinetochore|CBF3 complex
YHR100C	GEP4	hom	FF|FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|MITOCHONDRION	0.0990518168538225	9.47435159188905e-09	276	Mitochondrial phosphatidylglycerophosphatase (PGP phosphatase), dephosphorylates phosphatidylglycerolphosphate to generate phosphatidylglycerol, an essential step during cardiolipin biosynthesis; null mutant is sensitive to tunicamycin, DTT	cardiolipin biosynthetic process|phosphorylated carbohydrate dephosphorylation	phosphatidylglycerophosphatase activity	mitochondrion|mitochondrial matrix
YJR097W	JJJ3	hom	FT	NUCLEUS	0.0990489574539535	9.48367175867249e-09	277	Protein of unknown function, contains a CSL Zn finger and a DnaJ-domain; involved in diphthamide biosynthesis; ortholog human Dph4	peptidyl-diphthamide biosynthetic process from peptidyl-histidine	ferrous iron binding	nucleus|cytoplasm
YIR012W	SQT1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RIBOSOME	0.0987570591499609	1.04834763665835e-08	278	Protein involved in 60S ribosomal subunit assembly or modification; contains multiple WD repeats; interacts with Qsr1p in a two-hybrid assay; protein abundance increases in response to DNA replication stress	ribosomal large subunit assembly	molecular_function	cytosol|cytosolic ribosome|cytoplasm
YDL058W	USO1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS|CYTOSKELETON	0.0982087097052694	1.29649760214353e-08	279	Essential protein involved in the vesicle-mediated ER to Golgi transport step of secretion; binds membranes and functions during vesicle docking to the Golgi; required for assembly of the ER-to-Golgi SNARE complex	Golgi vesicle docking|ER to Golgi vesicle-mediated transport|SNARE complex assembly	molecular_function	integral to membrane|ER to Golgi transport vesicle membrane|Golgi membrane
YOR294W	RRS1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.09799744212004	1.3931086779718e-08	280	Essential protein that binds ribosomal protein L11; required for nuclear export of the 60S pre-ribosomal subunit during ribosome biogenesis; localizes to the nucleolus and in foci along nuclear periphery; cooperates with Ebp2p and Mps3p to mediate telomere clustering by binding Sir4p, but is not involved in telomere tethering; mouse homolog shows altered expression in Huntington's disease model mice	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal large subunit biogenesis|ribosomal large subunit export from nucleus	molecular_function	nucleoplasm|nuclear periphery|nucleolus|preribosome, large subunit precursor
YER112W	LSM4	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0973806738166999	1.6835074079154e-08	281	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; forms cytoplasmic foci upon DNA replication stress	nuclear-transcribed mRNA catabolic process|mRNA splicing, via spliceosome|cytoplasmic mRNA processing body assembly	U6 snRNA binding	U6 snRNP|nucleolus|small nucleolar ribonucleoprotein complex|cytoplasmic mRNA processing body|U4/U6 x U5 tri-snRNP complex
YPL038W	MET31	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0967948549235255	2.04124912402511e-08	282	Zinc-finger DNA-binding transcription factor; involved in transcriptional regulation of the methionine biosynthetic genes; MET31 has a paralog, MET32, that arose from the whole genome duplication	regulation of sulfur amino acid metabolic process|regulation of transcription from RNA polymerase II promoter	core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity	nucleus|cytoplasm
YLR119W	SRN2	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT	0.0967881729551613	2.04584117952484e-08	283	Component of the ESCRT-I complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome; suppressor of rna1-1 mutation; may be involved in RNA export from nucleus	protein targeting to membrane|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|protein targeting to vacuole	protein binding	endosome|ESCRT I complex
YPL172C	COX10	hom	FT	COFACTOR METABOLISM|MITOCHONDRION	0.0959900639095456	2.72430214105547e-08	284	Heme A:farnesyltransferase, catalyzes the first step in the conversion of protoheme to the heme A prosthetic group required for cytochrome c oxidase activity; human ortholog is associated with mitochondrial disorders	heme a biosynthetic process	protoheme IX farnesyltransferase activity	mitochondrion|integral to membrane
YMR070W	MOT3	hom	FT	TRANSCRIPTION FROM RNA POL II|LIPID METABOLISM|NUCLEUS	0.09560788889681	3.0355346061834e-08	285	Transcriptional repressor and activator with two C2-H2 zinc fingers; involved in repression of a subset of hypoxic genes by Rox1p, repression of several DAN/TIR genes during aerobic growth, and repression of ergosterol biosynthetic genes in response to hyperosmotic stress; contributes to recruitment of the Tup1p-Cyc8p general repressor to promoters; involved in positive transcriptional regulation of CWP2 and other genes; can form the [MOT3+] prion	cellular hyperosmotic response|negative regulation of transcription from RNA polymerase II promoter|negative regulation of ergosterol biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II repressing transcription factor binding|RNA polymerase II activating transcription factor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding	nucleus
YML093W	UTP14	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0950253766910434	3.7689351154051e-08	286	Subunit of U3-containing Small Subunit (SSU) processome complex involved in production of 18S rRNA and assembly of small ribosomal subunit	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	small-subunit processome|nucleolus
YHR087W	RTC3	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.095019914137388	3.70576679350338e-08	287	Protein of unknown function involved in RNA metabolism; has structural similarity to SBDS, the human protein mutated in Shwachman-Diamond Syndrome (the yeast SBDS ortholog = SDO1); null mutation suppresses cdc13-1 temperature sensitivity; protein abundance increases in response to DNA replication stress	RNA metabolic process	molecular_function	nucleus|cytoplasm
YDR322W	MRPL35	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0949420825967113	4.35354525646613e-08	288	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDL160C	DHH1	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|TRANSLATION|RNA LOCALIZATION	0.0948854063327477	3.87398766878098e-08	289	Cytoplasmic DExD/H-box helicase, stimulates mRNA decapping; coordinates distinct steps in mRNA function and decay, interacts with both the decapping and deadenylase complexes, may have a role in mRNA export and translation; C-terminus of Dhh1p interacts with Ngr1p and promotes POR1, but not EDC1 mRNA decay; forms cytoplasmic foci upon DNA replication stress	deadenylation-dependent decapping of nuclear-transcribed mRNA|cell morphogenesis involved in conjugation with cellular fusion|stress granule assembly|cytoplasmic mRNA processing body assembly	protein binding|RNA helicase activity	cytoplasmic mRNA processing body|cytoplasmic stress granule|cytoplasm
YBR123C	TFC1	het	FT	NUCLEUS	0.0946665921990428	4.14429461305187e-08	290	One of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA globular domain of TFIIIC that binds DNA at the BoxA promoter sites of tRNA and similar genes; human homolog is TFIIIC-63	transcription from a RNA polymerase III hybrid type promoter|transcription from RNA polymerase III type 2 promoter|5S class rRNA transcription from RNA polymerase III type 1 promoter	RNA polymerase III type 1 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|RNA polymerase III type 2 promoter sequence-specific DNA binding|RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|DNA binding, bending	transcription factor TFIIIC complex
YJR048W	CYC1	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0940759118738661	5.03088561913239e-08	291	Cytochrome c, isoform 1; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; CYC1 has a paralog, CYC7, that arose from the whole genome duplication	mitochondrial electron transport, cytochrome c to oxygen|mitochondrial electron transport, ubiquinol to cytochrome c	electron carrier activity	mitochondrion|mitochondrial intermembrane space
YGR171C	MSM1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION	0.0937712030947699	5.55749395447197e-08	292	Mitochondrial methionyl-tRNA synthetase (MetRS), functions as a monomer in mitochondrial protein synthesis; functions similarly to cytoplasmic MetRS although the cytoplasmic form contains a zinc-binding domain not found in Msm1p	methionyl-tRNA aminoacylation	methionine-tRNA ligase activity	mitochondrion
YBR221C	PDB1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0937489240691278	5.59802521235808e-08	293	E1 beta subunit of the pyruvate dehydrogenase (PDH) complex, which is an evolutionarily-conserved multi-protein complex found in mitochondria	acetyl-CoA biosynthetic process from pyruvate	pyruvate dehydrogenase (acetyl-transferring) activity	mitochondrial nucleoid|mitochondrion|mitochondrial pyruvate dehydrogenase complex
YBR072C-A_p	YBR072C-A	hom			0.0931955673395932	6.70174359450741e-08	294	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YML030W	RCF1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0927005798580868	7.90053600688449e-08	295	Cytochrome c oxidase subunit; required for assembly of the Complex III-Complex IV supercomplex, and for assembly of Cox13p and Rcf2p into cytochrome c oxidase; similar to Rcf2p, and either Rcf1p or Rcf2p is required for late-stage assembly of the Cox12p and Cox13p subunits and for cytochrome c oxidase activity; required for growth under hypoxic conditions; member of the hypoxia induced gene family; C. elegans and human orthologs are functional in yeast	mitochondrial respiratory chain complex IV assembly|mitochondrial respiratory chain supercomplex assembly	molecular_function	mitochondrion|mitochondrial respiratory chain supercomplex|integral to mitochondrial inner membrane|mitochondrial respiratory chain complex IV
YGL212W	VAM7	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION	0.0920831259214215	9.89311438714265e-08	296	Vacuolar SNARE protein; functions with Vam3p in vacuolar protein trafficking; has an N-terminal PX domain (phosphoinositide-binding module) that binds PtdIns-3-P and mediates membrane binding; SNAP-25 homolog; protein abundance increases in response to DNA replication stress	piecemeal microautophagy of nucleus|vacuole fusion, non-autophagic|vesicle fusion	SNAP receptor activity|phosphatidylinositol-3-phosphate binding	SNARE complex|fungal-type vacuole membrane
YKL138C	MRPL31	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.091676885893264	1.1165279617475e-07	297	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrial large ribosomal subunit
YNL197C	WHI3	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE	0.0915251769143781	1.1516059848335e-07	298	RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci;; Tpk1 (PKA) mediated phosphorylation of Whi3 affects G1/S transition by modulating Cln3 transcription; cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start; WHI3 has a paralog, WHI4, that arose from the whole genome duplication	pseudohyphal growth|invasive growth in response to glucose limitation|regulation of cell size|cytoplasmic sequestering of protein	RNA binding	cytoplasm
YOR133W	EFT1	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|RIBOSOME	0.0915182449693046	1.1491472385773e-07	299	Elongation factor 2 (EF-2), also encoded by EFT2; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT1 has a paralog, EFT2, that arose from the whole genome duplication	translational elongation	translation elongation factor activity	ribosome
YGL198W	YIP4	hom	FT	ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0914927784798409	1.18910066064631e-07	300	Protein that interacts with Rab GTPases, localized to late Golgi vesicles; computational analysis of large-scale protein-protein interaction data suggests a possible role in vesicle-mediated transport	biological_process	Rab GTPase binding	integral to membrane|Golgi apparatus
YGR219W_d	YGR219W	hom			0.0906874867915518	1.50215346296267e-07	301	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MRPL9/YGR220C	Unknown	Unknown	Unknown
YPL084W	BRO1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS	0.0905576490264565	1.55834134846001e-07	302	Cytoplasmic class E vacuolar protein sorting (VPS) factor that coordinates deubiquitination in the multivesicular body (MVB) pathway by recruiting Doa4p to endosomes	protein deubiquitination|vacuolar transport|protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|response to nutrient|ubiquitin-dependent protein catabolic process	ubiquitin-specific protease activity	endosome|cytoplasm
YPL086C	ELP3	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|CHROMATIN ORGANIZATION|NUCLEUS	0.0904394214736447	1.61752877102143e-07	303	Subunit of Elongator complex, which is required for modification of wobble nucleosides in tRNA; exhibits histone acetyltransferase activity that is directed to histones H3 and H4; disruption confers resistance to K. lactis zymotoxin	regulation of transcription from RNA polymerase II promoter|tRNA wobble uridine modification	histone acetyltransferase activity	Elongator holoenzyme complex|nucleus|cytoplasm
YDR524W-C_p	YDR524W-C	hom			0.0903848910801155	1.68082869706782e-07	304	Putative protein of unknown function; small ORF identified by SAGE; deletion strains are moderately sensitive to the radiomimetic drug bleomycin	biological_process	molecular_function	cellular_component
YBR003W	COQ1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.0903731189712601	1.65166618588934e-07	305	Hexaprenyl pyrophosphate synthetase, catalyzes the first step in ubiquinone (coenzyme Q) biosynthesis	ubiquinone biosynthetic process	trans-hexaprenyltranstransferase activity	mitochondrion
YBL051C	PIN4	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE	0.0899741844549297	1.87224673163019e-07	306	Protein involved in G2/M phase progression and response to DNA damage, interacts with Rad53p; contains an RNA recognition motif, a nuclear localization signal, and several SQ/TQ cluster domains; hyperphosphorylated in response to DNA damage	G2/M transition of mitotic cell cycle|DNA damage checkpoint	molecular_function	cytoplasm
YKL106W	AAT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0896276001845184	2.08676474093658e-07	307	Mitochondrial aspartate aminotransferase, catalyzes the conversion of oxaloacetate to aspartate in aspartate and asparagine biosynthesis	aspartate catabolic process|chronological cell aging|replicative cell aging|asparagine biosynthetic process from oxaloacetate|aspartate biosynthetic process	L-aspartate:2-oxoglutarate aminotransferase activity	mitochondrion
YBR282W	MRPL27	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0895314222573159	2.15038403544266e-07	308	Mitochondrial ribosomal protein of the large subunit; homolog of human Bcl-2 interacting protein BMRP	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDR362C	TFC6	het	FT	NUCLEUS	0.0893611169480744	2.31519441600842e-07	309	One of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; cooperates with Tfc3p in DNA binding; human homolog is TFIIIC-110	transcription from a RNA polymerase III hybrid type promoter|transcription from RNA polymerase III type 2 promoter|5S class rRNA transcription from RNA polymerase III type 1 promoter	RNA polymerase III type 1 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|RNA polymerase III type 2 promoter sequence-specific DNA binding|RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity	transcription factor TFIIIC complex
YGR215W	RSM27	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0892955281780742	2.31445518649123e-07	310	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YOR187W	TUF1	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0890163046910244	2.52431362427955e-07	311	Mitochondrial translation elongation factor Tu; comprises both GTPase and guanine nucleotide exchange factor activities, while these activities are found in separate proteins in S. pombe and humans	mitochondrial translational elongation|mitochondrial translation	GTPase activity|translation elongation factor activity	mitochondrion|mitochondrial matrix
YIL031W	ULP2	het	FT	CELL CYCLE|PROTEOLYSIS|NUCLEUS	0.0889280814272333	2.59435791274567e-07	312	Peptidase that deconjugates Smt3/SUMO-1 peptides from proteins, plays a role in chromosome cohesion at centromeric regions and recovery from checkpoint arrest induced by DNA damage or DNA replication defects; potential Cdc28p substrate	plasmid maintenance|protein desumoylation|chromosome condensation|mitotic cell cycle spindle assembly checkpoint	cysteine-type peptidase activity|SUMO-specific protease activity	nucleus
YPL180W	TCO89	hom	FT	SIGNALING|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|PLASMA MEMBRANE	0.0886066225851086	2.86580149218934e-07	313	Subunit of TORC1 (Tor1p or Tor2p-Kog1p-Lst8p-Tco89p), a complex that regulates growth in response to nutrient availability; cooperates with Ssd1p in the maintenance of cellular integrity; deletion strains are hypersensitive to rapamycin	TOR signaling cascade|fungal-type cell wall organization|response to salt stress|regulation of cell growth|glycerol metabolic process	molecular_function	TORC1 complex|fungal-type vacuole membrane|extrinsic to internal side of plasma membrane|extrinsic to vacuolar membrane
YDR337W	MRPS28	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0885925074239407	2.89009510459933e-07	314	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome|RNA binding	mitochondrion|mitochondrial small ribosomal subunit
YLR382C	NAM2	hom	FT	KETONE METABOLISM|RNA PROCESSING|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0885652141245228	3.04826359368356e-07	315	Mitochondrial leucyl-tRNA synthetase, also has a direct role in splicing of several mitochondrial group I introns; indirectly required for mitochondrial genome maintenance	Group I intron splicing|leucyl-tRNA aminoacylation|mitochondrial translation	mRNA binding|leucine-tRNA ligase activity	mitochondrion
YMR030W	RSF1	hom	FT	TRANSCRIPTION FROM RNA POL II|SIGNALING|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS|MITOCHONDRION	0.0884355870688229	3.09580611889814e-07	316	Protein required for respiratory growth; localized to both the nucleus and mitochondrion; may interact with transcription factors to mediate the transition to respiratory growth and activate transcription of nuclear and mitochondrial genes	transcription from mitochondrial promoter|calcium-mediated signaling|transcription from RNA polymerase II promoter|aerobic respiration	molecular_function	mitochondrion|nucleus
YIL061C	SNP1	het	FT	RNA PROCESSING|NUCLEUS	0.0884258164633583	3.0303156507909e-07	317	Component of U1 snRNP required for mRNA splicing via spliceosome; substrate of the arginine methyltransferase Hmt1p; may interact with poly(A) polymerase to regulate polyadenylation; homolog of human U1 70K protein; protein abundance increases in response to DNA replication stress	mRNA splicing, via spliceosome	mRNA binding|U1 snRNA binding	commitment complex|U1 snRNP|U2-type prespliceosome
YFL002C	SPB4	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0882124823362698	3.23616243269576e-07	318	Putative ATP-dependent RNA helicase, nucleolar protein required for synthesis of 60S ribosomal subunits at a late step in the pathway; sediments with 66S pre-ribosomes in sucrose gradients	ribosomal large subunit assembly|rRNA processing	ATP-dependent RNA helicase activity	nucleolus|90S preribosome
YDR054C	CDC34	het	FT	CELL CYCLE|CELL DIVISION|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.088103991396767	3.34595747702945e-07	319	Ubiquitin-conjugating enzyme (E2); catalytic subunit of SCF ubiquitin-protein ligase complex (together with Skp1p, Rbx1p, Cdc53p, and an F-box protein) that regulates cell cycle progression by targeting key substrates for degradation; protein abundance increases in response to DNA replication stress	G2/M transition of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|protein autoubiquitination|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|G1/S transition of mitotic cell cycle|protein polyubiquitination	ubiquitin-protein ligase activity|protein homodimerization activity	SCF ubiquitin ligase complex|nucleus|cytoplasm
YGL200C	EMP24	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0880040872578774	3.52041654307116e-07	320	Component of the p24 complex; binds to GPI anchor proteins and mediates their efficient transport from the ER to the Golgi; integral membrane protein that associates with endoplasmic reticulum-derived COPII-coated vesicles	protein retention in ER lumen|vesicle organization|ER to Golgi vesicle-mediated transport	molecular_function	integral to membrane|endoplasmic reticulum|ER to Golgi transport vesicle
YGR155W	CYS4	hom	FT	KETONE METABOLISM|CELL CYCLE|AMINO ACID METABOLISM|MITOCHONDRION	0.0879434398640576	3.64463121127542e-07	321	Cystathionine beta-synthase, catalyzes synthesis of cystathionine from serine and homocysteine, the first committed step in cysteine biosynthesis; responsible for hydrogen sulfide generation; advances passage through START by promoting cell growth which requires catalytic activity, and reducing critical cell size independent of catalytic activity; mutations in human ortholog cause homocystinuria	cysteine biosynthetic process from serine|hydrogen sulfide biosynthetic process|cysteine biosynthetic process via cystathionine|transsulfuration|traversing start control point of mitotic cell cycle	cystathionine beta-synthase activity	mitochondrion|cytoplasm
YLR294C_d	YLR294C	hom			0.0878689486298149	3.5962902062081e-07	322	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ATP14	Unknown	Unknown	Unknown
YKL055C	OAR1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0876531364620292	3.84198203603727e-07	323	Mitochondrial 3-oxoacyl-[acyl-carrier-protein] reductase, may comprise a type II mitochondrial fatty acid synthase along with Mct1p	fatty acid metabolic process|aerobic respiration	3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity	mitochondrion
YOR161C-C_p	YOR161C-C	hom			0.0873931460575893	4.15950971656691e-07	324	Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YPR193C	HPA2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CHROMATIN ORGANIZATION	0.0873360412084122	4.24939622892471e-07	325	Tetrameric histone acetyltransferase with similarity to Gcn5p, Hat1p, Elp3p, and Hpa3p; acetylates histones H3 and H4 in vitro and exhibits autoacetylation activity	protein homotetramerization|histone acetylation	histone acetyltransferase activity|protein homodimerization activity	cytoplasm
YKL016C	ATP7	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.0866918673893829	5.14730060541539e-07	326	Subunit d of the stator stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis	protein complex assembly|ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|ATPase activity|proton-transporting ATPase activity, rotational mechanism	mitochondrion|mitochondrial proton-transporting ATP synthase, stator stalk|integral to membrane|mitochondrial proton-transporting ATP synthase complex
YPR100W	MRPL51	hom	FT	TRANSLATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION|RIBOSOME	0.0865691431674293	5.404845869446e-07	327	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation|aerobic respiration	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YMR119W	ASI1	hom	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0864261290244705	5.82152567012872e-07	328	Putative integral membrane E3 ubiquitin ligase; acts with Asi2p and Asi3p to ensure the fidelity of SPS-sensor signalling by maintaining the dormant repressed state of gene expression in the absence of inducing signals; ASI1 has a paralog, ASI3, that arose from the whole genome duplication	ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity	integral to membrane|nuclear inner membrane|endoplasmic reticulum membrane
YJR007W	SUI2	het	FF|FT	TRANSLATION|RIBOSOME	0.086373194705837	5.73398455558383e-07	329	Alpha subunit of the translation initiation factor eIF2; eIF2 is involved in identification of the start codon; phosphorylation of Ser51 is required for regulation of translation by inhibiting the exchange of GDP for GTP; protein abundance increases in response to DNA replication stress	translational initiation	translation initiation factor activity	ribosome|multi-eIF complex|eukaryotic translation initiation factor 2 complex|cytoplasm
YGR191W	HIP1	het	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0861647702813322	6.03486306674158e-07	330	High-affinity histidine permease, also involved in the transport of manganese ions	manganese ion transport|histidine transport	high affinity L-histidine transmembrane transporter activity	integral to membrane|plasma membrane
YBR196C-B_p	YBR196C-B	hom			0.086004984140494	6.33187216163813e-07	331	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YOR146W_d	YOR146W	het			0.0859663047258883	6.48024298021757e-07	332	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene PNO1/YOR145C	Unknown	Unknown	Unknown
YDR316W	OMS1	hom	FT	MITOCHONDRION	0.0856947430675669	6.97588779485233e-07	333	Protein integral to the mitochondrial membrane; has a conserved methyltransferase motif; multicopy suppressor of respiratory defects caused by OXA1 mutations	biological_process	S-adenosylmethionine-dependent methyltransferase activity	mitochondrial envelope|mitochondrion
YDR175C	RSM24	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0854932332668972	7.52275748598802e-07	334	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YIL124W	AYR1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0854671034289523	7.46708655544488e-07	335	NADPH-dependent 1-acyl dihydroxyacetone phosphate reductase found in lipid particles, ER, and mitochondrial outer membrane; involved in phosphatidic acid biosynthesis; required for spore germination; capable of metabolizing steroid hormones	phosphatidic acid biosynthetic process	acylglycerone-phosphate reductase activity	mitochondrial outer membrane|mitochondrion|integral to membrane|endoplasmic reticulum|lipid particle|cytoplasm
YGR101W	PCP1	hom	FT	PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0852477660060759	7.94164470809775e-07	336	Mitochondrial serine protease required for the processing of various mitochondrial proteins and maintenance of mitochondrial DNA and morphology; belongs to the rhomboid-GlpG superfamily of intramembrane peptidases	signal peptide processing|regulation of mitochondrion organization	serine-type endopeptidase activity	integral to membrane|mitochondrial inner membrane
YOL008W	COQ10	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0852210650320461	8.00505725007629e-07	337	Coenzyme Q (ubiquinone) binding protein, functions in the delivery of Q<sub>6</sub> to its proper location for electron transport during respiration; START domain protein with homologs in bacteria and eukaryotes	cellular respiration	ubiquinone binding	mitochondrion|mitochondrial inner membrane
YDR472W	TRS31	het	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0849232435850127	8.74622696111853e-07	338	One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; involved in endoplasmic reticulum (ER) to Golgi membrane traffic	ER to Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	TRAPP complex
YIL065C	FIS1	hom	FT	MITOCHONDRION ORGANIZATION|PEROXISOME ORGANIZATION|MITOCHONDRION	0.0848985029502119	8.81068475449168e-07	339	Protein involved in mitochondrial membrane fission and peroxisome abundance; required for localization of Dnm1p and Mdv1p during mitochondrial division; mediates ethanol-induced apoptosis and ethanol-induced mitochondrial fragmentation	peroxisome fission|mitochondrial fission|chronological cell aging|peroxisome organization	molecular_function	mitochondrial outer membrane|mitochondrion|peroxisome
YOR350C	MNE1	hom	FT	RNA PROCESSING|MITOCHONDRION	0.0848115732701101	9.04081153631139e-07	340	Mitochondrial matrix protein involved in splicing Group I aI5-beta intron from COX1 mRNA	Group I intron splicing	molecular_function	mitochondrion|ribonucleoprotein complex|mitochondrial matrix
YGR193C	PDX1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0848019278626007	9.1007442597132e-07	341	Dihydrolipoamide dehydrogenase (E3)-binding protein (E3BP) of the mitochondrial pyruvate dehydrogenase (PDH) complex, plays a structural role in the complex by binding and positioning E3 to the dihydrolipoamide acetyltransferase (E2) core	acetyl-CoA biosynthetic process from pyruvate	structural molecule activity	mitochondrion|mitochondrial pyruvate dehydrogenase complex
YJL025W	RRN7	het	FT	NUCLEUS	0.0847975990659094	9.21545394067983e-07	342	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p	transcription initiation from RNA polymerase I promoter|transcription of nuclear large rRNA transcript from RNA polymerase I promoter	TBP-class protein binding|RNA polymerase I CORE element sequence-specific DNA binding|RNA polymerase I CORE element sequence-specific DNA binding transcription factor recruiting transcription factor activity	nucleolus|RNA polymerase I core factor complex
YDR021W	FAL1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0838649714139263	1.19520289967873e-06	343	Nucleolar protein required for maturation of 18S rRNA, member of the eIF4A subfamily of DEAD-box ATP-dependent RNA helicases	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	ATP-dependent RNA helicase activity	nucleolus|FAl1-SGD1 complex
YMR001C-A_p	YMR001C-A	hom			0.0836760731124551	1.26322511387237e-06	344	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YLR370C	ARC18	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|MITOCHONDRION|CYTOSKELETON	0.083668157387631	1.34725021898737e-06	345	Subunit of the ARP2/3 complex, which is required for the motility and integrity of cortical actin patches	mitochondrion inheritance|actin filament organization|establishment of mitochondrion localization	molecular_function	mitochondrion|Arp2/3 protein complex
YJL101C	GSH1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|RESPONSE TO OXIDATIVE STRESS	0.0836256424691662	1.32479554944332e-06	346	Gamma glutamylcysteine synthetase; catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury; protein abundance increases in response to DNA replication stress	response to cadmium ion|response to hydrogen peroxide|glutathione biosynthetic process	glutamate-cysteine ligase activity	intracellular
YDL115C	IWR1	hom	FT	PROTEIN LOCALIZATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0835285226123417	1.31893202270446e-06	347	RNA polymerase II transport factor, conserved from yeast to humans; also has a role in transporting RNA polymerase III into the nucleus; interacts with most of the RNAP II subunits; nucleo-cytoplasmic shuttling protein; deletion causes hypersensitivity to K1 killer toxin; protein increases in abundance and relocalizes from nucleus to cytoplasm upon DNA replication stress	cellular protein complex localization|nucleocytoplasmic transport	protein binding	nucleus|DNA-directed RNA polymerase II, holoenzyme|cytoplasm
YHR206W	SKN7	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|SIGNALING|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0835002261582608	1.33959148413406e-06	348	Nuclear response regulator and transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; part of a branched two-component signaling system; required for optimal induction of heat-shock genes in response to oxidative stress; involved in osmoregulation; SKN7 has a paralog, HMS2, that arose from the whole genome duplication	response to singlet oxygen|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|transcription, DNA-dependent|response to osmotic stress|regulation of cell size	sequence-specific DNA binding|two-component response regulator activity|sequence-specific DNA binding transcription factor activity	nucleus
YBR056W	YBR056W	hom	FT	CARBOHYDRATE METABOLISM	0.0834953397626359	1.3562213259407e-06	349	Putative glycoside hydrolase of the mitochondrial intermembrane space	biological_process	molecular_function	cytoplasm
YDR060W	MAK21	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0833627057359878	1.38435362643639e-06	350	Constituent of 66S pre-ribosomal particles, required for large (60S) ribosomal subunit biogenesis; involved in nuclear export of pre-ribosomes; required for maintenance of dsRNA virus; homolog of human CAATT-binding protein	ribosomal large subunit assembly	molecular_function	Noc1p-Noc2p complex
YDL147W	RPN5	het	FT	PROTEOLYSIS|NUCLEUS	0.0826545203808339	1.70058339568565e-06	351	Subunit of the COP9 signalosome (CSN) and non-ATPase regulatory subunit of the 26S proteasome lid, similar to mammalian p55 subunit and to another S. cerevisiae regulatory subunit, Rpn7p; Rpn5p is an essential protein	cullin deneddylation|ubiquitin-dependent protein catabolic process	molecular_function	proteasome complex|signalosome|proteasome storage granule|proteasome regulatory particle, lid subcomplex
YNL147W	LSM7	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0825911506986595	1.7320412610053e-06	352	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress	nuclear-transcribed mRNA catabolic process|mRNA splicing, via spliceosome|maturation of SSU-rRNA	RNA binding	U6 snRNP|nucleolus|small nucleolar ribonucleoprotein complex|U4/U6 x U5 tri-snRNP complex|cytoplasm
YGL075C	MPS2	het	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|CYTOSKELETON	0.0819651085687552	2.07439323221961e-06	353	Essential membrane protein localized at the nuclear envelope and spindle pole body (SPB), required for insertion of the newly duplicated SPB into the nuclear envelope; potentially phosphorylated by Cdc28p	mitotic anaphase|spindle pole body duplication associated with nuclear envelope	structural constituent of cytoskeleton	nuclear envelope|spindle pole body
YIL032C_d	YIL032C	hom			0.0817524393254625	2.2202727713674e-06	354	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR393W	ATP10	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0814510182075355	2.403240503904e-06	355	Mitochondrial inner membrane protein required for assembly of the F0 sector of mitochondrial F1F0 ATP synthase, interacts genetically with ATP6	mitochondrial proton-transporting ATP synthase complex assembly	unfolded protein binding	integral to mitochondrial membrane|mitochondrion|mitochondrial inner membrane
YIL003W	CFD1	het	FT	RNA PROCESSING|COFACTOR METABOLISM	0.0811723098733002	2.60186900856059e-06	356	Highly conserved, iron-sulfur cluster binding protein localized in the cytoplasm; forms a complex with Nbp35p that is involved in iron-sulfur protein assembly in the cytosol	iron-sulfur cluster assembly|tRNA wobble uridine modification	4 iron, 4 sulfur cluster binding|ATPase activity	cytoplasm
YFR033C	QCR6	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0811527903468659	2.61635503033584e-06	357	Subunit 6 of the ubiquinol cytochrome-c reductase complex; the complex, also known as the cytochrome bc(1) complex or Complex III, is a component of the mitochondrial inner membrane electron transport chain; highly acidic protein; required for maturation of cytochrome c1; may be loosely associated with the complex since it is easily released into the intermembrane space	mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration	ubiquinol-cytochrome-c reductase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex III
YMR166C_p	YMR166C	hom	FT	MITOCHONDRION	0.0811166535913951	2.67999456839297e-06	358	Predicted transporter of the mitochondrial inner membrane; has similarity to human mitochondrial ATP-Mg/Pi carriers; YMR166C is not an essential gene	transport	transporter activity	integral to membrane|mitochondrial inner membrane
YNR006W	VPS27	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT	0.0809951818349405	2.81229753623703e-06	359	Endosomal protein that forms a complex with Hse1p; required for recycling Golgi proteins, forming lumenal membranes and sorting ubiquitinated proteins destined for degradation; has Ubiquitin Interaction Motifs which bind ubiquitin (Ubi4p)	protein retention in Golgi apparatus|late endosome to vacuole transport|protein targeting to vacuole	ubiquitin binding|phosphatidylinositol-3-phosphate binding	endosome|ESCRT-0 complex
YBR254C	TRS20	het	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0809432720292151	2.77679760799658e-06	360	One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; mutations in the human homolog cause the spondyloepiphyseal dysplasia tarda (SEDL) disorder	ER to Golgi vesicle-mediated transport	molecular_function	TRAPP complex
YNL075W	IMP4	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0807340841971141	2.94637822516108e-06	361	Component of the SSU processome, which is required for pre-18S rRNA processing; interacts with Mpp10p; member of a superfamily of proteins that contain a sigma(70)-like motif and associate with RNAs	rRNA processing	snoRNA binding|single-stranded telomeric DNA binding|rRNA primary transcript binding	small-subunit processome|Mpp10 complex|90S preribosome
YJR113C	RSM7	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0806998407327696	3.04683698164447e-06	362	Mitochondrial ribosomal protein of the small subunit, has similarity to E. coli S7 ribosomal protein	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YBR251W	MRPS5	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0802701297791484	3.35864036457067e-06	363	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YHR012W	VPS29	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM	0.0802373741446843	3.3897473516842e-06	364	Endosomal protein that is a subunit of the membrane-associated retromer complex essential for endosome-to-Golgi retrograde transport; forms a subcomplex with Vps35p and Vps26p that selects cargo proteins for endosome-to-Golgi retrieval	retrograde transport, endosome to Golgi	protein transporter activity	endosome|retromer complex, inner shell|retromer complex
YIL157C	COA1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0802107506597872	3.41523409461121e-06	365	Mitochondrial inner membrane protein required for assembly of the cytochrome c oxidase complex (complex IV); interacts with complex IV assembly factor Shy1p during the early stages of assembly	mitochondrial respiratory chain complex IV assembly	molecular_function	integral to mitochondrial membrane|mitochondrion|integral to mitochondrial inner membrane
YBL038W	MRPL16	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0801600477049686	3.46428107305086e-06	366	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome|peptidyltransferase activity	mitochondrion|mitochondrial large ribosomal subunit
YJL179W	PFD1	hom	FT	CYTOSKELETON ORGANIZATION	0.0801094509922027	3.51389786761255e-06	367	Subunit of heterohexameric prefoldin, which binds cytosolic chaperonin and transfers target proteins to it; involved in the biogenesis of actin and of alpha- and gamma-tubulin	protein folding|cytoskeleton organization	unfolded protein binding	prefoldin complex
YEL032W	MCM3	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0798298711236365	3.8644817574784e-06	368	Protein involved in DNA replication; component of the Mcm2-7 hexameric complex that binds chromatin as a part of the pre-replicative complex	S phase of mitotic cell cycle|DNA strand elongation involved in DNA replication|double-strand break repair via break-induced replication|DNA replication initiation|pre-replicative complex assembly|chromatin silencing at telomere|chromatin silencing at silent mating-type cassette	DNA helicase activity|chromatin binding|DNA replication origin binding|ATPase activity	replication fork protection complex|DNA replication preinitiation complex|pre-replicative complex|nucleus|cytoplasm|MCM complex
YJL077W-B_p	YJL077W-B	hom			0.0798022689077829	3.83006829981144e-06	369	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YHR107C	CDC12	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0797176351126798	4.05448798915448e-06	370	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate with other rods to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells	maintenance of cell polarity|cell cycle cytokinesis|positive regulation of protein kinase activity|septin ring assembly	protein complex scaffold|structural molecule activity|GTP binding|GTPase activity|1-phosphatidylinositol binding	septin filament array|cellular bud neck septin ring|septin complex|cytoplasm|mating projection
YBL034C	STU1	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|NUCLEUS|CHROMOSOME|CYTOSKELETON	0.0796585113397658	3.98722926362765e-06	371	Component of the mitotic spindle that binds to interpolar microtubules via its association with beta-tubulin (Tub2p); required for interpolar microtubules to provide an outward force on the spindle poles	microtubule nucleation	structural constituent of cytoskeleton	spindle pole body
YIL070C	MAM33	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0794118677344896	4.27136433480486e-06	372	Acidic protein of the mitochondrial matrix involved in oxidative phosphorylation; related to the human complement receptor gC1q-R	aerobic respiration	molecular_function	mitochondrion|mitochondrial matrix
YDL041W_d	YDL041W	hom	FF		0.0793512208404955	4.34414473979748e-06	373	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene SIR2/YDL042C	Unknown	Unknown	Unknown
YFL013C	IES1	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0792441628013601	4.59480998084803e-06	374	Subunit of the INO80 chromatin remodeling complex	nucleosome mobilization	molecular_function	nucleus|Ino80 complex
YIL068C	SEC6	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|SITE OF POLARIZED GROWTH	0.0791905987141113	4.55762532303191e-06	375	Essential 88kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion; anchors the assembled complex to sites of secretion; interacts with SM-like protein and SNARE regulator Sec1p and may recruit it to sites of secretion; interacts with Sec9p and inhibits formation of the t-SNARE complex between Sec9p and Sso1p	exocyst localization|Golgi to plasma membrane transport|exocytosis|vesicle fusion|negative regulation of SNARE complex assembly|vesicle docking involved in exocytosis	protein homodimerization activity	mating projection tip|cellular bud neck|cellular bud tip|exocyst
YLR150W	STM1	hom	FT	SIGNALING|TRANSLATION|NUCLEUS|RIBOSOME	0.0791261940989813	4.62470991255793e-06	376	Protein required for optimal translation under nutrient stress; perturbs association of Yef3p with ribosomes; involved in TOR signaling; binds G4 quadruplex and purine motif triplex nucleic acid; helps maintain telomere structure; protein abundance increases in response to DNA replication stress; serves as a ribosome preservation factor both during quiescence and recovery	translational elongation|TOR signaling cascade|regulation of translational initiation in response to stress|telomere maintenance|anti-apoptosis	triplex DNA binding|DNA binding|telomeric DNA binding	cytosolic ribosome|polysome|cytoplasm
YGR078C	PAC10	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS	0.0789151890580153	5.11588038068149e-06	377	Part of the heteromeric co-chaperone GimC/prefoldin complex, which promotes efficient protein folding	tubulin complex assembly	tubulin binding	prefoldin complex|polysome|cytoplasm
YLR347C	KAP95	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|LIPID METABOLISM|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0789088917160774	4.97654794461275e-06	378	Karyopherin beta, forms a complex with Srp1p/Kap60p; interacts with nucleoporins to mediate nuclear import of NLS-containing cargo proteins via the nuclear pore complex; regulates PC biosynthesis; GDP-to-GTP exchange factor for Gsp1p	protein targeting to membrane|regulation of protein desumoylation|protein import into nucleus|phosphatidylcholine biosynthetic process|nuclear pore complex assembly	protein transporter activity|Ran guanyl-nucleotide exchange factor activity	integral to membrane|nuclear exosome (RNase complex)|nuclear pore|cytoplasm
YPR173C	VPS4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|LIPID METABOLISM|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|ENDOPLASMIC RETICULUM	0.0783375205348028	5.75143938854011e-06	379	AAA-ATPase involved in multivesicular body (MVB) protein sorting, ATP-bound Vps4p localizes to endosomes and catalyzes ESCRT-III disassembly and membrane release; ATPase activity is activated by Vta1p; regulates cellular sterol metabolism	late endosome to vacuole transport via multivesicular body sorting pathway|protein retention in Golgi apparatus|intralumenal vesicle formation|protein homooligomerization|sterol metabolic process|late endosome to vacuole transport	ATPase activity|protein homodimerization activity|ATP binding	endosome|endoplasmic reticulum|membrane|cytoplasm
YMR262W_p	YMR262W	hom			0.0782938872871813	5.82089184579529e-06	380	Protein of unknown function; interacts weakly with Knr4p; YMR262W is not an essential gene	biological_process	molecular_function	cellular_component
YMR287C	DSS1	hom	FT	MITOCHONDRION	0.0780313973888288	6.56273436297852e-06	381	3'-5' exoribonuclease, component of the mitochondrial degradosome along with the ATP-dependent RNA helicase Suv3p; the degradosome associates with the ribosome and mediates turnover of aberrant or unprocessed RNAs	mitochondrial RNA catabolic process	exoribonuclease II activity	mitochondrion|mitochondrial degradosome
YDR507C	GIN4	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH	0.0779777818222803	6.34855131514945e-06	382	Protein kinase involved in bud growth and assembly of the septin ring; proposed to have kinase-dependent and kinase-independent activities; undergoes autophosphorylation; similar to Hsl1p; GIN4 has a paralog, KCC4, that arose from the whole genome duplication	protein autophosphorylation|budding cell bud growth|protein phosphorylation|septin checkpoint|septin ring assembly	protein kinase activity	cellular bud neck
YML094C-A_d	YML094C-A	hom	FF		0.0778321655788817	6.60673276619193e-06	383	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene GIM5/YML094W; deletion confers sensitivity to GSAO	Unknown	Unknown	Unknown
YLR182W	SWI6	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS	0.0777297970905784	6.88085067532224e-06	384	Transcription cofactor; forms complexes with Swi4p and Mbp1p to regulate transcription at the G1/S transition; involved in meiotic gene expression; also binds Stb1p to regulate transcription at START; cell wall stress induces phosphorylation by Mpk1p, which regulates Swi6p localization; required for the unfolded protein response, independently of its known transcriptional coactivators	positive regulation of transcription from RNA polymerase II promoter in response to heat stress|positive regulation of transcription involved in G1/S phase of mitotic cell cycle|positive regulation of reciprocal meiotic recombination|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II transcription coactivator activity	SBF transcription complex|MBF transcription complex|nucleus|cytoplasm
YBR085C-A	YBR085C-A	hom	FT	NUCLEUS	0.0775065292271967	7.22091281000953e-06	385	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	nucleus|cytoplasm
YMR135C	GID8	hom	FT	KETONE METABOLISM|CELL CYCLE|CARBOHYDRATE METABOLISM|PROTEOLYSIS|NUCLEUS	0.0774049418637692	7.42343323159832e-06	386	Subunit of GID Complex, binds strongly to central component Vid30p; GID Complex is involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; recruits Rmd5p, Fyv10 and Vid28p to GID Complex; contains LisH, CTLH, and CRA domains that mediate binding to Vid30p (LisH) and Rmd5p and Vid28p (CTLH and CRA); dosage-dependent regulator of START	negative regulation of gluconeogenesis|proteasomal ubiquitin-dependent protein catabolic process|traversing start control point of mitotic cell cycle	molecular_function	nucleus|GID complex|cytoplasm
YJR135W-A	TIM8	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0773720228437924	7.49021587941519e-06	387	Mitochondrial intermembrane space protein, forms a complex with Tim13p that delivers a subset of hydrophobic proteins to the TIM22 complex for inner membrane insertion; homolog of human TIMM8A, implicated in Mohr-Tranebjaerg syndrome	protein import into mitochondrial inner membrane	protein transporter activity	mitochondrion|integral to membrane|mitochondrial intermembrane space protein transporter complex
YMR257C	PET111	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0771910965036831	7.86763310783495e-06	388	Mitochondrial translational activator specific for the COX2 mRNA; located in the mitochondrial inner membrane	mitochondrial respiratory chain complex IV biogenesis|positive regulation of mitochondrial translation	translation regulator activity	mitochondrion|mitochondrial inner membrane
YDR432W	NPL3	hom	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RNA LOCALIZATION|NUCLEUS	0.0769033519734542	8.74647205649272e-06	389	RNA-binding protein; promotes elongation, regulates termination, and carries poly(A) mRNA from nucleus to cytoplasm; has a role in repressing translation initiation by binding eIF4G; required for pre-mRNA splicing; dissociation from mRNAs promoted by Mtr10p; phosphorylated by Sky1p in the cytoplasm; protein abundance increases in response to DNA replication stress	translational termination|mRNA export from nucleus|negative regulation of translation|mRNA splicing, via spliceosome|Unknown|positive regulation of transcription elongation from RNA polymerase II promoter	mRNA binding|RNA polymerase II core binding|eukaryotic initiation factor 4G binding|poly(A) RNA binding	nucleus|cytoplasm
YLR091W	GEP5	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0766276225639568	9.1629976265767e-06	390	Protein of unknown function, required for mitochondrial genome maintenance; detected in highly purified mitochondria in high-throughput studies; null mutant has decreased levels of cardiolipin and phosphatidylethanolamine	mitochondrial genome maintenance	molecular_function	mitochondrion
YOL099C_d	YOL099C	hom			0.076505336121312	9.46985890729666e-06	391	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene PKH2/YOL100W; may interact with ribosomes	Unknown	Unknown	Unknown
YBL100W-C_p	YBL100W-C	hom			0.0763650476306578	9.98567946434008e-06	392	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YPL157W	TGS1	hom	FT	CELL CYCLE|RNA PROCESSING|NUCLEUS	0.0760143166009795	1.08037067128112e-05	393	Trimethyl guanosine synthase, conserved nucleolar methyl transferase that converts the m(7)G cap structure of snRNAs, snoRNAs, and telomerase TLC1 RNA to m(2,2,7)G; also required for nucleolar assembly and splicing of meiotic pre-mRNAs	meiosis|RNA methylation|nucleologenesis|7-methylguanosine cap hypermethylation|regulation of telomere maintenance via telomerase	RNA methyltransferase activity	nucleolus
YGR167W	CLC1	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS|PLASMA MEMBRANE	0.0757623383843028	1.16610377190016e-05	394	Clathrin light chain; subunit of the major coat protein involved in intracellular protein transport and endocytosis; thought to regulate clathrin function; two Clathrin heavy chains (CHC1) form the clathrin triskelion structural component; YGR167W	endocytosis|vesicle-mediated transport	structural molecule activity	clathrin vesicle coat
YDL223C	HBT1	hom			0.0756554221721948	1.22163298478226e-05	395	Substrate of the Hub1p ubiquitin-like protein that localizes to the shmoo tip (mating projection); mutants are defective for mating projection formation, thereby implicating Hbt1p in polarized cell morphogenesis	cell morphogenesis involved in conjugation with cellular fusion	molecular_function	plasma membrane|mating projection
YBL071W-A	KTI11	hom	FT	RNA PROCESSING|NUCLEUS	0.0754258732219563	1.27146188198162e-05	396	Zn-ribbon protein that co-purifies with Dph1 and Dph2 in a complex required for synthesis of diphthamide on translation factor eEF2 and with Elongator subunits Iki3p, Elp2p, and Elp3p involved in modification of wobble nucleosides in tRNAs	peptidyl-diphthamide biosynthetic process from peptidyl-histidine|tRNA wobble uridine modification	electron carrier activity|iron ion binding|zinc ion binding	nucleus|cytoplasm
YNR037C	RSM19	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0754167054879268	1.26696372183879e-05	397	Mitochondrial ribosomal protein of the small subunit, has similarity to E. coli S19 ribosomal protein	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YLR260W	LCB5	hom	FT	LIPID METABOLISM|SIGNALING|PROTEIN PHOSPHORYLATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0752459830871582	1.37797225898046e-05	398	Minor sphingoid long-chain base kinase, paralog of Lcb4p responsible for few percent of the total activity, possibly involved in synthesis of long-chain base phosphates, which function as signaling molecules	response to heat|calcium-mediated signaling|sphingolipid metabolic process	D-erythro-sphingosine kinase activity	Golgi apparatus|membrane
YJL187C	SWE1	hom	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|NUCLEUS|SITE OF POLARIZED GROWTH	0.0749135591000219	1.44752471310561e-05	399	Protein kinase that regulates the G2/M transition by inhibition of Cdc28p kinase activity; localizes to the nucleus and to the daughter side of the mother-bud neck; homolog of S. pombe Wee1p; potential Cdc28p substrate	negative regulation of spindle pole body separation|G2/M transition size control checkpoint|protein phosphorylation|re-entry into mitotic cell cycle|G2/M transition of mitotic cell cycle|cell shape checkpoint|regulation of cyclin-dependent protein kinase activity|regulation of cell size|regulation of meiosis	protein tyrosine kinase activity|protein kinase activity	nucleus|cellular bud neck
YNL120C_d	YNL120C	hom			0.0747544485076251	1.50955544918628e-05	400	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; deletion enhances replication of Brome mosaic virus in S. cerevisiae, but likely due to effects on the overlapping gene	Unknown	Unknown	Unknown
YPL202C	AFT2	hom	FT	TRANSCRIPTION FROM RNA POL II|ION HOMEOSTASIS|ION HOMEOSTASIS|RESPONSE TO NUTRIENT LEVELS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|MITOCHONDRION	0.0747322142872702	1.52288908389362e-05	401	Iron-regulated transcriptional activator; activates genes involved in intracellular iron use and required for iron homeostasis and resistance to oxidative stress; AFT2 has a paralog, AFT1, that arose from the whole genome duplication	cellular response to oxidative stress|cellular iron ion homeostasis|positive regulation of transcription from RNA polymerase II promoter in response to iron ion starvation|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	mitochondrion|nucleus
YAL009W	SPO7	hom	FF|FT	CELL CYCLE|LIPID METABOLISM|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0743364113938118	1.68973686669992e-05	402	Putative regulatory subunit of Nem1p-Spo7p phosphatase holoenzyme, regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology, premeiotic replication, and sporulation	negative regulation of phospholipid biosynthetic process|nuclear envelope organization	phosphoprotein phosphatase activity	Nem1-Spo7 phosphatase complex|integral to membrane
YEL006W	YEA6	hom	FT	MITOCHONDRION	0.0737334205451744	1.9721304068477e-05	403	Putative mitochondrial NAD+ transporter, member of the mitochondrial carrier subfamily (see also YIA6); has putative human ortholog	transport|NAD transmembrane transport	transporter activity|NAD transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YCL044C	MGR1	hom	FT	PROTEOLYSIS|MITOCHONDRION	0.0737157575435712	2.02708121041796e-05	404	Subunit of the mitochondrial (mt) i-AAA protease supercomplex, which degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr3p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA	misfolded or incompletely synthesized protein catabolic process	misfolded protein binding	mitochondrion|i-AAA complex
YER074W	RPS24A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|MITOCHONDRION|RIBOSOME	0.0735463087367891	2.07037767050693e-05	405	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24A has a paralog, RPS24B, that arose from the whole genome duplication	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	cytosolic small ribosomal subunit|mitochondrion
YMR304W	UBP15	hom	FT	PROTEOLYSIS	0.073405672864068	2.17178360147296e-05	406	Ubiquitin-specific protease involved in protein deubiquitination; catalytic activity regulated by an N-terminal TRAF-like domain and and C-terminal sequences; physically interacts with anaphase-promoting complex/cyclosome (APC/C) activator, Cdh1p; forms a complex with AAA peroxins Pex1p and Pex6p	protein deubiquitination	ubiquitin-specific protease activity	peroxisome|cytoplasm
YER153C	PET122	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0733896436704652	2.15620378406069e-05	407	Mitochondrial translational activator specific for the COX3 mRNA, acts together with Pet54p and Pet494p; located in the mitochondrial inner membrane	positive regulation of mitochondrial translation|mitochondrial respiratory chain complex IV biogenesis	translation initiation factor activity	mitochondrion|mitochondrial inner membrane|integral to mitochondrial inner membrane
YDR332W	IRC3	hom	FT	MITOCHONDRION	0.0733096076212999	2.20134617923743e-05	408	Putative RNA helicase of the DEAH/D-box family; null mutant displays increased levels of spontaneous Rad52p foci; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion	biological_process	ATP-dependent RNA helicase activity	mitochondrion
YPL052W	OAZ1	hom	FT	TRANSLATION|PROTEOLYSIS	0.0732010719637572	2.29618221518818e-05	409	Regulator of ornithine decarboxylase (Spe1p), antizyme that binds to Spe1p to stimulate ubiquitin-independent degradation by the proteasome; binding of polyamines to nascent Oaz1p during translation stimulates +1 ribosomal frameshifting, allowing translation of full-length Oaz1p	Unknown|regulation of proteasomal protein catabolic process	ornithine decarboxylase inhibitor activity	cytoplasm
YML090W_d	YML090W	hom			0.0731520782392102	2.29283659138669e-05	410	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YML089C; exhibits growth defect on a non-fermentable (respiratory) carbon source	Unknown	Unknown	Unknown
YHR091C	MSR1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0731294881414523	2.30624938294408e-05	411	Mitochondrial arginyl-tRNA synthetase; mutations in human ortholog are associated with pontocerebellar hypoplasia type 6	arginyl-tRNA aminoacylation|mitochondrial arginyl-tRNA aminoacylation|mitochondrial translation	arginine-tRNA ligase activity	mitochondrion
YML085C	TUB1	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|NUCLEOTIDE METABOLISM|CHROMOSOME SEGREGATION|NUCLEUS|CYTOSKELETON	0.0730783502783773	2.35669812082597e-05	412	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; relative distribution to nuclear foci increases upon DNA replication stress; TUB1 has a paralog, TUB3, that arose from the whole genome duplication	nuclear migration along microtubule|nuclear migration involved in conjugation with cellular fusion|homologous chromosome segregation|mitotic sister chromatid segregation	structural constituent of cytoskeleton	tubulin complex|cytoplasmic microtubule|kinetochore microtubule|nuclear microtubule|spindle pole body|polar microtubule
YGL143C	MRF1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0728611486021754	2.4992047255552e-05	413	Mitochondrial translation release factor, involved in stop codon recognition and hydrolysis of the peptidyl-tRNA bond during mitochondrial translation; lack of MRF1 causes mitochondrial genome instability	translational termination|mitochondrial translational termination|mitochondrial translation	translation release factor activity	mitochondrion
YHR082C	KSP1	hom	FT	PROTEIN LOCALIZATION|SIGNALING|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0728488396241787	2.47923082783979e-05	414	Serine/threonine protein kinase; associates with TORC1 and likely involved in TOR signaling cascades; negative regulator of autophagy; nuclear translocation required for haploid filamentous growth; regulates filamentous growth induced nuclear translocation of Bcy1p, Fus3p, and Sks1p; overproduction causes allele-specific suppression of prp20-10; protein abundance increases in response to DNA replication stress	TOR signaling cascade|protein phosphorylation|Unknown|cellular protein localization|regulation of filamentous growth|negative regulation of macroautophagy	protein serine/threonine kinase activity|protein kinase activity	nucleus|cytoplasm
YOR251C	TUM1	hom	FT	RNA PROCESSING|MITOCHONDRION	0.0727738375795715	2.5345725484804e-05	415	Rhodanese domain sulfur transferase, accepts persulfite from Nfs1p and transfers it to Uba4p in the pathway for 2-thiolation of the wobble uridine base of tRNAs; also stimulates sulfur transfer by Nfs1p; may be mitochondrially localized	tRNA wobble position uridine thiolation|tRNA wobble uridine modification	thiosulfate sulfurtransferase activity	cytoplasm
YCR028C-A	RIM1	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0727545304591158	2.54007913533087e-05	416	Single-stranded DNA-binding protein essential for mitochondrial genome maintenance; involved in mitochondrial DNA replication	mitochondrial DNA replication|mitochondrial genome maintenance	single-stranded DNA binding	mitochondrial nucleoid|mitochondrion
YPR057W	BRR1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0725734571652209	2.66090981421556e-05	417	snRNP protein component of spliceosomal snRNPs, required for pre-mRNA splicing and snRNP biogenesis; in null mutant newly-synthesized snRNAs are destabilized and 3'-end processing is slowed	spliceosomal complex assembly	RNA binding	small nuclear ribonucleoprotein complex
YOR358W	HAP5	hom	FT	TRANSCRIPTION FROM RNA POL II|OXIDATION-REDUCTION PROCESS|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.0725301047258	2.69063920073453e-05	418	Subunit of the heme-activated, glucose-repressed Hap2/3/4/5 CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; required for assembly and DNA binding activity of the complex	carbon catabolite activation of transcription from RNA polymerase II promoter|regulation of cellular respiration	RNA polymerase II core promoter proximal region sequence-specific DNA binding|DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	CCAAT-binding factor complex
YPL209C	IPL1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0722954226702465	2.85713343745889e-05	419	Aurora kinase subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), involved in regulating kinetochore-microtubule attachments; helps maintain condensed chromosomes during anaphase and early telophase; required for SPB cohesion and prevention of multipolar spindle formation; localizes to nuclear foci that become diffuse upon DNA replication stress; required for inhibition of karyopherin/importin Pse1p (aka Kap121p) upon SAC arrest	spindle checkpoint|attachment of spindle microtubules to kinetochore|chromosome segregation|mitotic spindle disassembly|protein phosphorylation|meiotic sister chromatid segregation|homologous chromosome segregation|regulation of cytokinesis|mitotic cell cycle G2/M transition decatenation checkpoint	protein kinase activity	spindle microtubule|spindle midzone|chromosome passenger complex|condensed nuclear chromosome kinetochore|kinetochore microtubule|spindle
YIL093C	RSM25	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0722270618728307	2.90744387197299e-05	420	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YNL071W	LAT1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0721555196593053	2.96099650421497e-05	421	Dihydrolipoamide acetyltransferase component (E2) of pyruvate dehydrogenase complex, which catalyzes the oxidative decarboxylation of pyruvate to acetyl-CoA	acetyl-CoA biosynthetic process from pyruvate	dihydrolipoyllysine-residue acetyltransferase activity	mitochondrion|mitochondrial pyruvate dehydrogenase complex
YIL015W	BAR1	hom	FT	SIGNALING|PROTEOLYSIS	0.0720043176590236	3.07727734259097e-05	422	Aspartyl protease secreted into the periplasmic space of mating type a cells, helps cells find mating partners, cleaves and inactivates alpha factor allowing cells to recover from alpha-factor-induced cell cycle arrest	adaptation of signaling pathway by response to pheromone involved in conjugation with cellular fusion|peptide catabolic process	aspartic-type endopeptidase activity	cell wall-bounded periplasmic space
YMR272C	SCS7	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0719756704440847	3.14244141019846e-05	423	Sphingolipid alpha-hydroxylase, functions in the alpha-hydroxylation of sphingolipid-associated very long chain fatty acids, has both cytochrome b5-like and hydroxylase/desaturase domains, not essential for growth	inositolphosphoceramide metabolic process	fatty acid alpha-hydroxylase activity	integral to membrane|endoplasmic reticulum|membrane
YGL118C_d	YGL118C	hom			0.0717844891472807	3.25409771473342e-05	424	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGL072C_d	YGL072C	hom	FF		0.0717003950270948	3.32425708498922e-05	425	Dubious open reading frame unlikely to encode a protein; partially overlaps the verified gene HSF1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2	Unknown	Unknown	Unknown
YKL213C	DOA1	hom	FT	RESPONSE TO DNA DAMAGE|PROTEOLYSIS|NUCLEUS	0.071397386587042	3.71695129339658e-05	426	WD repeat protein required for ubiquitin-mediated protein degradation; forms a complex with Cdc48p; plays a role in controlling cellular ubiquitin concentration; also promotes efficient NHEJ in postdiauxic/stationary phase; protein increases in abundance and relocalizes from nucleus to nuclear periphery upon DNA replication stress	double-strand break repair via nonhomologous end joining|ubiquitin-dependent protein catabolic process	ubiquitin binding	nucleus|cytoplasm
YMR275C	BUL1	hom	FT	MITOCHONDRION ORGANIZATION|PLASMA MEMBRANE|UBIQUITIN LIGASE COMPLEX	0.0713644268804139	3.61914679244476e-05	427	Ubiquitin-binding component of the Rsp5p E3-ubiquitin ligase complex; disruption causes temperature-sensitive growth, overexpression causes missorting of amino acid permeases; BUL1 has a paralog, BUL2, that arose from the whole genome duplication	mitochondrion inheritance|protein monoubiquitination|protein polyubiquitination	ubiquitin-ubiquitin ligase activity	ubiquitin ligase complex|plasma membrane
YDR460W	TFB3	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0713275938336536	3.66277114278286e-05	428	Subunit of TFIIH and nucleotide excision repair factor 3 complexes, involved in transcription initiation, required for nucleotide excision repair; ring finger protein similar to mammalian CAK and TFIIH subunit	phosphorylation of RNA polymerase II C-terminal domain|nucleotide-excision repair|transcription from RNA polymerase II promoter	core RNA polymerase binding transcription factor activity	holo TFIIH complex|TFIIK complex
YHR007C	ERG11	het	FF|FT	LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|ENDOPLASMIC RETICULUM	0.0706336978389364	4.34850154583561e-05	429	Lanosterol 14-alpha-demethylase; catalyzes the C-14 demethylation of lanosterol to form 4,4''-dimethyl cholesta-8,14,24-triene-3-beta-ol in the ergosterol biosynthesis pathway; member of the cytochrome P450 family; associated and coordinately regulated with the P450 reductase Ncp1p	ergosterol biosynthetic process	sterol 14-demethylase activity	endoplasmic reticulum
YBR039W	ATP3	hom	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.0702230011000271	4.81751153219149e-05	430	Gamma subunit of the F1 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis	ATP synthesis coupled proton transport	proton-transporting ATPase activity, rotational mechanism	mitochondrion|integral to membrane|mitochondrial proton-transporting ATP synthase, central stalk
YML110C	COQ5	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0702167614310029	4.82499380205412e-05	431	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase, involved in ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes	ubiquinone biosynthetic process|aerobic respiration	2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase activity	mitochondrion|mitochondrial matrix
YMR289W	ABZ2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|COFACTOR METABOLISM	0.0701776816195573	4.987642527537e-05	432	Aminodeoxychorismate lyase (4-amino-4-deoxychorismate lyase), catalyzes the third step in para-aminobenzoic acid biosynthesis; involved in folic acid biosynthesis	folic acid biosynthetic process	4-amino-4-deoxychorismate lyase activity	cytoplasm
YMR156C	TPP1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.0701256673778001	4.93549055226531e-05	433	DNA 3'-phosphatase; functions in repair of endogenous damage of double-stranded DNA, activity is specific for removal of 3' phosphates at strand breaks; similar to the l-2-haloacid dehalogenase superfamily; homolog of human polynucleotide kinase/3&#8242;-phosphatase	DNA repair	polynucleotide 3'-phosphatase activity	cellular_component
YNL032W	SIW14	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION	0.0701120500374484	4.95221291252704e-05	434	Tyrosine phosphatase that plays a role in actin filament organization and endocytosis; localized to the cytoplasm	actin filament organization|endocytosis|protein dephosphorylation|response to stress	protein tyrosine phosphatase activity	cytoplasm
YHL039W	EFM1	hom			0.0700966461963828	4.97119383769371e-05	435	Lysine methyltransferase involved in the monomethylation of eEF1A (Tef1p/Tef2p); SET-domain family member; predicted involvement in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm	peptidyl-lysine monomethylation	protein-lysine N-methyltransferase activity	cytoplasm
YBL029C-A	YBL029C-A	hom	FT	PLASMA MEMBRANE	0.07004602123878	5.03406162844048e-05	436	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; protein abundance increases in response to DNA replication stress; has potential orthologs in Saccharomyces species and in Yarrowia lipolytica	biological_process	molecular_function	plasma membrane
YBL012C_d	YBL012C	hom			0.0698934640499366	5.22809874895232e-05	437	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDL002C	NHP10	hom	FT	CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0698865513698098	5.23705661604499e-05	438	Protein related to mammalian high mobility group proteins; preferentially binds DNA ends, protecting them from exonucleatic cleavage; likely component of the chromatin-remodeling complex INO80 complex; proposed to be involved in DNA repair	double-strand break repair|nucleosome mobilization	DNA end binding|loop DNA binding	nucleus|Ino80 complex
YML054C-A_p	YML054C-A	hom			0.0698480811254702	5.28717485180842e-05	439	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YOR068C	VAM10	hom	FT	MEMBRANE ORGANIZATION	0.0697356114032805	5.43631642901212e-05	440	Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering	vacuole fusion, non-autophagic	molecular_function	fungal-type vacuole membrane
YNL130C-A_p	DGR1	hom	FT	MITOCHONDRION	0.0697221135252925	5.45448084830543e-05	441	Protein of unknown function; dgr1 null mutant is resistant to 2-deoxy-D-glucose	biological_process	molecular_function	cellular_component
YDR418W	RPL12B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0697072153195491	5.47459644640798e-05	442	Ribosomal 60S subunit protein L12B; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12B has a paralog, RPL12A, that arose from the whole genome duplication	cytoplasmic translation|ribosomal large subunit assembly	structural constituent of ribosome	cytosolic large ribosomal subunit
YBL041W	PRE7	het	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0696631116889959	5.67851371149847e-05	443	Beta 6 subunit of the 20S proteasome	proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	molecular_function	nucleus|proteasome storage granule|endoplasmic reticulum membrane|proteasome core complex, beta-subunit complex
YJR014W	TMA22	hom	FT	TRANSLATION|RIBOSOME	0.069484365093083	5.85836992523464e-05	444	Protein of unknown function; associates with ribosomes and has a putative RNA binding domain; interacts with Tma20p; similar to human GRAP and human DRP1, which interacts with human Tma20p homolog MCT-1; protein abundance increases in response to DNA replication stress	biological_process	RNA binding	ribosome|cytoplasm
YMR228W	MTF1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0693373580962164	5.99709015000449e-05	445	Mitochondrial RNA polymerase specificity factor; has structural similarity to S-adenosylmethionine-dependent methyltransferases and functional similarity to bacterial sigma-factors; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation	transcription initiation from mitochondrial promoter	mitochondrial RNA polymerase binding promoter specificity activity	mitochondrion|mitochondrial DNA-directed RNA polymerase complex|mitochondrial matrix|mitochondrial intermembrane space
YPR060C	ARO7	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0693094268067547	6.03840803729666e-05	446	Chorismate mutase, catalyzes the conversion of chorismate to prephenate to initiate the tyrosine/phenylalanine-specific branch of aromatic amino acid biosynthesis	aromatic amino acid family biosynthetic process	chorismate mutase activity	nucleus|cytoplasm
YFL022C	FRS2	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.0692253034536183	6.16448283487623e-05	447	Alpha subunit of cytoplasmic phenylalanyl-tRNA synthetase, forms a tetramer with Frs1p to form active enzyme; evolutionarily distant from mitochondrial phenylalanyl-tRNA synthetase based on protein sequence, but substrate binding is similar	phenylalanyl-tRNA aminoacylation	phenylalanine-tRNA ligase activity	phenylalanine-tRNA ligase complex|cytoplasm
YIL103W	DPH1	hom			0.0691242097376096	6.38356051399354e-05	448	Protein required, along with Dph2p, Kti11p, Jjj3p, and Dph5p, for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph2p and Kti11p	peptidyl-diphthamide biosynthetic process from peptidyl-histidine	molecular_function	cytoplasm
YOL100W	PKH2	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|RNA PROCESSING|SIGNALING|CELL WALL ORG/BIOGENESIS|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0688771422186867	6.71324388724102e-05	449	Serine/threonine protein kinase involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; redundant with Pkh1p	regulation of nuclear-transcribed mRNA poly(A) tail shortening|protein phosphorylation|MAPK cascade involved in cell wall biogenesis|cytoplasmic mRNA processing body assembly	protein kinase activity	cell cortex|eisosome|nucleus
YDR519W	FPR2	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0688615367091142	6.73889176269106e-05	450	Membrane-bound peptidyl-prolyl cis-trans isomerase (PPIase); binds to the drugs FK506 and rapamycin; expression pattern suggests possible involvement in ER protein trafficking; relocalizes from nucleus to vacuole upon DNA replication stress	biological_process	FK506 binding|peptidyl-prolyl cis-trans isomerase activity	endoplasmic reticulum membrane
YKL029C	MAE1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.0687825872922068	6.95670169570517e-05	451	Mitochondrial malic enzyme, catalyzes the oxidative decarboxylation of malate to pyruvate, which is a key intermediate in sugar metabolism and a precursor for synthesis of several amino acids	pyruvate metabolic process|cellular amino acid metabolic process	malic enzyme activity	mitochondrion
YCR082W	AHC2	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0686412996116615	7.11088363649014e-05	452	Component of the ADA histone acetyltransferase complex; Ach2p and Ach1p are unique to the ADA complex and not shared with the related SAGA and SLIK complexes; may tether Ach1p to the complex	histone acetylation	histone acetyltransferase activity	Ada2/Gcn5/Ada3 transcription activator complex|nucleus|cytoplasm
YDR065W	RRG1	hom	FT	ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.0686367664697043	7.11874052024745e-05	453	Protein of unknown function, required for vacuolar acidification and mitochondrial genome maintenance; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	mitochondrial genome maintenance|vacuolar acidification	molecular_function	mitochondrion
YMR193W	MRPL24	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0682227740724919	7.89136560750673e-05	454	Mitochondrial ribosomal protein of the large subunit; two mitochondrial ribosomal proteins, YmL14 and YmL24, have been assigned to the same gene	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YKL169C_d	YKL169C	hom			0.0680511151845223	8.40979914919034e-05	455	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL38	Unknown	Unknown	Unknown
YKL191W	DPH2	hom			0.0678848157599386	8.54196909571624e-05	456	Protein required, along with Dph1p, Kti11p, Jjj3p, and Dph5p, for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph1p and Kti11p	peptidyl-diphthamide biosynthetic process from peptidyl-histidine	molecular_function	cytoplasm
YML078W	CPR3	hom	FT	MITOCHONDRION	0.0678555452354355	8.60246970852901e-05	457	Mitochondrial peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; involved in protein refolding after import into mitochondria	protein folding|apoptotic process	peptidyl-prolyl cis-trans isomerase activity	mitochondrion
YNR036C	MRPS12	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0678490616256415	8.74308342931601e-05	458	Mitochondrial protein; may interact with ribosomes based on co-purification experiments; similar to E. coli and human mitochondrial S12 ribosomal proteins	mitochondrial translation	structural constituent of ribosome	mitochondrion|ribosome|mitochondrial small ribosomal subunit
YMR293C	HER2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION	0.067749618216789	8.93291105261702e-05	459	Subunit of the trimeric GatFAB AmidoTransferase(AdT) complex; involved in the formation of Q-tRNAQ; required for remodeling of ER caused by Hmg2p overexpression; similar to bacterial GatA glutamyl-tRNA amidotransferase	endoplasmic reticulum organization|glutaminyl-tRNAGln biosynthesis via transamidation	glutaminyl-tRNA synthase (glutamine-hydrolyzing) activity	mitochondrion|glutamyl-tRNA(Gln) amidotransferase complex
YCL063W	VAC17	hom			0.0673843223781827	9.63392994719289e-05	460	Phosphoprotein involved in vacuole inheritance; degraded in late M phase of the cell cycle; acts as a vacuole-specific receptor for myosin Myo2p	vacuole inheritance	protein anchor	fungal-type vacuole membrane
YLR270W	DCS1	hom	FT	NUCLEUS|MITOCHONDRION	0.0673459716562427	9.72282257286991e-05	461	Non-essential hydrolase involved in mRNA decapping; activates Xrn1p; may function in a feedback mechanism to regulate deadenylation, contains pyrophosphatase activity and a HIT (histidine triad) motif; interacts with neutral trehalase Nth1p; required for growth on glycerol medium; protein abundance increases in response to DNA replication stress	deadenylation-dependent decapping of nuclear-transcribed mRNA|positive regulation of nuclease activity|nuclear-transcribed mRNA catabolic process, deadenylation-independent decay	hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides|enzyme activator activity|m7G(5')pppN diphosphatase activity	mitochondrion|nucleus|cytoplasmic mRNA processing body|cytoplasm
YNR016C	ACC1	het	FF|FT	PROTEIN LOCALIZATION|KETONE METABOLISM|LIPID METABOLISM|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0668661534439468	0.000109024571285341	462	Acetyl-CoA carboxylase, biotin containing enzyme; catalyzes the carboxylation of cytosolic acetyl-CoA to form malonyl-CoA and regulates histone acetylation by regulating the availablity of acetyl-CoA; required for de novo biosynthesis of long-chain fatty acids;	nuclear envelope organization|protein import into nucleus|fatty acid biosynthetic process	biotin carboxylase activity|acetyl-CoA carboxylase activity	mitochondrion|endoplasmic reticulum membrane
YML001W	YPT7	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|VACUOLAR TRANSPORT|MITOCHONDRION	0.0668403975034006	0.000111003851526717	463	Rab family GTPase; GTP-binding protein of the rab family; required for homotypic fusion event in vacuole inheritance, for endosome-endosome fusion; interacts with the cargo selection/retromer complex for retrograde sorting; similar to mammalian Rab7	regulation of vacuole fusion, non-autophagic|piecemeal microautophagy of nucleus|vacuole inheritance|Golgi to vacuole transport|vesicle-mediated transport|endocytosis	GTPase activity	mitochondrial outer membrane|fungal-type vacuole
YIL026C	IRR1	het	FF|FT	CELL CYCLE|CELL WALL ORG/BIOGENESIS|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0667645361443138	0.000113020582872051	464	Subunit of the cohesin complex, which is required for sister chromatid cohesion during mitosis and meiosis and interacts with centromeres and chromosome arms, essential for viability	spore germination|fungal-type cell wall organization|cytogamy|mitotic sister chromatid cohesion	chromatin binding	nucleus|nuclear mitotic cohesin complex
YKL002W	DID4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT	0.0665382403304018	0.000118683899481057	465	Class E Vps protein of the ESCRT-III complex, required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis	protein retention in Golgi apparatus|intralumenal vesicle formation|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|late endosome to vacuole transport	molecular_function	ESCRT III complex|cytoplasm
YNL073W	MSK1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|RNA LOCALIZATION|MITOCHONDRION	0.0665297294920062	0.000118086906108791	466	Mitochondrial lysine-tRNA synthetase, required for import of both aminoacylated and deacylated forms of tRNA(Lys) into mitochondria and for aminoacylation of mitochondrially encoded tRNA(Lys)	tRNA import into mitochondrion|lysyl-tRNA aminoacylation|mitochondrial lysyl-tRNA aminoacylation|mitochondrial translation	lysine-tRNA ligase activity	mitochondrion
YJR151W-A_p	YJR151W-A	hom			0.0663677657505338	0.00012385320076248	467	Putative protein of unknown function; identified by fungal homology and RT-PCR; predicted to have a role in transcription based on computational guilt by association analysis	biological_process	molecular_function	cellular_component
YGR065C	VHT1	het	FT	PLASMA MEMBRANE	0.0661583823399981	0.000130118186088537	468	High-affinity plasma membrane H+-biotin (vitamin H) symporter; mutation results in fatty acid auxotrophy; 12 transmembrane domain containing major facilitator subfamily member; mRNA levels negatively regulated by iron deprivation and biotin	biotin transport	biotin transporter activity	integral to membrane|plasma membrane
YNL177C	MRPL22	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0661226787815125	0.00013000120445501	469	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YGL006W-A_p	YGL006W-A	hom			0.0660771684886167	0.000131401506792988	470	Putative protein of unknown function; identified by SAGE	biological_process	molecular_function	cellular_component
YIL135C	VHS2	hom	FT	CELL CYCLE	0.0660540710152111	0.000132117613989217	471	Cytoplasmic protein of unknown function; identified as a high-copy suppressor of the synthetic lethality of a sis2 sit4 double mutant, suggesting a role in G1/S phase progression; similar to Mlf3p	G1/S transition of mitotic cell cycle	molecular_function	cytoplasm
YDL077C	VAM6	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION	0.0658831012890339	0.000137533744598389	472	Vacuolar protein that plays a critical role in the tethering steps of vacuolar membrane fusion by facilitating guanine nucleotide exchange on small guanosine triphosphatase Ypt7p	regulation of SNARE complex assembly|regulation of vacuole fusion, non-autophagic|piecemeal microautophagy of nucleus|vesicle-mediated transport|vacuole organization|vacuole fusion, non-autophagic	Rab guanyl-nucleotide exchange factor activity|phosphatidylinositol binding	fungal-type vacuole membrane|HOPS complex|fungal-type vacuole
YGL238W	CSE1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.0657089541325285	0.000144587610503324	473	Nuclear envelope protein that mediates the nuclear export of importin alpha (Srp1p), homolog of metazoan CAS protein, required for accurate chromosome segregation	protein export from nucleus	importin-alpha export receptor activity	nuclear envelope|integral to membrane
YIL149C	MLP2	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CYTOSKELETON ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION|CYTOSKELETON	0.0655751161515005	0.000147821648118623	474	Myosin-like protein associated with the nuclear envelope, connects the nuclear pore complex with the nuclear interior; involved in the Tel1p pathway that controls telomere length	poly(A)+ mRNA export from nucleus|posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery|regulation of transcription, DNA-dependent|telomere tethering at nuclear periphery|spindle pole body organization|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery	ribonucleoprotein complex binding	nucleoplasm|nuclear envelope|mitochondrion|ribonucleoprotein complex|integral to membrane|spindle pole body
YHR168W	MTG2	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|MITOCHONDRION	0.06553017065689	0.000149724016325232	475	Putative GTPase, member of the Obg family; peripheral protein of the mitochondrial inner membrane that associates with the large ribosomal subunit; required for mitochondrial translation, possibly via a role in ribosome assembly	cytoplasmic translation	ribosome binding|GTPase activity	mitochondrial inner membrane|extrinsic to membrane
YIL101C	XBP1	hom	FT	NUCLEUS	0.0655200619433794	0.000149735331039066	476	Transcriptional repressor; binds to promoter sequences of the cyclin genes, CYS3, and SMF2; expression is induced by stress or starvation during mitosis, and late in meiosis; member of the Swi4p/Mbp1p family; potential Cdc28p substrate; relative distribution to the nucleus increases upon DNA replication stress	response to stress	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YDR082W	STN1	het	FT	NUCLEUS|CHROMOSOME	0.0653481935837808	0.000156927232532469	477	Telomere end-binding and capping protein, plays a key role with Pol12p in linking telomerase action with completion of lagging strand synthesis, and in a regulatory step required for telomere capping	telomere capping|negative regulation of telomere maintenance via telomerase	single-stranded telomeric DNA binding	nuclear telomere cap complex
YGR054W	YGR054W	hom	FT	TRANSLATION	0.0652150678226137	0.000160766216401611	478	Eukaryotic initiation factor (eIF) 2A; associates specifically with both 40S subunits and 80 S ribosomes, and interacts genetically with both eIF5b and eIF4E; homologous to mammalian eIF2A	translational initiation	translation initiation factor activity	cytosolic ribosome|cytosolic small ribosomal subunit|ribosome
YLL006W	MMM1	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.065145660675218	0.000164121296537991	479	ER integral membrane protein, component of the ERMES complex that links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth	mitochondrion organization|mitochondrial genome maintenance|protein import into mitochondrial outer membrane|phospholipid transport	molecular_function	mitochondrial outer membrane|mitochondrion|integral to endoplasmic reticulum membrane|ERMES complex
YPL235W	RVB2	het	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0649011049286228	0.000176049384304917	480	ATP-dependent DNA helicase, also known as reptin; member of the AAA+ and RuvB protein families, similar to Rvb1p; conserved component of multiple complexes including the INO80 complex, the Swr1 complex, and the R2TP complex (Rvb1-Rvb2-Tah1-Pih1); involved in multiple processes such as chromatin remodeling, box C/D snoRNP assembly, and RNA polymerase II assembly	regulation of transcription from RNA polymerase II promoter|rRNA processing|chromatin remodeling|box C/D snoRNP assembly|histone exchange	ATP-dependent 5'-3' DNA helicase activity|ATP-dependent 3'-5' DNA helicase activity	nuclear telomeric heterochromatin|ASTRA complex|R2TP complex|Swr1 complex|nucleus|Ino80 complex
YLL026W	HSP104	hom	FT	PROTEIN LOCALIZATION|CARBOHYDRATE METABOLISM|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0648441090964215	0.000175213271639022	481	Disaggregase; heat shock protein that cooperates with Ydj1p (Hsp40) and Ssa1p (Hsp70) to refold and reactivate previously denatured, aggregated proteins; responsive to stresses including: heat, ethanol, and sodium arsenite; involved in [PSI+] propagation; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress	trehalose metabolism in response to heat stress|protein folding in endoplasmic reticulum|protein unfolding|chaperone cofactor-dependent protein refolding|inheritance of oxidatively modified proteins involved in replicative cell aging|cellular heat acclimation	ADP binding|unfolded protein binding|ATPase activity, coupled|chaperone binding|ATP binding	TRC complex|nucleus|cytoplasm
YDR155C	CPR1	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CHROMATIN ORGANIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.0645656414681511	0.000190625528879123	482	Cytoplasmic peptidyl-prolyl cis-trans isomerase (cyclophilin); catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds the drug cyclosporin A; protein abundance increases in response to DNA replication stress	cellular protein metabolic process|ascospore formation|positive regulation of meiosis|histone deacetylation	peptidyl-prolyl cis-trans isomerase activity|cyclosporin A binding	histone deacetylase complex|mitochondrion|Set3 complex|nucleus
YIL097W	FYV10	hom	FT	KETONE METABOLISM|CARBOHYDRATE METABOLISM|PROTEOLYSIS|NUCLEUS	0.0645214636186296	0.000190445656595488	483	Subunit of GID complex; involved in proteasome-dependent catabolite inactivation of gluconeogenic enzymes FBPase, PEPCK, and c-MDH; forms dimer with Rmd5p that is then recruited to GID Complex by Gid8p; contains a degenerate RING finger motif needed for GID complex ubiquitin ligase activity in vivo, as well as CTLH and CRA domains; plays role in anti-apoptosis; required for survival upon exposure to K1 killer toxin	negative regulation of gluconeogenesis|proteasomal ubiquitin-dependent protein catabolic process|anti-apoptosis	ubiquitin-protein ligase activity	nucleus|GID complex|cytoplasm
YLL029W	FRA1	hom	FT	TRANSCRIPTION FROM RNA POL II|PROTEOLYSIS	0.0644585441744467	0.000192793922447882	484	Protein involved in negative regulation of transcription of iron regulon; forms an iron independent complex with Fra2p, Grx3p, and Grx4p; cytosolic; mutant fails to repress transcription of iron regulon and is defective in spore formation	negative regulation of transcription from RNA polymerase II promoter in response to iron	molecular_function	cytosol|cytoplasm
YOL033W	MSE1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0643918628322336	0.000194477259178523	485	Mitochondrial glutamyl-tRNA synthetase, predicted to be palmitoylated	mitochondrial glutamyl-tRNA aminoacylation|glutamyl-tRNA aminoacylation|mitochondrial translation	glutamate-tRNA(Gln) ligase activity|glutamate-tRNA ligase activity	mitochondrion
YGR012W	YGR012W	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0641702838641133	0.000204625832479256	486	Putative cysteine synthase, localized to the mitochondrial outer membrane	cysteine biosynthetic process	cysteine synthase activity	mitochondrial outer membrane|mitochondrion
YBR248C	HIS7	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEOTIDE METABOLISM	0.0640730034872908	0.000211077758825385	487	Imidazole glycerol phosphate synthase (glutamine amidotransferase:cyclase), catalyzes the fifth step of histidine biosynthesis and also produces 5-aminoimidazole-4-carboxamide ribotide (AICAR), a purine precursor	purine nucleoside monophosphate biosynthetic process|histidine biosynthetic process	imidazoleglycerol-phosphate synthase activity	intracellular
YDR241W_d	BUD26	hom			0.0640374232593026	0.000210947301210334	488	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 1% of ORF overlaps the verified gene SNU56; diploid mutant displays a weak budding pattern phenotype in a systematic assay	Unknown	Unknown	Unknown
YPR065W	ROX1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|CHROMOSOME	0.0639046522047939	0.00021744729643541	489	Heme-dependent repressor of hypoxic genes; mediates aerobic transcriptional repression of hypoxia induced genes such as COX5b and CYC7; repressor function regulated through decreased promoter occupancy in response to oxidative stress; contains an HMG domain that is responsible for DNA bending activity; involved in the hyperosmotic stress resistance	negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter in response to stress	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|DNA binding, bending|sequence-specific DNA binding|RNA polymerase II transcription factor recruiting transcription factor activity	nuclear chromatin
YOR008C	SLG1	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|SIGNALING|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|PEROXISOME ORGANIZATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.0637471732503869	0.000226872062622627	490	Sensor-transducer of the stress-activated PKC1-MPK1 kinase pathway; involved in maintenance of cell wall integrity; required for mitophagy; involved in organization of the actin cytoskeleton; secretory pathway Wsc1p is required for the arrest of secretion response	positive regulation of endocytosis|Rho protein signal transduction|actin cytoskeleton organization|fungal-type cell wall organization|response to heat|peroxisome degradation|establishment of cell polarity|response to osmotic stress	transmembrane signaling receptor activity	plasma membrane|mating projection tip|cellular bud neck
YOR211C	MGM1	hom	FT	MEMBRANE ORGANIZATION|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0636151850966935	0.000232275807594156	491	Mitochondrial GTPase, present in complex with Ugo1p and Fzo1p; required for mt morphology and genome maintenance; exists as long and short form with different distributions; homolog of human OPA1 involved in autosomal dominant optic atrophy	mitochondrion organization|mitochondrial genome maintenance|mitochondrial fusion	GTPase activity	intrinsic to mitochondrial inner membrane|extrinsic to mitochondrial inner membrane|mitochondrion|mitochondrial inner boundary membrane|mitochondrial crista|mitochondrial intermembrane space
YLL006W-A_p	YLL006W-A	hom			0.0635981028505735	0.000233179864540975	492	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YHR009C_p	TDA3	hom	FT	VESICLE-MEDIATED TRANSPORT|OXIDATION-REDUCTION PROCESS	0.0635050240699594	0.000238164211241058	493	Putative oxidoreductase involved in late endosome to Golgi transport; physical and genetical interactions with Btn2p; null mutant is viable, has extended S phase, and sensitive to expression of top1-T722A allele; similar to human FOXRED1	retrograde transport, endosome to Golgi	molecular_function	late endosome|cytoplasm
YNL112W	DBP2	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.0634381987276426	0.000244416656330754	494	ATP-dependent RNA helicase of the DEAD-box protein family; has a strong preference for dsRNA; involved mRNA decay and rRNA processing; may be involved in suppression of transcription from cryptic initiation sites	nuclear-transcribed mRNA catabolic process, nonsense-mediated decay|rRNA processing	RNA helicase activity	mitochondrion|nucleus|cytoplasm
YDR025W	RPS11A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0634275739170025	0.000245005633962839	495	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S11 and bacterial S17; RPS11A has a paralog, RPS11B, that arose from the whole genome duplication	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit assembly	structural constituent of ribosome	cytosolic small ribosomal subunit|90S preribosome
YBR111W-A	SUS1	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE|HISTONE ACETYLTRANSFERASE	0.0634214606792689	0.000245872763341781	496	Component of both the SAGA histone acetylase and TREX-2 complexes; interacts with RNA polymerase II; involved in mRNA export coupled transcription activation and elongation; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP	poly(A)+ mRNA export from nucleus|regulation of protein localization|nuclear retention of pre-mRNA at the site of transcription|posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery|histone deubiquitination|histone H3-K4 methylation|transcription elongation from RNA polymerase II promoter|histone H3-K79 methylation|positive regulation of transcription from RNA polymerase II promoter	enzyme activator activity	DUBm complex|nucleoplasm|transcription export complex 2|SAGA complex|nuclear pore
YKL170W	MRPL38	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0633148578337335	0.000248659764749647	497	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL34 and YmL38) on two-dimensional SDS gels; protein abundance increases in response to DNA replication stress	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YPR168W	NUT2	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0631921690689784	0.00025565961641281	498	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for transcriptional activation and has a role in basal transcription; protein abundance increases in response to DNA replication stress	negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	molecular_function	core mediator complex
YPL183W-A	RTC6	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0631789753641981	0.000256423267539775	499	Protein involved in translation; mutants have defects in biogenesis of nuclear ribosomes; sequence similar to prokaryotic ribosomal protein L36, may be a mitochondrial ribosomal protein; protein abundance increases in response to DNA replication stress	mitochondrial translation|ribosome biogenesis	structural constituent of ribosome	mitochondrial large ribosomal subunit
YER177W	BMH1	hom	FT	CELL CYCLE|SIGNALING|RESPONSE TO DNA DAMAGE|CELL WALL ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.0631361125269519	0.000258918948154957	500	14-3-3 protein, major isoform; controls proteome at post-transcriptional level, binds proteins and DNA, involved in regulation of many processes including exocytosis, vesicle transport, Ras/MAPK signaling, and rapamycin-sensitive signaling; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress	glycogen metabolic process|pseudohyphal growth|signal transduction involved in filamentous growth|ascospore formation|fungal-type cell wall chitin biosynthetic process|Ras protein signal transduction|DNA damage checkpoint|negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	DNA replication origin binding|phosphoserine binding	plasma membrane|nucleus
YDR128W	MTC5	hom			0.0631096878249871	0.0002621371829241	501	Subunit of the SEA (Seh1-associated) complex; SEA is a coatomer-related complex that associates dynamically with the vacuole; has N-terminal WD-40 repeats and a C-terminal RING motif; mtc5 is synthetically sick with cdc13-1; relative distribution to vacuolar membrane punctae decreases upon DNA replication stress	biological_process	molecular_function	fungal-type vacuole membrane|Seh1-associated complex|extrinsic to fungal-type vacuolar membrane
YPL182C_d	YPL182C	hom			0.0629808031815706	0.000268153781045799	502	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CTI6/YPL181W	Unknown	Unknown	Unknown
YNL068C	FKH2	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|MITOCHONDRION ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0628275271111191	0.000277569578818394	503	Forkhead family transcription factor; plays a major role in the expression of G2/M phase genes; positively regulates transcriptional elongation; negative role in chromatin silencing at HML and HMR; substrate of the Cdc28p/Clb5p kinase; FKH2 has a paralog, FKH1, that arose from the whole genome duplication	negative regulation of chromatin silencing at silent mating-type cassette|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription involved in G2/M-phase of mitotic cell cycle|negative regulation of transcription involved in G1 phase of mitotic cell cycle|Unknown|chromatin remodeling|negative regulation of transcription involved in G2/M-phase of mitotic cell cycle	RNA polymerase II transcription factor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II transcription factor binding transcription factor activity	nucleus
YML061C	PIF1	hom	FT	RESPONSE TO DNA DAMAGE|MITOCHONDRION ORGANIZATION|NUCLEUS|MITOCHONDRION	0.0627366666361097	0.000286293254916581	504	DNA helicase; exists in a nuclear form that acts as a catalytic inhibitor of telomerase; and as a mitochondrial form involved in repair and recombination of mitochondrial DNA; mutations affect zinc and iron homeostasis; regulated by Rad53p-dependent phosphorylation in rho0 cells	chromosome organization|negative regulation of telomere maintenance via telomerase|telomere maintenance|mitochondrial genome maintenance|DNA recombination	DNA helicase activity|telomerase inhibitor activity	mitochondrion|nucleus|mitochondrial membrane
YCR046C	IMG1	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0626049016967199	0.000294872815506828	505	Mitochondrial ribosomal protein of the large subunit, required for respiration and for maintenance of the mitochondrial genome	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YMR140W	SIP5	hom	FT	RESPONSE TO NUTRIENT LEVELS	0.0625410138406952	0.000296006109270345	506	Protein of unknown function; interacts with both the Reg1p/Glc7p phosphatase and the Snf1p kinase; forms cytoplasmic foci upon DNA replication stress	cellular response to glucose starvation	molecular_function	cytoplasm
YNL081C	SWS2	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0624379561533295	0.00030291351820793	507	Putative mitochondrial ribosomal protein of the small subunit, has similarity to E. coli S13 ribosomal protein; participates in controlling sporulation efficiency	regulation of sporulation resulting in formation of a cellular spore|mitochondrial translation	structural constituent of ribosome	mitochondrial small ribosomal subunit|cytoplasm
YNL277W-A_p	YNL277W-A	hom			0.0623333226006211	0.000310080691399256	508	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YLL001W	DNM1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|PEROXISOME ORGANIZATION|MITOCHONDRION	0.0621813252683282	0.000320775343130597	509	Dynamin-related GTPase required for mitochondrial fission and morphology; assembles on the cytoplasmic face of mitochondrial tubules at sites at which division will occur; also participates in endocytosis and regulating peroxisome abundance	mitochondrion inheritance|peroxisome fission|mitochondrial fission|chronological cell aging|peroxisome organization|mitochondrion organization|protein homooligomerization	protein homodimerization activity|GTPase activity|identical protein binding	mitochondrial outer membrane|mitochondrion|peroxisome
YOR376W-A_p	YOR376W-A	hom			0.06214520157784	0.000323367300257063	510	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YPL040C	ISM1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0620265073036259	0.000332022506066437	511	Mitochondrial isoleucyl-tRNA synthetase, null mutant is deficient in respiratory growth	isoleucyl-tRNA aminoacylation|mitochondrial isoleucyl-tRNA aminoacylation|mitochondrial translation	isoleucine-tRNA ligase activity	mitochondrion
YHR008C	SOD2	hom	FF|FT	OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.0619693064308205	0.00033765622311474	512	Mitochondrial manganese superoxide dismutase, protects cells against oxygen toxicity; phosphorylated	reactive oxygen species metabolic process|age-dependent response to oxidative stress involved in chronological cell aging|replicative cell aging|age-dependent response to reactive oxygen species involved in chronological cell aging	superoxide dismutase activity	mitochondrion|mitochondrial matrix
YGL129C	RSM23	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0619450015664659	0.000338090886113767	513	Mitochondrial ribosomal protein of the small subunit, has similarity to mammalian apoptosis mediator proteins; null mutation prevents induction of apoptosis by overproduction of metacaspase Mca1p	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YER087W	AIM10	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION	0.0619354938619497	0.000338805483555072	514	Protein with similarity to tRNA synthetases; non-tagged protein is detected in purified mitochondria; null mutant is viable and displays elevated frequency of mitochondrial genome loss	biological_process	proline-tRNA ligase activity	mitochondrion
YCL061C	MRC1	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0616348977551737	0.000362140100379996	515	S-phase checkpoint protein required for DNA replication; interacts with and stabilizes Pol2p at stalled replication forks during stress, where it forms a pausing complex with Tof1p and is phosphorylated by Mec1p; protects uncapped telomeres	maintenance of DNA repeat elements|intra-S DNA damage checkpoint|DNA repair|DNA replication checkpoint|telomere maintenance|replication fork protection|DNA replication|mitotic sister chromatid cohesion|chromatin silencing at silent mating-type cassette|chromatin silencing at telomere	molecular_function	nuclear chromosome|replication fork protection complex|nucleus|nuclear replication fork
YPL091W	GLR1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|MITOCHONDRION	0.0616318858112145	0.000362381335094707	516	Cytosolic and mitochondrial glutathione oxidoreductase; converts oxidized glutathione to reduced glutathione; mitochondrial but not cytosolic form has a role in resistance to hyperoxia; protein abundance increases in response to DNA replication stress	cellular response to oxidative stress|protein glutathionylation	glutathione-disulfide reductase activity	mitochondrion|nucleus|cytoplasm
YIL021W	RPB3	het	FF|FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0615910589268641	0.000368651181421317	517	RNA polymerase II third largest subunit B44, part of central core; similar to prokaryotic alpha subunit	termination of RNA polymerase II transcription|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|DNA-directed RNA polymerase activity	nucleoplasm|DNA-directed RNA polymerase II, core complex
YFL010C	WWM1	hom	FT	NUCLEUS|MITOCHONDRION	0.0615481211570065	0.000384447948153404	518	WW domain containing protein of unknown function; binds to Mca1p, a caspase-related protease that regulates H2O2-induced apoptosis; overexpression causes G1 phase growth arrest and clonal death that is suppressed by overexpression of MCA1	biological_process	molecular_function	mitochondrion|nucleus|cytoplasm
YKR085C	MRPL20	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0615467428547965	0.000369263118461684	519	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDR493W	MZM1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.061541573493176	0.000369684846114941	520	Protein required for assembly of the cytochrome bc(1) complex; acts as a chaperone for Rip1p and facilitates its insertion into the complex at a late stage of assembly; localized to the mitochondrial matrix; null mutant exhibits a respiratory growth defect and reduced mitochondrial zinc levels, which is characteristic of mutations affecting bc(1) complex assembly; human LYRM7 is a functional ortholog	mitochondrial respiratory chain complex III assembly	molecular_function	mitochondrion|mitochondrial matrix
YHR147C	MRPL6	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.061066148758695	0.000415408779309188	521	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YIR021W-A_p	YIR021W-A	hom			0.0605678416476951	0.000457664037526983	522	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YGL060W	YBP2	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0603889566225578	0.000475813449939482	523	Central kinetochore associated protein; mediates mitotic progression; interacts with several central kinetochore proteins and centromeric histone Cse4p; role in resistance to oxidative stress; similar to Slk19p; YBP2 has a paralog, YBP1, that arose from the whole genome duplication	G2/M transition of mitotic cell cycle	molecular_function	condensed nuclear chromosome kinetochore|centromere-specific nucleosome|cytoplasm
YBR268W	MRPL37	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0602861018042412	0.000487501282829418	524	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDR529C	QCR7	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0599997667402107	0.000517642746205917	525	Subunit 7 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; oriented facing the mitochondrial matrix; N-terminus appears to play a role in complex assembly	mitochondrial electron transport, ubiquinol to cytochrome c|aerobic respiration|mitochondrial respiratory chain complex III assembly	ubiquinol-cytochrome-c reductase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex III
YOL013W-B_d	YOL013W-B	hom			0.0598805245695584	0.000531128839709802	526	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the long terminal repeat (LTR) of a Ty1 element	Unknown	Unknown	Unknown
YDL085C-A_p	YDL085C-A	hom	FT	NUCLEUS	0.0594488896186702	0.000582730750997559	527	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus	biological_process	molecular_function	nucleus|cytoplasm
YLR033W	RSC58	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|NUCLEUS|RSC COMPLEX	0.0592389304719569	0.000615267496109273	528	Component of the RSC chromatin remodeling complex; RSC functions in transcriptional regulation and elongation, chromosome stability, and establishing sister chromatid cohesion; involved in telomere maintenance	nucleosome disassembly|transcription elongation from RNA polymerase II promoter|G1/S transition of mitotic cell cycle|chromatin remodeling	molecular_function	RSC complex
YIL158W	AIM20	hom	FT	CELL CYCLE	0.0591921819979331	0.00061559425991126	529	Putative protein of unknown function; overexpression causes a cell cycle delay or arrest; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from nucleus to cytoplasm upon DNA replication stress	biological_process	molecular_function	fungal-type vacuole
YOL027C	MDM38	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|TRANSLATION|ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.059090780433625	0.000629044233008315	530	Mitochondrial protein, forms a complex with Mba1p to facilitate recruitment of mRNA-specific translational activators to ribosomes; roles in protein export and K+/H+ exchange; human ortholog Letm1 implicated in Wolf-Hirschhorn syndrome	potassium ion transport|mitochondrial respiratory chain complex III biogenesis|cellular potassium ion homeostasis|proton transport|positive regulation of mitochondrial translation|mitochondrial respiratory chain complex IV biogenesis|protein insertion into mitochondrial membrane	ribosome binding	mitochondrion|mitochondrial inner membrane
YKL042W	SPC42	het	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|NUCLEUS|CYTOSKELETON	0.0589519805625153	0.000653989988979764	531	Central plaque component of spindle pole body (SPB); involved in SPB duplication, may facilitate attachment of the SPB to the nuclear membrane	microtubule nucleation|spindle pole body duplication associated with nuclear envelope	structural constituent of cytoskeleton	central plaque of spindle pole body|intermediate layer of spindle pole body
YHR051W	COX6	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0589142487485948	0.000653113460746717	532	Subunit VI of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; expression is regulated by oxygen levels	mitochondrial electron transport, cytochrome c to oxygen	cytochrome-c oxidase activity	mitochondrion|integral to membrane|mitochondrial respiratory chain complex IV
YDR323C	PEP7	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT	0.0588770478732078	0.000658293621052668	533	Multivalent adaptor protein that facilitates vesicle-mediated vacuolar protein sorting by ensuring high-fidelity vesicle docking and fusion, which are essential for targeting of vesicles to the endosome; required for vacuole inheritance	Golgi to vacuole transport|vacuole inheritance|vesicle fusion|vesicle docking involved in exocytosis|Golgi to endosome transport	phosphatidylinositol-3-phosphate binding	external side of endosome membrane|cytoplasm
YHR120W	MSH1	hom	FT	RESPONSE TO DNA DAMAGE|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.05881923989277	0.000666419117477089	534	DNA-binding protein of the mitochondria involved in repair of mitochondrial DNA, has ATPase activity and binds to DNA mismatches; has homology to E. coli MutS; transcription is induced during meiosis	DNA repair|mismatch repair|mitochondrial DNA repair|mitochondrion organization|reciprocal meiotic recombination|mitochondrial genome maintenance	guanine/thymine mispair binding|dinucleotide insertion or deletion binding|DNA-dependent ATPase activity	mitochondrion
YIL043C	CBR1	hom	FT	OXIDATION-REDUCTION PROCESS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.05877789710748	0.000672287325969411	535	Microsomal cytochrome b reductase, not essential for viability; also detected in mitochondria; mutation in conserved NADH binding domain of the human ortholog results in type I methemoglobinemia	biological_process	cytochrome-b5 reductase activity	mitochondrial outer membrane|mitochondrion
YDR150W	NUM1	hom	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|MITOCHONDRION|SITE OF POLARIZED GROWTH	0.0587329490891908	0.000678721722457198	536	Protein required for nuclear migration, localizes to the mother cell cortex and the bud tip; may mediate interactions of dynein and cytoplasmic microtubules with the cell cortex	mitochondrion inheritance|nuclear migration along microtubule|mitochondrial fission|microtubule cytoskeleton organization	tubulin binding	cell cortex|mitochondrion|cellular bud tip
YLR419W_p	YLR419W	hom	FT	MITOCHONDRION	0.0586482599754106	0.000691000878461978	537	Putative helicase with limited sequence similarity to human Rb protein; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR419W is not an essential gene	biological_process	molecular_function	mitochondrion|cytoplasm
YLL040C	VPS13	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|MITOCHONDRION|GOLGI APPARATUS	0.0584623187485746	0.000718688155452113	538	Protein of unknown function; heterooligomeric or homooligomeric complex; peripherally associated with membranes; involved in sporulation, vacuolar protein sorting, prospore membrane formation and protein-Golgi retention; homologous to human CHAC and COH1 which are involved in chorea acanthocytosis and Cohen syndrome, respectively	protein retention in Golgi apparatus|late endosome to vacuole transport|protein targeting to vacuole|ascospore-type prospore membrane assembly	molecular_function	endosome|mitochondrion|prospore membrane|extrinsic to membrane
YJL168C	SET2	hom	FT	CELL CYCLE|CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0582108845625405	0.000757767772777648	539	Histone methyltransferase with a role in transcriptional elongation; methylates H3 lysine 36, which suppresses incorporation of acetylated histones and signals for the deacetylation of these histones within transcribed genes; associates with the C-terminal domain of Rpo21p; histone methylation activity is regulated by phosphorylation status of Rpo21p	negative regulation of histone H3-K14 acetylation|DNA-dependent transcription, elongation|ascospore formation|regulation of transcription, DNA-dependent|histone deacetylation|regulation of DNA-dependent DNA replication initiation|histone methylation|negative regulation of antisense RNA transcription|Unknown|negative regulation of reciprocal meiotic recombination|positive regulation of histone acetylation	histone methyltransferase activity|histone methyltransferase activity (H3-K36 specific)	nucleus
YLR005W	SSL1	het	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|TRANSLATION|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0581150468866355	0.000777413923900555	540	Component of the core form of RNA polymerase transcription factor TFIIH, which has both protein kinase and DNA-dependent ATPase/helicase activities and is essential for transcription and nucleotide excision repair; interacts with Tfb4p	phosphorylation of RNA polymerase II C-terminal domain|translational initiation|nucleotide-excision repair|transcription from RNA polymerase II promoter	core RNA polymerase binding transcription factor activity	core TFIIH complex|holo TFIIH complex|nucleotide-excision repair factor 3 complex
YIL006W	YIA6	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0580740270813139	0.000784128189297794	541	Mitochondrial NAD+ transporter, involved in the transport of NAD+ into the mitochondria (see also YEA6); member of the mitochondrial carrier subfamily; disputed role as a pyruvate transporter; has putative mouse and human orthologs	transport|mitochondrial pyruvate transport|NAD transmembrane transport	pyruvate secondary active transmembrane transporter activity|transporter activity|NAD transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YDR194W-A_p	YDR194W-A	hom			0.057995009954828	0.000800113282151587	542	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YLR295C	ATP14	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.0577790930157643	0.000829513610587539	543	Subunit h of the F0 sector of mitochondrial F1F0 ATP synthase; F1F0 ATP synthase is a large, evolutionarily conserved enzyme complex required for ATP synthesis; protein abundance increases in response to DNA replication stress	cristae formation|mitochondrial proton-transporting ATP synthase complex assembly|ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|ATPase activity|proton-transporting ATPase activity, rotational mechanism	mitochondrion|integral to membrane|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
YPR103W	PRE2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.057770889910558	0.000830935673985307	544	Beta 5 subunit of the 20S proteasome, responsible for the chymotryptic activity of the proteasome	proteasomal ubiquitin-dependent protein catabolic process|proteasome core complex assembly|proteasomal ubiquitin-independent protein catabolic process	endopeptidase activity	nucleus|proteasome storage granule|endoplasmic reticulum membrane|proteasome core complex, beta-subunit complex
YDR385W	EFT2	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|RIBOSOME	0.0577703730534775	0.000831025350290067	545	Elongation factor 2 (EF-2), also encoded by EFT1; catalyzes ribosomal translocation during protein synthesis; contains diphthamide, the unique posttranslationally modified histidine residue specifically ADP-ribosylated by diphtheria toxin; EFT2 has a paralog, EFT1, that arose from the whole genome duplication	translational elongation|positive regulation of translational elongation	translation elongation factor activity	ribosome
YPR099C_d	YPR099C	hom			0.0577064497795548	0.000849791985615893	546	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MRPL51/YPR100W	Unknown	Unknown	Unknown
YFL016C	MDJ1	hom	FT	PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0576938678973146	0.000844398645882761	547	Co-chaperone that stimulates the ATPase activity of the HSP70 protein Ssc1p; involved in protein folding/refolding in the mitochodrial matrix; required for proteolysis of misfolded proteins; member of the HSP40 (DnaJ) family of chaperones	protein refolding|response to heat|misfolded or incompletely synthesized protein catabolic process|mitochondrial genome maintenance|'de novo' protein folding	unfolded protein binding|ATPase activator activity	extrinsic to mitochondrial inner membrane|mitochondrion|mitochondrial matrix
YJL154C	VPS35	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM	0.0575503755176079	0.000870021008197364	548	Endosomal subunit of membrane-associated retromer complex required for retrograde transport; receptor that recognizes retrieval signals on cargo proteins, forms subcomplex with Vps26p and Vps29p that selects cargo proteins for retrieval; interacts with Ypt7p	protein retention in Golgi apparatus|retrograde transport, endosome to Golgi	protein transporter activity	endosome|retromer complex, inner shell|retromer complex
YLL023C	POM33	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM|NUCLEAR PORE	0.0575449106988818	0.000871010917310384	549	Transmembrane nucleoporin; involved in nuclear pore complex (NPC) distribution, assembly or stabilization; highly conserved across species, orthologous to human TMEM33 and paralogous to Per33p; protein abundance increases in response to DNA replication stress	nuclear pore organization|nuclear pore complex assembly	structural constituent of nuclear pore	ribosome|integral to membrane|endoplasmic reticulum|nuclear pore
YPL038W-A_p	YPL038W-A	hom			0.0575393929270463	0.00087201147743089	550	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YMR131C	RRB1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0574897973801922	0.000881052775488093	551	Essential nuclear protein involved in early steps of ribosome biogenesis; physically interacts with the ribosomal protein Rpl3p	ribosome biogenesis	molecular_function	nucleolus
YLR069C	MEF1	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0573967389258794	0.000898252217739529	552	Mitochondrial elongation factor involved in translational elongation	mitochondrial translational elongation|mitochondrial translation	translation elongation factor activity	mitochondrion
YEL042W	GDA1	hom	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0573681252858983	0.000903602910681249	553	Guanosine diphosphatase located in the Golgi, involved in the transport of GDP-mannose into the Golgi lumen by converting GDP to GMP after mannose is transferred its substrate	protein glycosylation	guanosine-diphosphatase activity|uridine-diphosphatase activity	Golgi apparatus
YDR194C	MSS116	hom	FT	RNA PROCESSING|TRANSLATION|MITOCHONDRION	0.0572797277272946	0.000921953625968281	554	DEAD-box protein required for efficient splicing of mitochondrial Group I and II introns; non-polar RNA helicase that also facilities strand annealing	RNA folding|Group I intron splicing|Group II intron splicing	RNA binding|RNA strand annealing activity|ATP-dependent RNA helicase activity	mitochondrion|mitochondrial matrix
YKR062W	TFA2	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0570272809512976	0.000978216279292507	555	TFIIE small subunit, involved in RNA polymerase II transcription initiation	transcription from RNA polymerase II promoter	single-stranded DNA binding|RNA polymerase II core binding|TFIIH-class transcription factor binding	transcription factor TFIIE complex
YKR064W	OAF3	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|MITOCHONDRION	0.0570165985211096	0.000994261156263788	556	Putative transcriptional repressor with Zn(2)-Cys(6) finger; negatively regulates transcription in response to oleate levels, based on mutant phenotype and localization to oleate-responsive promoters; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; forms nuclear foci upon DNA replication stress	negative regulation of transcription from RNA polymerase II promoter|cellular response to oleic acid	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity	mitochondrion|nucleus|cytoplasm
YDR239C	YDR239C	hom			0.0569613240463931	0.000982937878348973	557	Protein of unknown function that may interact with ribosomes, based on co-purification experiments	biological_process	molecular_function	ribosome|cytoplasm
YER028C	MIG3	hom	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0569328725620837	0.000988720943109712	558	Transcriptional regulator; partially nonfunctional in S288C strains but has a major role in catabolite repression and ethanol response in some other strains; involved in response to toxic agents; phosphorylation by Snf1p or the Mec1p pathway inactivates Mig3p, allowing induction of damage response genes; MIG3 has a paralog, MIG2, that arose from the whole genome duplication	cellular response to UV|negative regulation of transcription from RNA polymerase II promoter in response to UV-induced DNA damage|response to DNA damage stimulus	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding	nuclear chromatin
YGR165W	MRPS35	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.056766201032341	0.00103580265231796	559	Mitochondrial ribosomal protein of the small subunit; null mutant does not grow on glycerol, is sensitive to 2,4-dichlorophenol, and accumulates large lipid droplets	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YGR055W	MUP1	hom	FT	PLASMA MEMBRANE	0.056697728359197	0.00106332520569184	560	High affinity methionine permease, integral membrane protein with 13 putative membrane-spanning regions; also involved in cysteine uptake	cysteine transport|sulfur amino acid transport|methionine transport	L-methionine secondary active transmembrane transporter activity	integral to membrane|integral to plasma membrane
YLR181C	VTA1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|VACUOLAR TRANSPORT	0.0564200750751721	0.00109850212713486	561	Multivesicular body (MVB) protein involved in endosomal protein sorting; regulates Vps4p activity by promoting its oligomerization; has an N-terminal Vps60- and Did2- binding domain, a linker region, and a C-terminal Vps4p binding domain	late endosome to vacuole transport via multivesicular body sorting pathway|positive regulation of protein oligomerization|late endosome to vacuole transport	ATPase activator activity	endosome|endosome membrane|multivesicular body
YLR067C	PET309	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0564078277223966	0.00110125680160482	562	Specific translational activator for the COX1 mRNA, also influences stability of intron-containing COX1 primary transcripts; localizes to the mitochondrial inner membrane; contains seven pentatricopeptide repeats (PPRs)	positive regulation of mitochondrial translational initiation|RNA metabolic process|mitochondrial respiratory chain complex IV biogenesis|aerobic respiration	translation regulator activity	extrinsic to mitochondrial inner membrane|mitochondrion|integral to membrane|mitochondrial inner membrane
YML016C	PPZ1	hom	FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|ION HOMEOSTASIS|NUCLEUS|PLASMA MEMBRANE	0.0563560198027106	0.00111489640037886	563	Serine/threonine protein phosphatase Z, isoform of Ppz2p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance	cellular sodium ion homeostasis|cellular protein localization|protein dephosphorylation	protein serine/threonine phosphatase activity	extrinsic to plasma membrane|nucleus|cytoplasm
YOL106W_d	YOL106W	hom			0.0560878917646302	0.00118154658871343	564	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YJL096W	MRPL49	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0560299696868184	0.00118944775242423	565	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YNL207W	RIO2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0560227058916014	0.00119120527785839	566	Essential serine kinase involved in the processing of the 20S pre-rRNA into mature 18S rRNA; has similarity to Rio1p	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	nucleocytoplasmic transporter activity|protein kinase activity	cytosol|nucleus|cytoplasm
YGL236C	MTO1	hom	FT	RNA PROCESSING|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0557818892104634	0.00125084819793547	567	Mitochondrial protein, forms a heterodimer complex with Mss1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; required for respiration in paromomycin-resistant 15S rRNA mutants	mitochondrial tRNA wobble uridine modification	molecular_function	mitochondrion
YIL077C_p	YIL077C	hom	FT	MITOCHONDRION	0.0557403666360427	0.00126140647056034	568	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)	biological_process	molecular_function	mitochondrion
YDR275W	BSC2	hom			0.0556668884389658	0.00128029212872389	569	Protein of unknown function; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; BSC2 has a paralog, IRC23, that arose from the whole genome duplication	biological_process	molecular_function	lipid particle
YHR175W-A_p	YHR175W-A	hom			0.055659773125246	0.00128213472244439	570	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YBL071C-B_p	YBL071C-B	hom			0.0556044409672002	0.00129872423739496	571	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YDR296W	MHR1	hom	FT	MITOCHONDRION ORGANIZATION|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|MITOCHONDRION	0.0555918300611934	0.00129985301323132	572	Protein involved in homologous recombination in mitochondria; required for recombination-dependent mtDNA partitioning; involved in stimulation of mitochondrial DNA replication in response to oxidative stress	cellular response to oxidative stress|positive regulation of mitochondrial DNA replication|regulation of transcription, DNA-dependent|mitochondrial genome maintenance|DNA recombination	single-stranded DNA binding|recombinase activity|DNA binding	mitochondrion|nucleus
YIL137C	TMA108	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|PROTEOLYSIS	0.0553122387487455	0.0013866384462605	573	Protein that associates with ribosomes and is involved in ribosome biogenesis; putative metalloprotease	ribosome biogenesis	molecular_function	ribosome|cytoplasm
YMR089C	YTA12	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0552081539240108	0.00140421946522124	574	Component, with Afg3p, of the mitochondrial inner membrane m-AAA protease that mediates degradation of misfolded or unassembled proteins and is also required for correct assembly of mitochondrial enzyme complexes	proteolysis|signal peptide processing|protein complex assembly|protein import into mitochondrial intermembrane space	metallopeptidase activity|protein binding|ATPase activity|ATP binding	mitochondrion|mitochondrial inner boundary membrane|mitochondrial inner membrane|m-AAA complex|cytoplasm
YDR405W	MRP20	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0552064806565582	0.00140469107474468	575	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YHR034C	PIH1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0547881286309279	0.00153228488297875	576	Component of the conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly large protein complexes such as box C/D snoRNPs and RNA polymerase II	protein folding|rRNA processing|regulation of cell size|box C/D snoRNP assembly	molecular_function	R2TP complex|nucleus|small nucleolar ribonucleoprotein complex|cytoplasm
YER050C	RSM18	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0546837982133541	0.00155936431364503	577	Mitochondrial ribosomal protein of the small subunit, has similarity to E. coli S18 ribosomal protein	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YLR312W-A	MRPL15	hom	FT	RNA PROCESSING|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0546558010987392	0.00157573719738908	578	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YGL041C_d	YGL041C	hom			0.0546171458556525	0.00160342272356637	579	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YBL090W	MRP21	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0545886103977329	0.00158916592058262	580	Mitochondrial ribosomal protein of the small subunit; MRP21 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences	mitochondrial translational initiation|mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YDR403W	DIT1	hom	FT	CELL WALL ORG/BIOGENESIS	0.0545848920230832	0.00159809193836636	581	Sporulation-specific enzyme required for spore wall maturation, involved in the production of a soluble LL-dityrosine-containing precursor of the spore wall; transcripts accumulate at the time of prospore enclosure	ascospore wall assembly	catalytic activity	cellular_component
YHR020W	YHR020W	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.0545466465189916	0.00161549146168177	582	Prolyl-tRNA synthetase; N-terminal domain shows weak homology to prokaryotic posttransfer editing domain, but does not possess posttransfer editing activity; may interact with ribosomes, based on co-purification experiments	chromosome organization|tRNA aminoacylation for protein translation	proline-tRNA ligase activity	ribosome
YMR170C	ALD2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0544474717193832	0.00163431955929193	583	Cytoplasmic aldehyde dehydrogenase, involved in ethanol oxidation and beta-alanine biosynthesis; uses NAD+ as the preferred coenzyme; expression is stress induced and glucose repressed; very similar to Ald3p	cellular aldehyde metabolic process|beta-alanine biosynthetic process|polyamine catabolic process	aldehyde dehydrogenase (NAD) activity	cytoplasm
YER077C_p	YER077C	hom	FT	MITOCHONDRION	0.0543283201342432	0.00167335451155887	584	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion; null mutation results in a decrease in plasma membrane electron transport	biological_process	molecular_function	mitochondrion
YCR057C	PWP2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|CELL DIVISION|NUCLEUS	0.0539908042685951	0.00180288704679427	585	Conserved 90S pre-ribosomal component essential for proper endonucleolytic cleavage of the 35 S rRNA precursor at A0, A1, and A2 sites; contains eight WD-repeats; PWP2 deletion leads to defects in cell cycle and bud morphogenesis	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|establishment of cell polarity|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|cytokinesis	snoRNA binding	small-subunit processome|nucleolus|Pwp2p-containing subcomplex of 90S preribosome|cytoplasm|90S preribosome
YMR260C	TIF11	het	FT	TRANSLATION|RIBOSOME	0.0539567942240411	0.00180063963925865	586	Translation initiation factor eIF1A, essential protein that forms a complex with Sui1p (eIF1) and the 40S ribosomal subunit and scans for the start codon; C-terminus associates with Fun12p (eIF5B); N terminus interacts with eIF2 and eIF3	translational initiation	double-stranded RNA binding|translation initiation factor activity	ribosome
YGL042C_d	YGL042C	hom			0.0538931451710271	0.00183199590870121	587	Dubious open reading frame, not conserved in closely related Saccharomyces species; deletion mutation blocks replication of Brome mosaic virus in S. cerevisiae, but this is likely due to effects on the overlapping gene DST1	Unknown	Unknown	Unknown
YKL041W	VPS24	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM	0.0538822254730606	0.00182723506846113	588	One of four subunits of the endosomal sorting complex required for transport III (ESCRT-III); forms an ESCRT-III subcomplex with Did4p; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway	intralumenal vesicle formation|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|late endosome to vacuole transport	molecular_function	ESCRT III complex|cytoplasm
YNL146C-A_p	YNL146C-A	hom			0.0538552396905453	0.00183694829923887	589	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YNL154C	YCK2	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CELL DIVISION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.0537977384773475	0.00185780358865776	590	Palmitoylated plasma membrane-bound casein kinase I isoform; shares redundant functions with Yck1p in morphogenesis, proper septin assembly, endocytic trafficking; YCK2 has a paralog, YCK1, that arose from the whole genome duplication	endocytosis|cell morphogenesis|protein phosphorylation|cytokinesis|response to glucose stimulus	protein serine/threonine kinase activity|protein kinase activity	plasma membrane|cellular bud neck|mating projection
YJL136W-A_p	YJL136W-A	hom			0.0537143230987402	0.00192443140301276	591	Putative protein of unknown function; identified by SAGE	biological_process	molecular_function	cellular_component
YDR268W	MSW1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0536044655971614	0.00192950618064649	592	Mitochondrial tryptophanyl-tRNA synthetase	mitochondrial tryptophanyl-tRNA aminoacylation	tryptophan-tRNA ligase activity	mitochondrion
YNL276C_d	YNL276C	hom			0.0535834361333666	0.00193745925674673	593	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene MET2/YNL277W	Unknown	Unknown	Unknown
YJL063C	MRPL8	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0535592897816341	0.00194662819845652	594	Mitochondrial ribosomal protein of the large subunit	mitochondrial genome maintenance|mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YBR035C	PDX3	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|COFACTOR METABOLISM	0.0533397734356789	0.00203182884148792	595	Pyridoxine (pyridoxamine) phosphate oxidase, has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism	fatty acid metabolic process	pyridoxamine-phosphate oxidase activity	cellular_component
YHR103W	SBE22	hom	FT	PROTEIN LOCALIZATION|CELL WALL ORG/BIOGENESIS|GOLGI APPARATUS	0.0533256712545873	0.00203741752706115	596	Protein involved in the transport of cell wall components from the Golgi to the cell surface; similar in structure and functionally redundant with Sbe2p; involved in bud growth	fungal-type cell wall organization	molecular_function	cytoplasm
YOR276W	CAF20	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION	0.0532599206628049	0.00206366101702343	597	Phosphoprotein of the mRNA cap-binding complex involved in translational control, repressor of cap-dependent translation initiation, competes with eIF4G for binding to eIF4E	negative regulation of translation|positive regulation of cytoplasmic mRNA processing body assembly	translation regulator activity	mRNA cap binding complex
YHR108W	GGA2	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.0532119372347742	0.00208300822610335	598	Protein that interacts with and regulates Arf1p and Arf2p in a GTP-dependent manner to facilitate traffic through the late Golgi; binds phosphatidylinositol 4-phosphate, which plays a role in TGN localization; has homology to gamma-adaptin	protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|Golgi to vacuole transport|Golgi to endosome transport	ubiquitin binding|phosphatidylinositol-4-phosphate binding	trans-Golgi network
YPL122C	TFB2	het	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0531774377778632	0.00209702123032128	599	Subunit of TFIIH and nucleotide excision repair factor 3 complexes, involved in transcription initiation, required for nucleotide excision repair, similar to 52 kDa subunit of human TFIIH	phosphorylation of RNA polymerase II C-terminal domain|nucleotide-excision repair|transcription from RNA polymerase II promoter	double-stranded DNA binding|core RNA polymerase binding transcription factor activity	core TFIIH complex|holo TFIIH complex|nucleotide-excision repair factor 3 complex
YMR245W_d	YMR245W	hom			0.0531138818295158	0.00212306289067278	600	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YIL067C_p	YIL067C	hom			0.0531034329422548	0.00212737252174952	601	Uncharacterized protein of unknown function	biological_process	molecular_function	integral to membrane|fungal-type vacuole
YLR304C	ACO1	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0528856920127092	0.00221902390222372	602	Aconitase, required for the tricarboxylic acid (TCA) cycle and also independently required for mitochondrial genome maintenance; phosphorylated; component of the mitochondrial nucleoid; mutation leads to glutamate auxotrophy	propionate metabolic process|glutamate biosynthetic process|tricarboxylic acid cycle|mitochondrial genome maintenance|citrate metabolic process	double-stranded DNA binding|aconitate hydratase activity|single-stranded DNA binding	mitochondrial nucleoid|cytosol|mitochondrion|mitochondrial matrix
YOR316C	COT1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0527524268229895	0.00227688771471378	603	Vacuolar transporter that mediates zinc transport into the vacuole; overexpression confers resistance to cobalt and rhodium; protein abundance increases in response to DNA replication stress; COT1 has a paralog, ZRC1, that arose from the whole genome duplication	cellular zinc ion homeostasis|cobalt ion transport|zinc ion transport	cobalt ion transmembrane transporter activity|zinc ion transmembrane transporter activity|inorganic cation transmembrane transporter activity	mitochondrion|integral to membrane|fungal-type vacuole
YMR115W	MGR3	hom	FT	PROTEOLYSIS|MITOCHONDRION	0.0526554899739422	0.0023198422053823	604	Subunit of the mitochondrial (mt) i-AAA protease supercomplex, which degrades misfolded mitochondrial proteins; forms a subcomplex with Mgr1p that binds to substrates to facilitate proteolysis; required for growth of cells lacking mtDNA	misfolded or incompletely synthesized protein catabolic process	misfolded protein binding	mitochondrion|mitochondrial inner membrane|i-AAA complex
YBR185C	MBA1	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0526466252063316	0.00232380713786738	605	Membrane-associated mitochondrial ribosome receptor; forms a complex with Mdm38p that may facilitate recruitment of mRNA-specific translational activators to ribosomes; possible role in protein export from the matrix to inner membrane	protein insertion into mitochondrial membrane from inner side|mitochondrial respiratory chain complex III biogenesis|inner mitochondrial membrane organization|positive regulation of mitochondrial translation|mitochondrial respiratory chain complex IV biogenesis	ribosome binding	mitochondrion|mitochondrial inner membrane
YDL056W	MBP1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS	0.052608189222206	0.00234107020668687	606	Transcription factor involved in regulation of cell cycle progression from G1 to S phase, forms a complex with Swi6p that binds to MluI cell cycle box regulatory element in promoters of DNA synthesis genes	positive regulation of transcription involved in G1/S phase of mitotic cell cycle	sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	MBF transcription complex|nucleus
YLR200W	YKE2	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|NUCLEUS	0.052546018849586	0.00236924193787236	607	Subunit of the heterohexameric Gim/prefoldin protein complex involved in the folding of alpha-tubulin, beta-tubulin, and actin	protein folding|tubulin complex assembly	tubulin binding	prefoldin complex|cytoplasm
YPL160W	CDC60	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.0523888689507374	0.00244184119775345	608	Cytosolic leucyl tRNA synthetase, ligates leucine to the appropriate tRNA	leucyl-tRNA aminoacylation|DNA replication initiation	leucine-tRNA ligase activity	cytoplasm
YAL062W	GDH3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEUS|MITOCHONDRION	0.0523232217951131	0.00247276666723001	609	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh1p; expression regulated by nitrogen and carbon sources; GDH3 has a paralog, GDH1, that arose from the whole genome duplication	glutamate biosynthetic process|ammonia assimilation cycle	glutamate dehydrogenase (NADP+) activity	mitochondrion|nucleus
YIL002W-A_p	YIL002W-A	hom			0.0523023729656452	0.00248266295377368	610	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YHR004C	NEM1	hom	FF|FT	LIPID METABOLISM|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0522824264321299	0.00252217170552467	611	Probable catalytic subunit of Nem1p-Spo7p phosphatase holoenzyme; regulates nuclear growth by controlling phospholipid biosynthesis, required for normal nuclear envelope morphology and sporulation; homolog of the human protein Dullard	negative regulation of phospholipid biosynthetic process|nuclear envelope organization	phosphoprotein phosphatase activity	Nem1-Spo7 phosphatase complex|mitochondrion|integral to membrane
YLR291C	GCD7	het	FT	TRANSLATION|MITOCHONDRION	0.0522218400644763	0.00252123050942361	612	Beta subunit of the translation initiation factor eIF2B, the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression	regulation of translational initiation	enzyme regulator activity|translation initiation factor activity|guanyl-nucleotide exchange factor activity	mitochondrion|eukaryotic translation initiation factor 2B complex|guanyl-nucleotide exchange factor complex
YDR363W-A	SEM1	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|PROTEOLYSIS|RNA LOCALIZATION|NUCLEUS	0.0521553444985874	0.00255348756657422	613	Component of lid subcomplex of the 26S proteasome regulatory subunit; involved in mRNA export mediated by the TREX-2 complex (Sac3p-Thp1p); ortholog of human DSS1; protein abundance increases in response to DNA replication stress	proteasome assembly|proteasomal ubiquitin-dependent protein catabolic process|regulation of cell cycle|mRNA export from nucleus|exocytosis|filamentous growth|ubiquitin-dependent protein catabolic process	molecular_function	cytosol|nucleus|proteasome storage granule|proteasome regulatory particle, lid subcomplex
YPL097W	MSY1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0521126369248112	0.00257440354689868	614	Mitochondrial tyrosyl-tRNA synthetase	mitochondrial tyrosyl-tRNA aminoacylation	tyrosine-tRNA ligase activity	mitochondrion
YMR066W	SOV1	hom	FT	MITOCHONDRION	0.0520685777244727	0.00260000268112248	615	Mitochondrial protein of unknown function	biological_process	molecular_function	mitochondrion
YKR025W	RPC37	het	FT	NUCLEUS	0.0519999541331595	0.00263424212055718	616	RNA polymerase III subunit C37	tRNA transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex
YPL274W	SAM3	hom	FT	ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.0519959671131575	0.00263234316544719	617	High-affinity S-adenosylmethionine permease, required for utilization of S-adenosylmethionine as a sulfur source; has similarity to S-methylmethionine permease Mmp1p	spermidine transport|putrescine transport|S-adenosylmethionine transport	S-adenosylmethionine transmembrane transporter activity|spermidine transmembrane transporter activity|putrescine transmembrane transporter activity	integral to membrane|plasma membrane
YNL336W	COS1	hom			0.0518690751242898	0.00269670997300093	618	Protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins	biological_process	molecular_function	integral to membrane|fungal-type vacuole
YGL020C	GET1	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION|GOLGI APPARATUS	0.0516172947323171	0.00282870195471244	619	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for normal mitochondrial morphology and inheritance	retrograde vesicle-mediated transport, Golgi to ER|protein insertion into ER membrane	protein anchor	mitochondrion|integral to membrane|endoplasmic reticulum|GET complex
YBR154C	RPB5	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0513961408331022	0.00299253801611717	620	RNA polymerase subunit ABC27, common to RNA polymerases I, II, and III; contacts DNA and affects transactivation	tRNA transcription from RNA polymerase III promoter|transcription from RNA polymerase I promoter|transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex|DNA-directed RNA polymerase I complex|DNA-directed RNA polymerase II, core complex
YKL103C	APE1	hom			0.0513898972023904	0.00295295136174322	621	Vacuolar aminopeptidase yscI; zinc metalloproteinase that belongs to the peptidase family M18; often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway; protein increases in abundance and relative distribution to cytoplasmic foci increases upon DNA replication stress	vacuolar protein catabolic process	metalloaminopeptidase activity	fungal-type vacuole
YJR005C-A_p	YJR005C-A	hom			0.0513734080724388	0.00296215173173167	622	Putative protein of unknown function; originally identified as a syntenic homolog of an <i>Ashbya gossypii</i> gene; YJR005C-A has a paralog, YGR169C-A, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YDL044C	MTF2	hom	FT	RNA PROCESSING|TRANSLATION|MITOCHONDRION	0.0513421387791153	0.0029796707593231	623	Mitochondrial matrix protein that interacts with an N-terminal region of mitochondrial RNA polymerase (Rpo41p) and couples RNA processing and translation to transcription	cytoplasmic translation|mRNA processing	RNA binding	mitochondrion
YMR172W	HOT1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0508967322569407	0.00326282822395327	624	Transcription factor required for the transient induction of glycerol biosynthetic genes GPD1 and GPP2 in response to high osmolarity; targets Hog1p to osmostress responsive promoters; has similarity to Msn1p and Gcr1p	cellular hyperosmotic salinity response|RNA polymerase II transcriptional preinitiation complex assembly|positive regulation of transcription from RNA polymerase II promoter in response to osmotic stress|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly|sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus
YMR172C-A_d	YMR172C-A	hom			0.0508815353771906	0.00327210677362507	625	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YHR195W	NVJ1	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.0508807260296787	0.00324940538784885	626	Nuclear envelope protein, anchored to the nuclear inner membrane, that interacts with the vacuolar membrane protein Vac8p to promote formation of nucleus-vacuole junctions during piecemeal microautophagy of the nucleus (PMN)	microautophagy|cellular protein localization	protein binding	nuclear envelope
YPL118W	MRP51	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0505220663594859	0.00347911255628774	627	Mitochondrial ribosomal protein of the small subunit; MRP51 exhibits genetic interactions with mutations in the COX2 and COX3 mRNA 5'-untranslated leader sequences	mitochondrial translational initiation|mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YMR285C	NGL2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.050510018942519	0.00348691318136288	628	Protein involved in 5.8S rRNA processing; Ccr4p-like RNase required for correct 3'-end formation of 5.8S rRNA at site E; similar to Ngl1p; NGL2 has a paralog, NGL3, that arose from the whole genome duplication	rRNA processing	endoribonuclease activity	intracellular
YIL014C-A_p	YIL014C-A	hom			0.0504501269534889	0.00352099515258538	629	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YDR454C	GUK1	het	FT	NUCLEOTIDE METABOLISM|NUCLEUS	0.0504189558904079	0.00354143511502731	630	Guanylate kinase, converts GMP to GDP; required for growth and mannose outer chain elongation of cell wall N-linked glycoproteins	GMP metabolic process	guanylate kinase activity	nucleus|cytoplasm
YMR039C	SUB1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0504160028775706	0.00354337709417565	631	Transcriptional coactivator; facilitates elongation through factors that modify RNAP II; role in peroxide resistance involving Rad2p; role in the hyperosmotic stress response through polymerase recruitment at RNAP II and RNAP III genes; protein abundance increases in response to DNA replication stress	termination of RNA polymerase II transcription|hyperosmotic response|RNA polymerase III transcriptional preinitiation complex assembly|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter in response to stress|positive regulation of transcription from RNA polymerase III promoter	transcription coactivator activity	nucleus
YDL189W	RBS1	hom	FT	CARBOHYDRATE METABOLISM	0.0502379527511189	0.00366227258395144	632	Protein of unknown function, identified as a high copy suppressor of psk1 psk2 mutations that confer temperature-sensitivity for galactose utilization; proposed to bind single-stranded nucleic acids via its R3H domain	galactose metabolic process	molecular_function	cytoplasm
YAL044W-A_p	YAL044W-A	hom			0.050163983531684	0.00371272394416147	633	Putative protein of unknown function; similar to S. pombe uvi31 which is a putative DNA repair protein	biological_process	molecular_function	cellular_component
YLR439W	MRPL4	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0500369395006953	0.00380085130225327	634	Mitochondrial ribosomal protein of the large subunit, homolog of prokaryotic L29 ribosomal protein; located at the ribosomal tunnel exit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDL151C_d	BUD30	hom			0.0499738626598411	0.00388787927220056	635	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 96% of ORF overlaps the verified gene RPC53; diploid mutant displays a weak budding pattern phenotype in a systematic assay	Unknown	Unknown	Unknown
YMR128W	ECM16	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.049962925811534	0.00385306452128861	636	Essential DEAH-box ATP-dependent RNA helicase specific to the U3 snoRNP, predominantly nucleolar in distribution, required for 18S rRNA synthesis	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosome biogenesis	RNA helicase activity	small-subunit processome|mitochondrion|nucleolus|90S preribosome
YOR043W	WHI2	hom	FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION	0.0497871855872018	0.00397966026929764	637	Protein required, with binding partner Psr1p, for full activation of the general stress response, possibly through Msn2p dephosphorylation; regulates growth during the diauxic shift; negative regulator of G1 cyclin expression	response to salt stress|mitochondrion degradation|actin filament organization|endocytosis|response to heat|regulation of growth|response to stress	phosphatase activator activity	cellular_component
YOR323C	PRO2	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEUS	0.0497138465691534	0.00412254349226685	638	Gamma-glutamyl phosphate reductase, catalyzes the second step in proline biosynthesis	proline biosynthetic process	glutamate-5-semialdehyde dehydrogenase activity	nucleus|cytoplasm
YOR205C	GEP3	hom	FT	MITOCHONDRION	0.0496564800917105	0.0040817978419656	639	Protein required for mitochondrial ribosome small subunit biogenesis; null mutant is defective in respiration and in maturation of 15S rRNA; protein is localized to the mitochondrial inner membrane; null mutant interacts synthetically with prohibitin (phb1)	maturation of SSU-rRNA	molecular_function	mitochondrion|mitochondrial inner membrane
YER053C-A	YER053C-A	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.04965575049534	0.00407679512486671	640	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	endoplasmic reticulum
YGL023C	PIB2	hom	FT	VESICLE-MEDIATED TRANSPORT|MITOCHONDRION	0.049570736722697	0.00416892950620829	641	Protein of unknown function; contains FYVE domain; similar to Fab1 and Vps27	biological_process	molecular_function	mitochondrion
YAR023C_p	YAR023C	hom			0.0495211382673215	0.0041785027552942	642	Putative integral membrane protein, member of DUP240 gene family	biological_process	molecular_function	cellular_component
YOR357C	SNX3	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0494438127027686	0.00423796204845357	643	Sorting nexin required to maintain late-Golgi resident enzymes in their proper location by recycling molecules from the prevacuolar compartment; contains a PX domain and sequence similarity to human Snx3p	protein localization|late endosome to Golgi transport	phosphatidylinositol-3-phosphate binding	cytosol|endosome
YLL013C	PUF3	hom	FT	OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|RNA LOCALIZATION|MITOCHONDRION	0.0493539635787104	0.00430801406093475	644	Protein of the mitochondrial outer surface, links the Arp2/3 complex with the mitochore during anterograde mitochondrial movement; also binds to and promotes degradation of mRNAs for select nuclear-encoded mitochondrial proteins	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay|nuclear-transcribed mRNA catabolic process|intracellular mRNA localization|mitochondrion organization|aerobic respiration|mitochondrion localization	mRNA binding	external side of mitochondrial outer membrane|cytoplasm
YFR050C	PRE4	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.049225378729949	0.00442783681881423	645	Beta 7 subunit of the 20S proteasome	proteasome assembly|proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	molecular_function	nucleus|proteasome storage granule|endoplasmic reticulum membrane|proteasome core complex, beta-subunit complex
YOL023W	IFM1	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0492074895258781	0.00442446704826985	646	Mitochondrial translation initiation factor 2	translational initiation|mitochondrial translational initiation|mitochondrial translation	tRNA binding|GTPase activity|translation initiation factor activity	mitochondrion
YHL011C	PRS3	hom	FF|FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM	0.0489804078920855	0.0046106514823606	647	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes	fungal-type cell wall organization|5-phosphoribose 1-diphosphate biosynthetic process|regulation of cell size	ribose phosphate diphosphokinase activity	cytoplasm
YDL072C	YET3	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0488612035772946	0.00471119989103822	648	Protein of unknown function; YET3 null mutant decreases the level of secreted invertase; homolog of human BAP31 protein; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	integral to membrane|endoplasmic reticulum
YJR126C	VPS70	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT	0.0488592473882487	0.00471286634964532	649	Protein of unknown function involved in vacuolar protein sorting	protein targeting to vacuole	molecular_function	cellular_component
YBR212W	NGR1	hom	FT	MITOCHONDRION ORGANIZATION	0.0487942740779635	0.0047685204439188	650	RNA binding protein that negatively regulates growth rate; interacts with the 3' UTR of the mitochondrial porin (POR1) mRNA and enhances its degradation; overexpression impairs mitochondrial function; interacts with Dhh1p to mediate POR1 mRNA decay; expressed in stationary phase	3'-UTR-mediated mRNA destabilization|mitochondrion organization	mRNA binding	cytoplasmic mRNA processing body|cytoplasmic stress granule|perinuclear region of cytoplasm|cytoplasm
YDR092W	UBC13	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0486942952415873	0.00485532110131736	651	Ubiquitin-conjugating enzyme involved in the error-free DNA postreplication repair pathway; interacts with Mms2p to assemble ubiquitin chains at the Ub Lys-63 residue; DNA damage triggers redistribution from the cytoplasm to the nucleus	postreplication repair|protein monoubiquitination|protein polyubiquitination|free ubiquitin chain polymerization	ubiquitin-protein ligase activity	ubiquitin conjugating enzyme complex|nucleus|cytoplasm
YMR236W	TAF9	het	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RNA POL II, HOLOENZYME|HISTONE ACETYLTRANSFERASE	0.0485829660515981	0.00496013148103612	652	Subunit (17 kDa) of TFIID and SAGA complexes, involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H3	histone acetylation|RNA polymerase II transcriptional preinitiation complex assembly|chromatin modification|transcription from RNA polymerase II promoter	chromatin binding|protein complex scaffold|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	SLIK (SAGA-like) complex|SAGA complex|transcription factor TFIID complex
YLR434C_d	YLR434C	hom			0.0485057487341436	0.00502291313552624	653	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TSR2/YLR435W	Unknown	Unknown	Unknown
YOR061W	CKA2	hom	FF|FT	RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0482840166026365	0.00522668025278579	654	Alpha' catalytic subunit of casein kinase 2 (CK2); CK2 is a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; protein abundance increases in response to DNA replication stress; regulates Fkh1p-mediated donor preference during mating-type switching	regulation of transcription from RNA polymerase I promoter|chronological cell aging|protein phosphorylation|regulation of transcription from RNA polymerase III promoter|response to DNA damage stimulus	protein serine/threonine kinase activity	protein kinase CK2 complex|UTP-C complex
YGL128C	CWC23	het	FT	RNA PROCESSING|NUCLEUS	0.048269676913747	0.00524688126014505	655	Component of a complex containing Cef1p, putatively involved in pre-mRNA splicing; has similarity to E. coli DnaJ and other DnaJ-like proteins and to S. pombe Cwf23p	spliceosomal complex disassembly	molecular_function	U2-type spliceosomal complex
YOL095C	HMI1	hom	FT	RESPONSE TO DNA DAMAGE|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0479215377888796	0.00557591117606654	656	Mitochondrial inner membrane localized ATP-dependent DNA helicase, required for the maintenance of the mitochondrial genome; not required for mitochondrial transcription; has homology to E. coli helicase uvrD	mitochondrial genome maintenance|mitochondrial DNA metabolic process	ATP-dependent 3'-5' DNA helicase activity	mitochondrion|mitochondrial matrix
YKR029C	SET3	hom	FT	CELL CYCLE|CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0478519330095347	0.0056453324619647	657	Defining member of the SET3 histone deacetylase complex which is a meiosis-specific repressor of sporulation genes; necessary for efficient transcription by RNAPII; one of two yeast proteins that contains both SET and PHD domains; SET3 has a paralog, SET4, that arose from the whole genome duplication	negative regulation of meiosis|regulation of transcription, DNA-dependent|histone deacetylation	methylated histone residue binding	Rpd3L-Expanded complex|Set3 complex
YBR044C	TCM62	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0478156756696401	0.00568180207821635	658	Protein involved in the assembly of the mitochondrial succinate dehydrogenase complex; putative chaperone	mitochondrial respiratory chain complex II assembly	unfolded protein binding	mitochondrion|mitochondrial inner membrane
YLR361C-A_p	YLR361C-A	hom			0.0477193550639396	0.00577972051228143	659	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YPL119C-A_p	YPL119C-A	hom			0.0476873927656926	0.00581254752647754	660	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YGR174W-A_p	YGR174W-A	hom			0.0475873200712073	0.00596874202261208	661	Putative protein of unknown function; predicted to have a role in cell budding based on computational guilt by association analysis	biological_process	molecular_function	cellular_component
YDR272W	GLO2	hom	FT	KETONE METABOLISM|CARBOHYDRATE METABOLISM	0.0475812362492349	0.00592278523347448	662	Cytoplasmic glyoxalase II, catalyzes the hydrolysis of S-D-lactoylglutathione into glutathione and D-lactate	cellular carbohydrate metabolic process|methylglyoxal catabolic process to D-lactate	hydroxyacylglutathione hydrolase activity	cytoplasm
YJL047C-A_p	YJL047C-A	hom			0.0474958356880759	0.00601283215452521	663	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YOR183W_p	FYV12	hom			0.047427756141699	0.00608549680037142	664	Protein of unknown function, required for survival upon exposure to K1 killer toxin	biological_process	molecular_function	cellular_component
YJR043C	POL32	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0473406772431054	0.00620273309537041	665	Third subunit of DNA polymerase delta, involved in chromosomal DNA replication; required for error-prone DNA synthesis in the presence of DNA damage and processivity; interacts with Hys2p, PCNA (Pol30p), and Pol1p	RNA-dependent DNA replication|lagging strand elongation|postreplication repair|base-excision repair|DNA replication, removal of RNA primer|nucleotide-excision repair|mismatch repair|double-strand break repair via break-induced replication|leading strand elongation	DNA-directed DNA polymerase activity|single-stranded DNA specific 3'-5' exodeoxyribonuclease activity	delta DNA polymerase complex|nucleus
YDL061C	RPS29B	hom	FT	TRANSLATION|RIBOSOME	0.047292418348461	0.0062323019903543	666	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S29 and bacterial S14; RPS29B has a paralog, RPS29A, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic small ribosomal subunit
YLR424W	SPP382	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.0472582029063117	0.00626991772395713	667	Essential protein that forms a dimer with Ntr2p; also forms a trimer, with Ntr2p and Prp43p, that is involved in spliceosome disassembly; found also in a multisubunit complex with the splicing factor Clf1p; suppressor of prp38-1 mutation	spliceosomal complex disassembly|mRNA splicing, via spliceosome|generation of catalytic spliceosome for first transesterification step	RNA binding|ATP-dependent RNA helicase activity	mitochondrion|U2-type post-mRNA release spliceosomal complex|nucleus|spliceosomal complex|cytoplasm
YCL045C	EMC1	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0470835237510397	0.00646515846820671	668	Member of conserved endoplasmic reticulum membrane complex; involved in efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; interacts with Gal80p; homologous to worm H17B01.4/EMC-1, fly CG2943, and human KIAA0090	protein folding in endoplasmic reticulum	molecular_function	ER membrane protein complex|endoplasmic reticulum
YAR002C-A	ERP1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0470204599348876	0.0065773221997611	669	Member of the p24 family involved in ER to Golgi transport; forms heterotrimeric complex with Erp2p, Emp24p, and Erv25p; localized to COPII-coated vesicles; ERP1 has a paralog, ERP6, that arose from the whole genome duplication	ER to Golgi vesicle-mediated transport	molecular_function	mitochondrion|ER to Golgi transport vesicle
YLR089C	ALT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0469789975702384	0.00658458640777201	670	Alanine transaminase (glutamic pyruvic transaminase); involved in alanine biosynthetic and catabolic processes; expression is induced in the presence of alanine; repression is mediated by Nrg1p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; paralogous gene ALT2 is catalytically inactive	alanine catabolic process|alanine biosynthetic process	L-alanine:2-oxoglutarate aminotransferase activity	mitochondrion
YDR496C	PUF6	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|SITE OF POLARIZED GROWTH|RIBOSOME	0.0469497051881562	0.00665914309390457	671	Pumilio-homology domain protein that binds the 3' UTR of ASH1 mRNA and represses its translation, resulting in proper asymmetric localization of ASH1 mRNA; also co-sediments with the 60S ribosomal subunit and is required for its biogenesis	ribosomal large subunit biogenesis|negative regulation of translation	mRNA 3'-UTR binding|translation repressor activity, nucleic acid binding	nucleolus|nucleus|large ribosomal subunit
YDR114C_p	YDR114C	hom			0.0469291085473175	0.00664228391859867	672	Putative protein of unknown function; deletion mutant exhibits poor growth at elevated pH and calcium	biological_process	molecular_function	cellular_component
YBL008W	HIR1	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0469280097621765	0.00668441431221227	673	Subunit of the HIR complex, a nucleosome assembly complex involved in regulation of histone gene transcription; contributes to nucleosome formation, heterochromatic gene silencing, and formation of functional kinetochores	DNA replication-independent nucleosome assembly|regulation of transcription from RNA polymerase II promoter|transcription elongation from RNA polymerase II promoter	nucleosome binding|transcription corepressor activity|DNA binding	chromosome, centromeric region|HIR complex|nucleus
YOR034C-A_p	YOR034C-A	hom			0.0469095652449191	0.00667318055255309	674	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YLR231C	BNA5	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.046796691017162	0.00679763681075353	675	Kynureninase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p	de novo NAD biosynthetic process from tryptophan	kynureninase activity	nucleus|cytoplasm
YGL240W	DOC1	hom	FT	CELL CYCLE|CHROMATIN ORGANIZATION|CELL DIVISION|PROTEOLYSIS|NUCLEUS|MITOCHONDRION|UBIQUITIN LIGASE COMPLEX	0.0467615889552708	0.00683936229066506	676	Processivity factor required for the ubiquitination activity of the anaphase promoting complex (APC), mediates the activity of the APC by contributing to substrate recognition; involved in cyclin proteolysis; contains a conserved DOC1 homology domain	activation of mitotic anaphase-promoting complex activity|chromatin assembly|anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|cyclin catabolic process	enzyme regulator activity|mitotic anaphase-promoting complex activity	mitochondrion|anaphase-promoting complex
YOL138C	RTC1	hom			0.0466896633585802	0.00692557886309033	677	Subunit of the SEA (Seh1-associated) complex, a coatomer-related complex that associates dynamically with the vacuole; null mutation suppresses cdc13-1 temperature sensitivity; has N-terminal WD-40 repeats and a C-terminal RING motif	biological_process	molecular_function	ribosome|fungal-type vacuole|Seh1-associated complex|extrinsic to fungal-type vacuolar membrane
YHR155W	YSP1	hom	FF|FT	MITOCHONDRION	0.0466125069417666	0.00701914933617621	678	Mitochondrial protein; potential role in promoting mitochondrial fragmentation during programmed cell death in response to high levels of alpha-factor mating pheromone or the drug amiodarone; YSP1 has a paralog, SIP3, that arose from the whole genome duplication	biological_process	molecular_function	mitochondrion
YKL160W	ELF1	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS	0.0463739622354587	0.00732444371798556	679	Transcription elongation factor that contains a conserved zinc finger domain; implicated in the maintenance of proper chromatin structure in actively transcribed regions; deletion inhibits Brome mosaic virus (BMV) gene expression	regulation of transcription by chromatin organization|transcription elongation from RNA polymerase II promoter	RNA polymerase II core binding	transcription elongation factor complex|nucleus
YPL211W	NIP7	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|RIBOSOME	0.0463630155012411	0.00732953404420183	680	Nucleolar protein required for 60S ribosome subunit biogenesis, constituent of 66S pre-ribosomal particles; physically interacts with Nop8p and the exosome subunit Rrp43p	ribosomal large subunit assembly|ribosomal large subunit biogenesis|rRNA processing	molecular_function	cytosolic large ribosomal subunit|nucleolus|preribosome, large subunit precursor
YDR250C_d	YDR250C	hom			0.0463067462085287	0.00740121572769361	681	Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data	Unknown	Unknown	Unknown
YAL056W	GPB2	hom	FT	TRANSCRIPTION FROM RNA POL II|SIGNALING|MITOCHONDRION|PLASMA MEMBRANE	0.0462680166305959	0.00745091803774924	682	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; inhibits Ras activity through direct interactions with Ira1p/2p; regulated by G-alpha protein Gpa2p; GPB2 has a paralog, GPB1, that arose from the whole genome duplication	signal transduction|glucose mediated signaling pathway|pseudohyphal growth|ascospore formation|negative regulation of Ras protein signal transduction|invasive growth in response to glucose limitation|positive regulation of transcription from RNA polymerase II promoter	cAMP-dependent protein kinase inhibitor activity|signal transducer activity|GTPase activating protein binding	mitochondrion|plasma membrane|cytoplasm
YHL031C	GOS1	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0461789460926437	0.00756636084509415	683	v-SNARE protein involved in Golgi transport, homolog of the mammalian protein GOS-28/GS28	Golgi vesicle transport|vesicle fusion	SNAP receptor activity	SNARE complex|integral to membrane|Golgi medial cisterna
YGL192W	IME4	hom	FT	CELL CYCLE|NUCLEUS	0.0461673122002509	0.00760867245468348	684	Probable mRNA N6-adenosine methyltransferase required for entry into meiosis; transcribed in diploid cells; haploids repress IME4 transcription via production of antisense IME4 transcripts; antisense transcription is repressed in diploids	meiosis|mRNA methylation	mRNA (N6-adenosine)-methyltransferase activity	cellular_component
YKL210W	UBA1	het	FT	NUCLEUS	0.0459895889089879	0.00785416237653424	685	Ubiquitin activating enzyme (E1); involved in ubiquitin-mediated protein degradation and essential for viability; protein abundance increases in response to DNA replication stress	protein ubiquitination	ubiquitin activating enzyme activity	nucleus|cytoplasm
YDL066W	IDP1	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0456989625546879	0.00821649023081595	686	Mitochondrial NADP-specific isocitrate dehydrogenase, catalyzes the oxidation of isocitrate to alpha-ketoglutarate; not required for mitochondrial respiration and may function to divert alpha-ketoglutarate to biosynthetic processes	isocitrate metabolic process|glutamate biosynthetic process	isocitrate dehydrogenase (NADP+) activity	mitochondrial nucleoid|mitochondrion
YLR133W	CKI1	hom	FT	LIPID METABOLISM	0.0456239782199131	0.00832244852075275	687	Choline kinase; catalyzes the first step in phosphatidylcholine synthesis via the CDP-choline (Kennedy pathway); exhibits some ethanolamine kinase activity contributing to phosphatidylethanolamine synthesis via the CDP-ethanolamine pathway; CKI1 has a paralog, EKI1, that arose from the whole genome duplication	phosphatidylethanolamine biosynthetic process|phosphatidylcholine biosynthetic process	ethanolamine kinase activity|choline kinase activity	cytoplasm
YPR054W	SMK1	hom	FT	SIGNALING|CELL WALL ORG/BIOGENESIS|PROTEIN PHOSPHORYLATION|MITOCHONDRION	0.0455863486759656	0.0083760808598139	688	Middle sporulation-specific mitogen-activated protein kinase (MAPK) required for production of the outer spore wall layers; negatively regulates activity of the glucan synthase subunit Gsc2p	ascospore wall assembly|protein phosphorylation|negative regulation of sporulation resulting in formation of a cellular spore	MAP kinase activity	mitochondrion
YDR034W-B_p	YDR034W-B	hom			0.0452800155958269	0.00882431383923551	689	Predicted tail-anchored plasma membrane protein containing a conserved CYSTM module; related proteins in other organisms may be involved in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery	biological_process	molecular_function	cellular_component
YMR033W	ARP9	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RSC COMPLEX	0.045246590984449	0.00888468085732535	690	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation	nucleosome positioning|ATP-dependent chromatin remodeling|nucleosome mobilization|chromatin organization|nucleosome disassembly|transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	DNA translocase activity	RSC complex|SWI/SNF complex|nucleus
YLR357W	RSC2	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS|RSC COMPLEX	0.0451445711547435	0.00902923920487012	691	Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; involved in telomere maintenance	ATP-dependent chromatin remodeling|chromosome segregation|nucleosome disassembly|plasmid maintenance|sister chromatid cohesion|double-strand break repair via nonhomologous end joining|transcription elongation from RNA polymerase II promoter|double-strand break repair via homologous recombination	DNA translocase activity	RSC complex
YOR333C_d	YOR333C	hom			0.0450764189180015	0.00913395015189601	692	Dubious open reading frame, unlikely to encode a functional protein; overlaps 5' end of MRS2 gene required for respiratory growth	Unknown	Unknown	Unknown
YIL059C_d	YIL059C	hom			0.0450731956728126	0.00913892915890179	693	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YIL060W	Unknown	Unknown	Unknown
YJR032W	CPR7	hom			0.0450453230977975	0.00918208555970556	694	Peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; binds to Hsp82p and contributes to chaperone activity	protein refolding|response to stress	unfolded protein binding|peptidyl-prolyl cis-trans isomerase activity	cytosol
YPL124W	SPC29	het	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|NUCLEUS|CYTOSKELETON	0.0450181478993683	0.00922433713589387	695	Inner plaque spindle pole body (SPB) component, links the central plaque component Spc42p to the inner plaque component Spc110p; required for SPB duplication	microtubule nucleation|spindle pole body duplication associated with nuclear envelope	structural constituent of cytoskeleton	central plaque of spindle pole body
YOR327C	SNC2	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0449638411094992	0.0093092924428089	696	Vesicle membrane receptor protein (v-SNARE); involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins; SNC2 has a paralog, SNC1, that arose from the whole genome duplication	endocytosis|exocytosis|Golgi to plasma membrane transport|vesicle fusion	SNAP receptor activity	SNARE complex|trans-Golgi network|endosome|transport vesicle membrane
YML103C	NUP188	hom	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0449343332621597	0.00935574529429169	697	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC organization and nucleocytoplasmic transport; homologous to human NUP188	nuclear pore organization|protein import into nucleus|mRNA export from nucleus in response to heat stress	structural constituent of nuclear pore	integral to membrane|nuclear pore|nuclear pore inner ring
YKL139W	CTK1	hom	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|RESPONSE TO DNA DAMAGE|TRANSLATION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0447274883376159	0.0096872157483856	698	Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I); phosphorylates both RNA pol II subunit Rpo21p to affect transcription and pre-mRNA 3' end processing, and ribosomal protein Rps2p to increase translational fidelity; similar to the Drosophila dCDK12 and human CDK12 and probably CDK13	mRNA 3'-end processing|phosphorylation of RNA polymerase II C-terminal domain|positive regulation of translational fidelity|positive regulation of transcription from RNA polymerase I promoter|peptidyl-serine phosphorylation|positive regulation of DNA-dependent transcription, elongation|protein phosphorylation	protein kinase activity|cyclin-dependent protein kinase activity	nucleoplasm|nucleolus|nucleus|polysome|carboxy-terminal domain protein kinase complex
YOL164W-A_p	YOL164W-A	hom			0.0447124450411878	0.00972263456403937	699	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YMR211W	DML1	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0446629733495901	0.00979272114509137	700	Essential protein involved in mtDNA inheritance, may also function in the partitioning of the mitochondrial organelle or in the segregation of chromosomes, exhibits regions similar to members of a GTPase family	plasmid maintenance|mitochondrial genome maintenance	molecular_function	mitochondrion|cytoplasm
YJL069C	UTP18	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0446045817079584	0.00988909380824924	701	Possible U3 snoRNP protein involved in maturation of pre-18S rRNA, based on computational analysis of large-scale protein-protein interaction data	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	small-subunit processome|nucleolus|Pwp2p-containing subcomplex of 90S preribosome|90S preribosome
YGR083C	GCD2	het	FT	TRANSLATION	0.0445533784420582	0.0099742964813949	702	Delta subunit of the translation initiation factor eIF2B, the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression	regulation of translational initiation	enzyme regulator activity|guanyl-nucleotide exchange factor activity|translation initiation factor activity	eukaryotic translation initiation factor 2B complex|guanyl-nucleotide exchange factor complex
YMR043W	MCM1	het	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|CELL CYCLE|AMINO ACID METABOLISM|NUCLEUS|CHROMOSOME	0.0444948717653002	0.0100724516684715	703	Transcription factor involved in cell-type-specific transcription and pheromone response; plays a central role in the formation of both repressor and activator complexes	regulation of mating type switching|positive regulation of transcription involved in G2/M-phase of mitotic cell cycle|DNA replication initiation|negative regulation of mating-type specific transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter|Unknown|positive regulation of mating-type specific transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	DNA replication origin binding|RNA polymerase II activating transcription factor binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|RNA polymerase II core promoter proximal region sequence-specific DNA binding, bending|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription|sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity|RNA polymerase II repressing transcription factor binding	nuclear chromatin
YER146W	LSM5	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0444930187252912	0.0100755744658319	704	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA	nuclear-transcribed mRNA catabolic process|mRNA splicing, via spliceosome	RNA binding	U6 snRNP|nucleolus|small nucleolar ribonucleoprotein complex|U4/U6 x U5 tri-snRNP complex
YMR005W	TAF4	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0443782835853668	0.0102706160570261	705	TFIID subunit (48 kDa), involved in RNA polymerase II transcription initiation; potential Cdc28p substrate	RNA polymerase II transcriptional preinitiation complex assembly|transcription from RNA polymerase II promoter	chromatin binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly|RNA polymerase II activating transcription factor binding	transcription factor TFIID complex
YMR001C	CDC5	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|CHROMOSOME SEGREGATION|NUCLEUS|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.044329540924824	0.0104349111040798	706	Polo-like kinase with multiple functions in mitosis and cytokinesis through substrate phosphorylation, also functions in adaptation to DNA damage during meiosis; has similarity to Xenopus Plx1 and S. pombe Plo1p; possible Cdc28p substrate	synaptonemal complex disassembly|spindle assembly involved in meiosis|protein phosphorylation|resolution of meiotic recombination intermediates|positive regulation of spindle pole body separation	protein kinase activity	nucleus|cellular bud neck|spindle pole
YJR001W	AVT1	hom	FT	VACUOLAR TRANSPORT	0.0442887638794838	0.010634286918635	707	Vacuolar transporter, imports large neutral amino acids into the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters	amino acid transport|vacuolar transport	transporter activity|L-glutamine transmembrane transporter activity|L-isoleucine transmembrane transporter activity|L-tyrosine transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YDR490C	PKH1	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|RNA PROCESSING|SIGNALING|CELL WALL ORG/BIOGENESIS|PROTEIN PHOSPHORYLATION	0.0442554646871274	0.010529422746109	708	Serine/threonine protein kinase involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; redundant with Pkh2p	regulation of nuclear-transcribed mRNA poly(A) tail shortening|endocytosis|protein phosphorylation|MAPK cascade involved in cell wall biogenesis|cytoplasmic mRNA processing body assembly	protein kinase activity	cytosol|cell cortex|eisosome
YOR349W	CIN1	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS	0.0442415229011527	0.0105074825181499	709	Tubulin folding factor D involved in beta-tubulin (Tub2p) folding; isolated as mutant with increased chromosome loss and sensitivity to benomyl	protein folding|tubulin complex assembly|tubulin complex biogenesis	beta-tubulin binding	cellular_component
YNL136W	EAF7	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0441872890673434	0.0106027513090404	710	Subunit of the NuA4 histone acetyltransferase complex, which acetylates the N-terminal tails of histones H4 and H2A	DNA repair|histone acetylation|regulation of transcription from RNA polymerase II promoter	molecular_function	histone acetyltransferase complex|nucleus|NuA4 histone acetyltransferase complex
YOR220W	RCN2	hom			0.0441268480574816	0.0107215728607486	711	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; phosphorylated in response to alpha factor; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	cytoplasm
YJL036W	SNX4	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT	0.0440689555194681	0.0108132896164226	712	Sorting nexin, involved in retrieval of late-Golgi SNAREs from post-Golgi endosomes to the trans-Golgi network and in cytoplasm to vacuole transport; contains a PX phosphoinositide-binding domain; forms complexes with Snx41p and with Atg20p	piecemeal microautophagy of nucleus|mitochondrion degradation|early endosome to Golgi transport|CVT pathway|protein targeting to vacuole	phosphatidylinositol-3-phosphate binding	cytosol|pre-autophagosomal structure|extrinsic to membrane|early endosome
YDL051W	LHP1	hom	FT	RNA PROCESSING|NUCLEUS	0.0438698000114449	0.0111760222746217	713	RNA binding protein required for maturation of tRNA and U6 snRNA precursors; acts as a molecular chaperone for RNAs transcribed by polymerase III; homologous to human La (SS-B) autoantigen	tRNA processing	RNA binding|tRNA binding	nucleoplasm|nucleolus|nucleus
YLR020C	YEH2	hom	FT	LIPID METABOLISM|CELL WALL ORG/BIOGENESIS|PLASMA MEMBRANE	0.0438144521416952	0.0112787299933665	714	Steryl ester hydrolase, catalyzes steryl ester hydrolysis at the plasma membrane; involved in sterol metabolism	cell wall mannoprotein biosynthetic process|sterol metabolic process	sterol esterase activity	integral to membrane|plasma membrane
YNL250W	RAD50	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|MITOCHONDRION	0.0438050468909715	0.0113329810652973	715	Subunit of MRX complex with Mre11p and Xrs2p; complex is involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining; forms nuclear foci upon DNA replication stress	base-excision repair|meiotic DNA double-strand break processing|telomere maintenance via recombination|meiosis|meiotic DNA double-strand break formation|double-strand break repair via nonhomologous end joining|telomere maintenance|double-strand break repair via break-induced replication|negative regulation of endodeoxyribonuclease activity	double-stranded DNA binding|single-stranded telomeric DNA binding|ATPase activity|double-stranded telomeric DNA binding|G-quadruplex DNA binding|telomeric DNA binding|adenylate kinase activity	mitochondrion|nucleus|Mre11 complex
YPL141C	FRK1	hom	FT	PROTEIN PHOSPHORYLATION	0.0436803090496306	0.0115684244328309	716	Protein kinase of unknown cellular role; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; interacts with rRNA transcription and ribosome biogenesis factors and the long chain fatty acyl-CoA synthetase Faa3p; FRK1 has a paralog, KIN4, that arose from the whole genome duplication	protein phosphorylation	protein kinase activity	cytoplasm
YDR016C	DAD1	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0436726255752174	0.0115457476386998	717	Essential subunit of the Dam1 complex (aka DASH complex), couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; is transferred to the kinetochore prior to mitosis	mitotic spindle organization in nucleus|regulation of microtubule polymerization or depolymerization	microtubule binding|structural constituent of cytoskeleton	condensed nuclear chromosome kinetochore|DASH complex|spindle
YBR195C	MSI1	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS	0.0435661969991443	0.0117497887679497	718	Subunit of chromatin assembly factor I (CAF-1); chromatin assembly by CAF-1 is important for multiple processes including silencing at telomeres, mating type loci, and rDNA; maintenance of kinetochore structure; deactivation of the DNA damage checkpoint after DNA repair; and chromatin dynamics during transcription; Msi1p localizes to both nucleus and cytoplasm and has an independent role as a negative regulator of the RAS/cAMP pathway via sequestration of Npr1p kinase	DNA replication-dependent nucleosome assembly	histone binding	nucleus|CAF-1 complex|cytoplasm
YER002W	NOP16	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0435547718760697	0.0117844893612887	719	Constituent of 66S pre-ribosomal particles, involved in 60S ribosomal subunit biogenesis	ribosomal large subunit biogenesis	molecular_function	nucleolus|nucleus|preribosome, large subunit precursor
YIL106W	MOB1	het	FT	CELL CYCLE|CELL DIVISION|PROTEIN PHOSPHORYLATION|NUCLEUS|SITE OF POLARIZED GROWTH|CHROMOSOME|CYTOSKELETON	0.0435264628150528	0.0118267814612199	720	Component of the mitotic exit network; associates with and is required for the activation and Cdc15p-dependent phosphorylation of the Dbf2p kinase; required for cytokinesis and cell separation; component of the CCR4 transcriptional complex; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress	regulation of exit from mitosis|protein phosphorylation	kinase regulator activity	spindle pole body|cellular bud neck
YDR214W	AHA1	hom	FT	NUCLEOTIDE METABOLISM	0.0434305016271248	0.0120530181209571	721	Co-chaperone that binds to Hsp82p and activates its ATPase activity; similar to Hch1p; expression is regulated by stresses such as heat shock; protein abundance increases in response to DNA replication stress	protein folding|response to stress	ATPase activator activity|chaperone binding	cytoplasm
YLR342W	FKS1	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|MITOCHONDRION|PLASMA MEMBRANE|CYTOSKELETON	0.0433328487726489	0.0122083806953153	722	Catalytic subunit of 1,3-beta-D-glucan synthase, functionally redundant with alternate catalytic subunit Gsc2p; binds to regulatory subunit Rho1p; involved in cell wall synthesis and maintenance; localizes to sites of cell wall remodeling	(1->3)-beta-D-glucan biosynthetic process|positive regulation of endocytosis|regulation of cell size	1,3-beta-D-glucan synthase activity	mitochondrion|1,3-beta-D-glucan synthase complex|integral to membrane|plasma membrane|cellular bud neck|cellular bud tip|actin cortical patch
YPL238C_d	YPL238C	het	FF		0.0432714623305096	0.0123708244352686	723	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified essential gene SUI3/YPL237W	Unknown	Unknown	Unknown
YER055C	HIS1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0432088709426688	0.012458421932021	724	ATP phosphoribosyltransferase, a hexameric enzyme, catalyzes the first step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts; transcription is regulated by general amino acid control	histidine biosynthetic process	ATP phosphoribosyltransferase activity	cellular_component
YOR334W	MRS2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0429735044295307	0.0129456135647683	725	Mitochondrial inner membrane Mg(2+) channel, required for maintenance of intramitochondrial Mg(2+) concentrations at the correct level to support splicing of group II introns	mitochondrial magnesium ion transport	magnesium ion transmembrane transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YDR486C	VPS60	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT	0.0428812234437374	0.0131411789305009	726	Cytoplasmic and vacuolar membrane protein involved in late endosome to vacuole transport; required for normal filament maturation during pseudohyphal growth; may function in targeting cargo proteins for degradation; interacts with Vta1p	late endosome to vacuole transport via multivesicular body sorting pathway|filamentous growth	molecular_function	fungal-type vacuole membrane|cytoplasm
YOR020C	HSP10	het	FT	MITOCHONDRION	0.0428788991777599	0.0131461381362918	727	Mitochondrial matrix co-chaperonin that inhibits the ATPase activity of Hsp60p, a mitochondrial chaperonin; involved in protein folding and sorting in the mitochondria; 10 kD heat shock protein with similarity to E. coli groES	protein folding|protein refolding	unfolded protein binding|chaperone binding	mitochondrion|mitochondrial matrix
YMR158W	MRPS8	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0428661568335605	0.0131733554384842	728	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YNL215W	IES2	hom	FT	NUCLEUS	0.0428201789153999	0.0133965619829362	729	Protein that associates with the INO80 chromatin remodeling complex; associates with the INO80 complex under low-salt conditions; essential for growth under anaerobic conditions; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	nucleus
YDL120W	YFH1	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|ION HOMEOSTASIS|COFACTOR METABOLISM|MITOCHONDRION	0.0427075158134864	0.0135164015367841	730	Mitochondrial matrix iron chaperone; oxidizes and stores iron; interacts with Isu1p to promote Fe-S cluster assembly; mutation results in multiple Fe/S-dependent enzyme deficiencies; human frataxin homolog is mutated in Friedrich's ataxia	cellular iron ion homeostasis|iron-sulfur cluster assembly|glutathione metabolic process	ferrous iron binding|ferroxidase activity|iron chaperone activity	mitochondrion|mitochondrial matrix
YMR267W	PPA2	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0425837154634757	0.0138179370308617	731	Mitochondrial inorganic pyrophosphatase, required for mitochondrial function and possibly involved in energy generation from inorganic pyrophosphate	aerobic respiration	inorganic diphosphatase activity	mitochondrion
YBL014C	RRN6	het	FT	NUCLEUS	0.0424564437999567	0.0140754555654534	732	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p	transcription initiation from RNA polymerase I promoter|transcription of nuclear large rRNA transcript from RNA polymerase I promoter	RNA polymerase I regulatory region DNA binding|RNA polymerase I transcription factor binding|RNA polymerase I CORE element sequence-specific DNA binding transcription factor recruiting transcription factor activity	RNA polymerase I core factor complex
YOL035C_d	YOL035C	hom			0.0423983365098693	0.0142077118316325	733	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR502C	SAM2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|COFACTOR METABOLISM	0.0423572242052921	0.0143019471668414	734	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; SAM2 has a paralog, SAM1, that arose from the whole genome duplication	methionine metabolic process|S-adenosylmethionine biosynthetic process	methionine adenosyltransferase activity	cellular_component
YGL175C	SAE2	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0422569428863383	0.0146079654157583	735	Endonuclease that processes hairpin DNA structures with the MRX complex; involved in meiotic and mitotic double-strand break repair; phosphorylated in response to DNA damage and required for normal resistance to DNA-damaging agents	DNA double-strand break processing|DNA catabolic process, endonucleolytic|meiotic DNA double-strand break formation|meiotic DNA double-strand break processing|gene conversion at mating-type locus, DNA double-strand break processing	double-stranded DNA binding|single-stranded DNA specific endodeoxyribonuclease activity	nucleus|cytoplasm
YGL062W	PYC1	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM	0.042140003254401	0.014883918813691	736	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc2p; mutations in the human homolog are associated with lactic acidosis; PYC1 has a paralog, PYC2, that arose from the whole genome duplication	NADPH regeneration|gluconeogenesis	pyruvate carboxylase activity	cytosol
YIL076W	SEC28	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0420674513469516	0.0149819216061422	737	Epsilon-COP subunit of the coatomer; regulates retrograde Golgi-to-ER protein traffic; stabilizes Cop1p, the alpha-COP and the coatomer complex; non-essential for cell growth; protein abundance increases in response to DNA replication stress	late endosome to vacuole transport via multivesicular body sorting pathway|ER to Golgi vesicle-mediated transport|vesicle coating	molecular_function	endosome|COPI vesicle coat
YNL124W	NAF1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0420574882785189	0.0150057985842498	738	RNA-binding protein required for the assembly of box H/ACA snoRNPs and thus for pre-rRNA processing, forms a complex with Shq1p and interacts with H/ACA snoRNP components Nhp2p and Cbf5p; similar to Gar1p	box H/ACA snoRNP assembly	RNA binding	nucleoplasm|nucleus
YGR146C-A_p	YGR146C-A	hom			0.0419433909283976	0.0152816366615042	739	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YAL029C	MYO4	hom	FT	RNA LOCALIZATION|MITOCHONDRION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0417852179784134	0.0156714075004246	740	Type V myosin motor involved in actin-based transport of cargos; required for mRNA transport, including ASH1 mRNA, and facilitating the growth and movement of ER tubules into the growing bud along with She3p; MYO4 has a paralog, MYO2, that arose from the whole genome duplication	mating type switching|endoplasmic reticulum inheritance|intracellular mRNA localization	microfilament motor activity|actin filament binding	mitochondrion|filamentous actin|myosin V complex|cellular bud|cellular bud tip
YER164W	CHD1	hom	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CHROMATIN ORGANIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME|HISTONE ACETYLTRANSFERASE	0.0414746379470065	0.0164622481480051	741	Chromatin remodeler that regulates various aspects of transcription; acts in in conjunction with Isw1b to regulate chromatin structure and maintain chromatin integrity during transcription elongation by RNAP II by preventing trans-histone exchange over coding regions; contains a chromo domain, a helicase domain and a DNA-binding domain; component of both the SAGA and SLIK complexes	termination of RNA polymerase I transcription|ATP-dependent chromatin remodeling|nucleosome positioning|negative regulation of histone H3-K14 acetylation|termination of RNA polymerase II transcription|regulation of transcription by chromatin organization|regulation of transcriptional start site selection at RNA polymerase II promoter|nucleosome mobilization|Unknown|transcription elongation from RNA polymerase II promoter	chromatin DNA binding|DNA-dependent ATPase activity|methylated histone residue binding|DNA binding|rDNA binding	nuclear chromatin|SLIK (SAGA-like) complex|mitochondrion|SAGA complex|nucleolar chromatin
YNL241C	ZWF1	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS	0.0414196883828085	0.0166057586944956	742	Glucose-6-phosphate dehydrogenase (G6PD); catalyzes the first step of the pentose phosphate pathway; involved in adapting to oxidatve stress; homolog of the human G6PD which is deficient in patients with hemolytic anemia; protein abundance increases in response to DNA replication stress	NADPH regeneration|response to hydrogen peroxide|pentose-phosphate shunt, oxidative branch|carbon catabolite repression of transcription	glucose-6-phosphate dehydrogenase activity	cytoplasm
YBR163W	EXO5	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0414123570219598	0.0166249886384211	743	Mitochondrial 5'-3' exonuclease and sliding exonuclease, required for mitochondrial genome maintenance; distantly related to the RecB nuclease domain of bacterial RecBCD recombinases; may be regulated by the transcription factor Ace2	mitochondrial genome maintenance	single-stranded DNA specific 5'-3' exodeoxyribonuclease activity	mitochondrion
YPL173W	MRPL40	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0414058428342305	0.016642091558223	744	Mitochondrial ribosomal protein of the large subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YPL193W	RSA1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0413942108612909	0.0166726695708685	745	Protein involved in the assembly of 60S ribosomal subunits; functionally interacts with Dbp6p; functions in a late nucleoplasmic step of the assembly	ribosomal large subunit assembly	molecular_function	nucleoplasm
YDR126W	SWF1	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|CYTOSKELETON	0.0413751254014763	0.0167229480702731	746	Palmitoyltransferase that acts on transmembrane proteins, including the SNAREs Snc1p, Syn8p, Tlg1p and likely all SNAREs; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; may have a role in vacuole fusion	ascospore wall assembly|cortical actin cytoskeleton organization|establishment of cell polarity|vacuole fusion, non-autophagic|regulation of exocytosis|protein palmitoylation	palmitoyltransferase activity	integral to membrane|actin filament bundle|nuclear outer membrane-endoplasmic reticulum membrane network|actin cortical patch
YDR331W	GPI8	het	FT	LIPID METABOLISM|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0413547354202354	0.0167768101514325	747	ER membrane glycoprotein subunit of the glycosylphosphatidylinositol transamidase complex that adds glycosylphosphatidylinositol (GPI) anchors to newly synthesized proteins; human PIG-K protein is a functional homolog	attachment of GPI anchor to protein	GPI-anchor transamidase activity	endoplasmic reticulum membrane|GPI-anchor transamidase complex
YFL039C	ACT1	het	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|TRANSCRIPTION FROM RNA POL II|CELL CYCLE|MEMBRANE ORGANIZATION|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CELL WALL ORG/BIOGENESIS|CELL DIVISION|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|RESPON	0.0413524112768394	0.016782959252377	748	Actin, structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions	ascospore wall assembly|vacuole inheritance|protein secretion|DNA repair|budding cell isotropic bud growth|mitochondrion inheritance|fungal-type cell wall organization|vesicle transport along actin filament|establishment of cell polarity|chronological cell aging|cytokinesis|actin filament reorganization involved in cell cycle|histone acetylation|endocytosis|exocytosis|establishment of mitotic spindle orientation|regulation of transcription from RNA polymerase II promoter|actomyosin contractile ring contraction|cellular response to oxidative stress	structural constituent of cytoskeleton	cellular bud neck contractile ring|actin filament|histone acetyltransferase complex|Swr1 complex|actin filament bundle|NuA4 histone acetyltransferase complex|Ino80 complex|actin cortical patch
YHR156C	LIN1	hom	FT	NUCLEUS|CHROMOSOME	0.04131216503625	0.0168897547970099	749	Non-essential component of U5 snRNP; nuclear protein; physically interacts with Irr1p of cohesin complex; may link together proteins involved in chromosome segregation, mRNA splicing and DNA replication	biological_process	protein binding	chromatin|nucleus|U4/U6 x U5 tri-snRNP complex|U5 snRNP
YHR132W-A	IGO2	hom	FT	NUCLEUS	0.0412973905777161	0.0169291089548843	750	Protein required for initiation of G0 program; prevents degradation of nutrient-regulated mRNAs via the 5'-3' mRNA decay pathway; phosphorylated by Rim15p; GFP protein localizes to the cytoplasm and nucleus; similar to Igo1p	mRNA stabilization	molecular_function	nucleus|cytoplasm
YHL034C	SBP1	hom	FT	TRANSLATION|NUCLEUS	0.0412280253727327	0.0171149517095954	751	Protein that binds eIF4G and has a role in repression of translation; has an RGG motif; found in cytoplasmic P bodies; found associated with small nucleolar RNAs snR10 and snR11	negative regulation of translation|negative regulation of translation in response to stress	RNA binding|eukaryotic initiation factor 4G binding	nucleolus|cytoplasmic mRNA processing body|cytoplasm
YIL129C	TAO3	het	FT	CELL DIVISION|MITOCHONDRION|SITE OF POLARIZED GROWTH	0.0411401555851451	0.0173529387970573	752	Component of the RAM signaling network that is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with protein kinase Cbk1p and also with Kic1p	cell morphogenesis|cell budding|budding cell apical bud growth	molecular_function	incipient cellular bud site|mitochondrion|cellular bud|mating projection tip
YDR246W-A_p	YDR246W-A	hom			0.0411373807695454	0.017360501140372	753	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YMR179W	SPT21	hom	FT	TRANSCRIPTION FROM RNA POL II|GENE SILENCING|NUCLEUS	0.0411117973903352	0.0174303610079272	754	Protein with a role in transcriptional silencing; required for normal transcription at several loci including HTA2-HTB2 and HHF2-HHT2, but not required at the other histone loci; functionally related to Spt10p; localizes to nuclear foci that become diffuse upon DNA replication stress	chromatin silencing at rDNA|regulation of transcription from RNA polymerase II promoter|chromatin silencing at telomere|chromatin silencing at silent mating-type cassette	molecular_function	nucleus
YDR160W	SSY1	het	FT	PLASMA MEMBRANE	0.0409741320482987	0.0178105260064156	755	Component of the SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p), which senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes	response to amino acid stimulus	molecular_function	integral to membrane|plasma membrane
YHR086W-A_p	YHR086W-A	hom			0.040970095678427	0.0178217812446684	756	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YCL046W_d	YCL046W	hom			0.0409578381182984	0.0179417539674636	757	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YCL045C	Unknown	Unknown	Unknown
YNL093W	YPT53	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|VACUOLAR TRANSPORT|PLASMA MEMBRANE	0.0408841413950296	0.0180629441403016	758	Rab family GTPase; similar to Ypt51p and Ypt52p and to mammalian rab5; required for vacuolar protein sorting and endocytosis; YPT53 has a paralog, VPS21, that arose from the whole genome duplication	endocytosis|protein targeting to vacuole	GTPase activity	late endosome
YPL029W	SUV3	hom	FF|FT	RNA PROCESSING|MITOCHONDRION ORGANIZATION|MITOCHONDRION|CHROMOSOME	0.0408537437483962	0.0181489124052741	759	ATP-dependent RNA helicase, component of the mitochondrial degradosome along with the RNase Dss1p; the degradosome associates with the ribosome and mediates RNA turnover; also required during splicing of the COX1 AI5_beta intron	mitochondrial DNA replication|mitochondrial RNA catabolic process|Group I intron splicing	exoribonuclease II activity|ATP-dependent RNA helicase activity	mitochondrion|mitochondrial chromosome|mitochondrial degradosome
YGL112C	TAF6	het	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RNA POL II, HOLOENZYME|HISTONE ACETYLTRANSFERASE	0.0408434535951537	0.0181780952457981	760	Subunit (60 kDa) of TFIID and SAGA complexes, involved in transcription initiation of RNA polymerase II and in chromatin modification, similar to histone H4	histone acetylation|RNA polymerase II transcriptional preinitiation complex assembly|chromatin modification|transcription from RNA polymerase II promoter	chromatin binding|RNA polymerase II activating transcription factor binding|protein complex scaffold|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	SLIK (SAGA-like) complex|SAGA complex|transcription factor TFIID complex
YBR292C_d	YBR292C	hom			0.0408314689385163	0.0182121354580511	761	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YBR292C is not an essential gene	Unknown	Unknown	Unknown
YDR100W	TVP15	hom	FT	VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.04068717658881	0.0186263712342421	762	Integral membrane protein localized to late Golgi vesicles along with the v-SNARE Tlg2p	vesicle-mediated transport	molecular_function	COPI-coated vesicle|integral to membrane|integral to Golgi membrane
YPR116W	RRG8	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0406802111833183	0.0186996004895784	763	Putative protein of unknown function, required for mitochondrial genome maintenance; null mutation results in a decrease in plasma membrane electron transport	mitochondrial genome maintenance	molecular_function	mitochondrion
YGR179C	OKP1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0406522824607979	0.0187277743367057	764	Outer kinetochore protein required for accurate chromosome segregation; component of COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) a kinetochore sub-complex which functions as a platform for kinetochore assembly; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-Q and fission yeast fta7	attachment of spindle microtubules to kinetochore|chromosome segregation	molecular_function	COMA complex|condensed nuclear chromosome kinetochore
YJR006W	POL31	het	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0406175421261914	0.0188292096992739	765	Subunit of DNA polymerase delta (polymerase III); essential for cell viability; involved in DNA replication and DNA repair	mismatch repair|RNA-dependent DNA replication|lagging strand elongation|base-excision repair|postreplication repair|DNA replication, removal of RNA primer|leading strand elongation|nucleotide-excision repair	single-stranded DNA specific 3'-5' exodeoxyribonuclease activity|DNA-directed DNA polymerase activity	delta DNA polymerase complex
YOR093C_p	YOR093C	hom	FT	NUCLEUS	0.0405727198091079	0.0189786626422185	766	Putative protein of unknown function; deletion causes sensitivity to unfolded protein response-inducing agents	biological_process	molecular_function	integral to membrane
YPL270W	MDL2	hom	FT	NUCLEOTIDE METABOLISM|MITOCHONDRION	0.0404905973678842	0.0192039603683179	767	Mitochondrial inner membrane half-type ATP-binding cassette (ABC) transporter, required for respiratory growth at high temperature; similar to human TAP1 and TAP2 implicated in bare lymphocyte syndrome and Wegener-like granulomatosis	oligopeptide transport|oligopeptide export from mitochondrion	oligopeptide-transporting ATPase activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YDL004W	ATP16	het	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.040454872661862	0.0193105904830248	768	Delta subunit of the central stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated	ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|ATPase activity|proton-transporting ATPase activity, rotational mechanism	proton-transporting ATP synthase complex, catalytic core F(1)|mitochondrion|integral to membrane|mitochondrial proton-transporting ATP synthase, central stalk
YIR002C	MPH1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.0404212003486409	0.0195026099349206	769	3'-5' DNA helicase involved in error-free bypass of DNA lesions; binds to flap DNA in an error-free bypass pathway and stimulates the activity of Rad27p and Dna2p; also involved in interstrand cross-link repair mutations confer a mutator phenotype; similarity to FANCM, a human Fanconi anemia complementation group protein that along with the MHF complex is involved in stabilizing and remodeling blocked replication forks; member of the SF2 DExD/H superfamily of helicases	negative regulation of strand invasion|recombinational repair|DNA replication, Okazaki fragment processing	flap-structured DNA binding|3'-5' DNA helicase activity	nucleus
YBR106W	PHO88	hom	FF|FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0403263391730907	0.0196985230172962	770	Probable membrane protein, involved in phosphate transport; pho88 pho86 double null mutant exhibits enhanced synthesis of repressible acid phosphatase at high inorganic phosphate concentrations	phosphate ion transport	molecular_function	mitochondrion|membrane
YER154W	OXA1	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0403034891130201	0.0198234805918077	771	Mitochondrial inner membrane insertase, mediates the insertion of both mitochondrial- and nuclear-encoded proteins from the matrix into the inner membrane, interacts with mitochondrial ribosomes; conserved from bacteria to animals	protein insertion into mitochondrial membrane from inner side|mitochondrial genome maintenance|mitochondrial proton-transporting ATP synthase complex assembly	mitochondrial ribosome binding|membrane insertase activity	mitochondrion|mitochondrial inner boundary membrane|integral to membrane|mitochondrial crista|mitochondrial large ribosomal subunit
YGR229C	SMI1	hom	FF|FT	CELL CYCLE|CELL WALL ORG/BIOGENESIS|NUCLEUS|SITE OF POLARIZED GROWTH	0.0402983378539958	0.019783931840718	772	Protein involved in the regulation of cell wall synthesis; proposed to be involved in coordinating cell cycle progression with cell wall integrity	regulation of mitotic cell cycle|regulation of fungal-type cell wall biogenesis	molecular_function	incipient cellular bud site|cellular bud neck|mating projection tip
YER019W	ISC1	hom	FT	LIPID METABOLISM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0402595977241801	0.0199211284258147	773	Mitochondrial membrane localized inositol phosphosphingolipid phospholipase C, hydrolyzes complex sphingolipids to produce ceramide; activated by phosphatidylserine, cardiolipin, and phosphatidylglycerol; mediates Na+ and Li+ halotolerance	response to salt stress|ceramide biosynthetic process|sphingolipid catabolic process	inositol phosphosphingolipid phospholipase activity	mitochondrion|endoplasmic reticulum|integral to mitochondrial outer membrane
YDL102W	POL3	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0402185396527548	0.0200291054012013	774	Catalytic subunit of DNA polymerase delta; required for chromosomal DNA replication during mitosis and meiosis, intragenic recombination, repair of double strand DNA breaks, and DNA replication during nucleotide excision repair (NER)	lagging strand elongation|RNA-dependent DNA replication|base-excision repair|postreplication repair|DNA replication, removal of RNA primer|nucleotide-excision repair|mismatch repair|maintenance of fidelity involved in DNA-dependent DNA replication|DNA replication|leading strand elongation	single-stranded DNA specific 3'-5' exodeoxyribonuclease activity|DNA-directed DNA polymerase activity	delta DNA polymerase complex|replication fork
YOR025W	HST3	hom	FT	KETONE METABOLISM|LIPID METABOLISM|CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS	0.0401745595964815	0.0201653603598926	775	Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst4p in telomeric silencing, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism	short-chain fatty acid metabolic process|histone deacetylation|chromatin silencing at telomere	histone deacetylase activity|DNA binding	nucleus
YEL061C	CIN8	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|MITOCHONDRION|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0400848262777285	0.0204458734558022	776	Kinesin motor protein involved in mitotic spindle assembly and chromosome segregation	mitotic anaphase B|microtubule depolymerization|spindle pole body separation|mitotic spindle organization in nucleus|mitotic sister chromatid segregation	plus-end-directed microtubule motor activity|minus-end-directed microtubule motor activity	spindle microtubule|kinesin complex|mitochondrion|condensed nuclear chromosome kinetochore|kinetochore microtubule|astral microtubule
YMR276W	DSK2	hom	FT	CELL CYCLE|PROTEOLYSIS|CYTOSKELETON ORGANIZATION|NUCLEUS	0.0400660043391685	0.0205051419866394	777	Nuclear-enriched ubiquitin-like polyubiquitin-binding protein; required for spindle pole body (SPB) duplication and for transit through the G2/M phase of the cell cycle; involved in proteolysis; interacts with the proteasome; protein abundance increases in response to DNA replication stress	ER-associated protein catabolic process|spindle pole body duplication associated with nuclear envelope	protein binding, bridging	nucleus
YPL034W_p	YPL034W	hom			0.0399353391533697	0.0209207385511287	778	Putative protein of unknown function; YPL034W is not essential gene	biological_process	molecular_function	cellular_component
YGL063W	PUS2	hom	FT	RNA PROCESSING|MITOCHONDRION	0.0398986977934135	0.0210385902827763	779	Mitochondrial tRNA:pseudouridine synthase; acts at positions 27 and 28, but not at position 72; efficiently and rapidly targeted to mitochondria, specifically dedicated to mitochondrial tRNA modification	tRNA pseudouridine synthesis	pseudouridine synthase activity	mitochondrion
YLR052W	IES3	hom	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0398881523455973	0.0211111634631992	780	Subunit of the INO80 chromatin remodeling complex	nucleosome mobilization|telomere maintenance|chromatin silencing at telomere	molecular_function	nucleus|Ino80 complex
YAL012W	CYS3	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0398819147671764	0.0213058279130337	781	Cystathionine gamma-lyase, catalyzes one of the two reactions involved in the transsulfuration pathway that yields cysteine from homocysteine with the intermediary formation of cystathionine; protein abundance increases in response to DNA replication stress	sulfur amino acid metabolic process|cysteine biosynthetic process|cysteine biosynthetic process via cystathionine|transsulfuration|cysteine metabolic process	cystathionine gamma-lyase activity	cytoplasm
YDR080W	VPS41	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|VACUOLAR PROTEIN PROCESSING	0.0398645360741805	0.0211489870133981	782	Vacuolar membrane protein that is a subunit of the homotypic vacuole fusion and vacuole protein sorting (HOPS) complex; essential for membrane docking and fusion at the Golgi-to-endosome and endosome-to-vacuole stages of protein transport	regulation of SNARE complex assembly|regulation of vacuole fusion, non-autophagic|piecemeal microautophagy of nucleus|vacuole organization|vesicle-mediated transport|protein transport|vacuole fusion, non-autophagic|vacuolar protein processing	Rab guanyl-nucleotide exchange factor activity|phosphatidylinositol binding	endosome|fungal-type vacuole membrane|HOPS complex
YDL003W	MCD1	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.0398176752520523	0.0213012424396967	783	Essential alpha-kleisin subunit of the cohesin complex; required for sister chromatid cohesion in mitosis and meiosis; apoptosis induces cleavage and translocation of a C-terminal fragment to mitochondria; expression peaks in S phase	double-strand break repair|apoptotic process|response to DNA damage stimulus|mitotic chromosome condensation|establishment of mitotic sister chromatid cohesion	chromatin binding	condensed nuclear chromosome|mitochondrion|nucleus|nuclear mitotic cohesin complex
YDR167W	TAF10	het	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RNA POL II, HOLOENZYME|HISTONE ACETYLTRANSFERASE	0.0397802247044104	0.0214236081257028	784	Subunit (145 kDa) of TFIID and SAGA complexes, involved in RNA polymerase II transcription initiation and in chromatin modification	histone acetylation|RNA polymerase II transcriptional preinitiation complex assembly|chromatin modification|transcription from RNA polymerase II promoter	chromatin binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly|protein complex scaffold	SLIK (SAGA-like) complex|SAGA complex|transcription factor TFIID complex
YAL042C-A_d	YAL042C-A	hom			0.0396969051222094	0.0216980427499456	785	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified ORF ERV46/YAL042W; YAL042C-A is a non-essential gene	Unknown	Unknown	Unknown
YMR047C	NUP116	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0396809591201621	0.0217509122972628	786	FG-nucleoporin component of central core of the nuclear pore complex (NPC); contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier; forms a stable association with Nup82p, Gle2p and two other FG-nucleoporins (Nsp1p and Nup159p)	poly(A)+ mRNA export from nucleus|mRNA export from nucleus|ribosomal large subunit export from nucleus|protein import into nucleus|nuclear pore organization|tRNA export from nucleus	nucleocytoplasmic transporter activity|structural constituent of nuclear pore	nuclear pore central transport channel|integral to membrane|nuclear pore cytoplasmic filaments|nuclear pore
YGL234W	ADE5,7	hom	FT	NUCLEOTIDE METABOLISM	0.0396408755197267	0.0218843060985471	787	Bifunctional enzyme of the 'de novo' purine nucleotide biosynthetic pathway, contains aminoimidazole ribotide synthetase and glycinamide ribotide synthetase activities	purine nucleobase metabolic process|purine nucleotide biosynthetic process|'de novo' IMP biosynthetic process	phosphoribosylamine-glycine ligase activity|phosphoribosylformylglycinamidine cyclo-ligase activity	cytoplasm
YDR407C	TRS120	het	FT	VESICLE-MEDIATED TRANSPORT|SIGNALING|NUCLEOTIDE METABOLISM|GOLGI APPARATUS	0.0396221084184052	0.0219470051069918	788	One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; involved in endoplasmic reticulum (ER) to Golgi membrane traffic	regulation of Rab GTPase activity|early endosome to Golgi transport|intra-Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	trans-Golgi network|TRAPP complex|early endosome
YGL231C	EMC4	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0395441037731301	0.0222092878090229	789	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; null mutant displays induction of the unfolded protein response; homologous to worm ZK616.6/EMC-4, fly CG11137, human TMM85	protein folding in endoplasmic reticulum	molecular_function	ER membrane protein complex|endoplasmic reticulum
YOR121C_d	YOR121C	hom			0.0394659021324069	0.0225759514495043	790	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GCY1/YOR120W	Unknown	Unknown	Unknown
YJL016W_p	YJL016W	hom			0.0394131647773967	0.0226556844501887	791	Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; conserved in closely related Saccharomyces species	biological_process	molecular_function	cytoplasm
YPL128C	TBF1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0392809078167255	0.023114465708489	792	Telobox-containing general regulatory factor; binds TTAGGG repeats within subtelomeric anti-silencing regions (STARs), blocking silent chromatin propagation; binds majority of snoRNA gene promoters, required for full snoRNA expression; caps DSB flanked by long T2AG3 repeats and blocks checkpoint activation	telomere maintenance via telomere lengthening|negative regulation of chromatin silencing|snoRNA transcription from an RNA polymerase II promoter|negative regulation of telomere maintenance via telomerase	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|chromatin insulator sequence binding|telomeric DNA binding	nuclear chromosome, telomeric region|nucleus
YMR282C	AEP2	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0392805506829624	0.0231157153939885	793	Mitochondrial protein, likely involved in translation of the mitochondrial OLI1 mRNA; exhibits genetic interaction with the OLI1 mRNA 5'-untranslated leader	mitochondrial translational initiation	molecular_function	mitochondrion
YPR034W	ARP7	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RSC COMPLEX	0.0392658100453259	0.0231673471495683	794	Component of both the SWI/SNF and RSC chromatin remodeling complexes; actin-related protein involved in transcriptional regulation	nucleosome mobilization|ATP-dependent chromatin remodeling|chromatin organization|nucleosome disassembly|transcription elongation from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	DNA translocase activity	RSC complex|SWI/SNF complex|nucleus
YOL049W	GSH2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.039257937142177	0.0232155750268216	795	Glutathione synthetase, catalyzes the ATP-dependent synthesis of glutathione (GSH) from gamma-glutamylcysteine and glycine; induced by oxidative stress and heat shock	glutathione biosynthetic process	glutathione synthase activity	intracellular
YGL171W	ROK1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|RNA LOCALIZATION|NUCLEUS	0.0391124714331822	0.023710407071877	796	RNA-dependent ATPase; involved in pre-rRNA processing at sites A0, A1, and A2, and in control of cell cycle progression; contains two upstream open reading frames (uORFs) in 5' untranslated region which regulate translation	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|snoRNA localization	RNA-dependent ATPase activity	nucleolus|90S preribosome
YIL096C_p	YIL096C	hom	FT	NUCLEUS	0.0390604604255842	0.0238970984165154	797	Putative S-adenosylmethionine-dependent methyltransferase; associates with precursors of the 60S ribosomal subunit; predicted to be involved in ribosome biogenesis	biological_process	S-adenosylmethionine-dependent methyltransferase activity	nucleolus|nucleus
YOR307C	SLY41	hom	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM	0.0389948571208893	0.0242192702957741	798	Protein involved in ER-to-Golgi transport	ER to Golgi vesicle-mediated transport	molecular_function	integral to membrane|endoplasmic reticulum
YBR002C	RER2	het	FF|FT	VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0388864229933681	0.0246384471746019	799	Cis-prenyltransferase involved in dolichol synthesis; participates in endoplasmic reticulum (ER) protein sorting	dolichol biosynthetic process|protein glycosylation|ER to Golgi vesicle-mediated transport	dehydrodolichyl diphosphate synthase activity|prenyltransferase activity	endoplasmic reticulum
YLR185W	RPL37A	hom	FT	TRANSLATION|RIBOSOME	0.0388002858672735	0.0248502356925238	800	Ribosomal 60S subunit protein L37A; homologous to mammalian ribosomal protein L37, no bacterial homolog; RPL37A has a paralog, RPL37B, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YCR093W	CDC39	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|RNA PROCESSING|NUCLEUS	0.0387905776720679	0.0251037770945584	801	Component of the CCR4-NOT complex, which has multiple roles in regulating mRNA levels including regulation of transcription and destabilizing mRNAs by deadenylation; basal transcription factor	response to pheromone involved in conjugation with cellular fusion|regulation of cell cycle|regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay|pseudohyphal growth|negative regulation of transcription from RNA polymerase II promoter|nuclear-transcribed mRNA poly(A) tail shortening|transcription elongation from RNA polymerase II promoter	molecular_function	CCR4-NOT core complex|nucleus|cytoplasm
YKL053C-A	MDM35	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|NUCLEUS|MITOCHONDRION	0.038788246804628	0.0248951258185466	802	Mitochondrial intermembrane space protein; mutation affects mitochondrial distribution and morphology; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress	mitochondrion organization|mitochondrial respiratory chain complex assembly	molecular_function	nucleus|cytoplasm|mitochondrial intermembrane space
YKL143W	LTV1	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0386596213957693	0.0253791299329395	803	Component of the GSE complex, which is required for proper sorting of amino acid permease Gap1p; required for ribosomal small subunit export from nucleus; required for growth at low temperature	ribosomal small subunit biogenesis|cellular response to oxidative stress|response to osmotic stress|ribosomal small subunit export from nucleus	molecular_function	preribosome, small subunit precursor|EGO complex|nucleus|late endosome membrane|cytoplasm
YGL100W	SEH1	hom	FF|FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|PLASMA MEMBRANE|NUCLEAR PORE	0.0386525821652806	0.0254717862385376	804	Component of two distinct complexes; subunit of the Nup84 nuclear pore sub-complex (NPC) and the Seh1-associated (SEA) complex; the the NUP84 subcomplex contributes to nucleocytoplasmic transport and NPC biogenesis; the SEA complex is a coatamer-related complex that associates dynamically with the vacuole; homologous to human SEH1	nucleocytoplasmic transport	structural constituent of nuclear pore	fungal-type vacuole membrane|integral to membrane|nuclear pore|Seh1-associated complex|nuclear pore outer ring
YKL101W	HSL1	hom	FT	CELL CYCLE|CELL DIVISION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0386328869205676	0.0254807444131925	805	Nim1p-related protein kinase that regulates the morphogenesis and septin checkpoints; associates with the assembled septin filament; required along with Hsl7p for bud neck recruitment, phosphorylation, and degradation of Swe1p	G2/M transition of mitotic cell cycle|regulation of cell cycle|cell shape checkpoint|protein autophosphorylation|protein phosphorylation|septin checkpoint	protein kinase activity	cellular bud neck|septin ring
YFL045C	SEC53	het	FT	PROTEIN LOCALIZATION|CARBOHYDRATE METABOLISM	0.0385433132753273	0.0260691507122833	806	Phosphomannomutase, involved in synthesis of GDP-mannose and dolichol-phosphate-mannose; required for folding and glycosylation of secretory proteins in the ER lumen	protein targeting to ER	phosphomannomutase activity	cytosol
YHR011W	DIA4	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0384174676898174	0.0264251271591588	807	Probable mitochondrial seryl-tRNA synthetase, mutant displays increased invasive and pseudohyphal growth	pseudohyphal growth|invasive growth in response to glucose limitation|mitochondrial seryl-tRNA aminoacylation	serine-tRNA ligase activity	mitochondrion|cytoplasm
YLL027W	ISA1	hom	FT	KETONE METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.0383987880251049	0.0264307547694922	808	Protein required for maturation of mitochondrial [4Fe-4S] proteins; functions in a complex with Isa2p and possibly Iba57p; isa1 deletion causes loss of mitochondrial DNA and respiratory deficiency; depletion reduces growth on nonfermentable carbon sources; functional ortholog of bacterial A-type ISC proteins	biotin biosynthetic process|iron-sulfur cluster assembly	iron-sulfur cluster binding|iron ion binding	mitochondrial matrix
YIL160C	POT1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0383943267691088	0.0264031662150148	809	3-ketoacyl-CoA thiolase with broad chain length specificity, cleaves 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA during beta-oxidation of fatty acids	fatty acid beta-oxidation	mRNA binding|acetyl-CoA C-acyltransferase activity	peroxisomal matrix|peroxisome
YMR200W	ROT1	het	FT	CELL CYCLE|SIGNALING|CELL WALL ORG/BIOGENESIS|CELL DIVISION|CARBOHYDRATE METABOLISM|CYTOSKELETON ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0383713355430787	0.0264935695688276	810	Molecular chaperone involved in protein folding in the ER; mutation causes defects in cell wall synthesis and in lysis of autophagic bodies, suppresses tor2 mutations, and is synthetically lethal with kar2-1 and with rot2 mutations; involved in N-linked glycosylation and O-mannosylation	budding cell apical bud growth|cell cycle cytokinesis|establishment or maintenance of actin cytoskeleton polarity|protein O-linked mannosylation|endoplasmic reticulum unfolded protein response|protein folding|fungal-type cell wall biogenesis|'de novo' protein folding|protein N-linked glycosylation	unfolded protein binding	endoplasmic reticulum|endoplasmic reticulum membrane
YDR005C	MAF1	hom	FT	NUCLEUS	0.0383590857212826	0.026541845910597	811	Highly conserved negative regulator of RNA polymerase III; binds to the N-terminal domain of the Rpc160p subunit of Pol III to prevent closed-complex formation; localization and activity are regulated by phosphorylation, mediated by TORC1, protein kinase A, and Sch9p; localizes to cytoplasm during vegetative growth and translocates to the nucleus and nucleolus under stress conditions	negative regulation of transcription from RNA polymerase III promoter	RNA polymerase III core binding	nucleolus|nucleus|cytoplasm
YHL036W	MUP3	hom			0.0383544929500313	0.0266733774888485	812	Low affinity methionine permease, similar to Mup1p	amino acid transport	L-methionine transmembrane transporter activity	integral to membrane|membrane
YJL053W	PEP8	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM	0.0383209181956939	0.0266927508221942	813	Vacuolar protein component of the retromer; forms part of the multimeric membrane-associated retromer complex involved in vacuolar protein sorting along with Vps35p, Vps29p, Vps17p, and Vps5p; essential for endosome-to-Golgi retrograde protein transport; interacts with Ypt7p; protein abundance increases in response to DNA replication stress	protein retention in Golgi apparatus|retrograde transport, endosome to Golgi	protein transporter activity	endosome|retromer complex, inner shell|retromer complex
YFR037C	RSC8	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|RSC COMPLEX	0.0382546072698584	0.0269566892755284	814	Component of the RSC chromatin remodeling complex; essential for viability and mitotic growth; homolog of SWI/SNF subunit Swi3p, but unlike Swi3p, does not activate transcription of reporters	ATP-dependent chromatin remodeling|double-strand break repair via nonhomologous end joining|nucleosome disassembly|regulation of transcription, DNA-dependent|transcription elongation from RNA polymerase II promoter|G1/S transition of mitotic cell cycle	DNA translocase activity|DNA binding	RSC complex|nucleus
YBR042C	CST26	hom	FT	LIPID METABOLISM	0.0382175031246855	0.0271053558371403	815	Putative transferase involved in phospholipid biosynthesis; required for incorporation of stearic acid into phosphatidylinositol; affects chromosome stability when overexpressed; CST26 has a paralog, YDR018C, that arose from the whole genome duplication	phospholipid biosynthetic process	transferase activity, transferring acyl groups	lipid particle
YPL047W	SGF11	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0381661863969453	0.0273121338361945	816	Integral subunit of SAGA histone acetyltransferase complex, regulates transcription of a subset of SAGA-regulated genes, required for the Ubp8p association with SAGA and for H2B deubiquitylation	histone deubiquitination|regulation of transcription from RNA polymerase II promoter	enzyme activator activity	DUBm complex|nucleus|SAGA complex
YDR494W	RSM28	hom	FT	TRANSLATION|MITOCHONDRION|RIBOSOME	0.038097102082513	0.0275926530409637	817	Mitochondrial ribosomal protein of the small subunit; genetic interactions suggest a possible role in promoting translation initiation	cytoplasmic translation|translational initiation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YIL011W	TIR3	hom			0.0380469124819683	0.0278681488283944	818	Cell wall mannoprotein of the Srp1p/Tip1p family of serine-alanine-rich proteins; expressed under anaerobic conditions and required for anaerobic growth	biological_process	molecular_function	fungal-type cell wall
YDR276C	PMP3	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0378995405428542	0.0287184538127129	819	Small plasma membrane protein related to a family of plant polypeptides that are overexpressed under high salt concentration or low temperature, not essential for viability, deletion causes hyperpolarization of the plasma membrane potential	regulation of membrane potential|cation transport	molecular_function	plasma membrane
YOR157C	PUP1	het	FF|FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0378443670851548	0.0288795103168566	820	Beta 2 subunit of the 20S proteasome; endopeptidase with trypsin-like activity that cleaves after basic residues; synthesized as a proprotein before being proteolytically processed for assembly into 20S particle; human homolog is subunit Z	proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	endopeptidase activity	proteasome storage granule|nucleus|endoplasmic reticulum membrane|proteasome core complex, beta-subunit complex
YDR314C	RAD34	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.0378262812948509	0.0287164140822134	821	Protein involved in nucleotide excision repair (NER); homologous to RAD4	nucleotide-excision repair	molecular_function	nucleus
YKR030W	GMH1	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0378022376083964	0.0288180601236493	822	Golgi membrane protein of unknown function, interacts with Gea1p and Gea2p; required for localization of Gea2p; computational analysis suggests a possible role in either cell wall synthesis or protein-vacuolar targeting	transport	molecular_function	integral to membrane|integral to Golgi membrane
YDR003W-A_p	YDR003W-A	hom			0.0377705507354203	0.0289524909789972	823	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YKL027W	YKL027W	hom	FT	MITOCHONDRION	0.0377025070814344	0.0292671712525942	824	Protein of unknown function, localized to the mitochondrial outer membrane	biological_process	molecular_function	mitochondrial outer membrane|mitochondrion
YGR146C	ECL1	hom			0.037700372109622	0.0292521443017902	825	Protein of unknown function; mitochondrial-dependent role in the extension of chronological lifespan; overexpression increases oxygen consumption and respiratory activity while deletion results in reduced oxygen consumption under conditions of caloric restriction; induced by iron homeostasis transcription factor Aft2p; multicopy suppressor of temperature sensitive hsf1 mutant; induced by treatment with 8-methoxypsoralen and UVA irradiation	biological_process	molecular_function	cellular_component
YDL186W_p	YDL186W	hom			0.0376695792010042	0.029554735376623	826	Putative protein of unknown function; YDL186W is not an essential gene	biological_process	molecular_function	cellular_component
YNL110C	NOP15	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA PROCESSING|RIBOSOME BIOGENESIS|CELL DIVISION|CYTOSKELETON ORGANIZATION|NUCLEUS	0.0376526556530188	0.0295547423257162	827	Constituent of 66S pre-ribosomal particles, involved in 60S ribosomal subunit biogenesis; localizes to both nucleolus and cytoplasm	cytokinesis, actomyosin contractile ring assembly|ribosomal large subunit biogenesis	molecular_function	nucleolus|nucleus|preribosome, large subunit precursor
YJL148W	RPA34	hom	FT	NUCLEUS	0.0376475088244635	0.029479621260202	828	RNA polymerase I subunit A34.5	transcription elongation from RNA polymerase I promoter|transcription of nuclear large rRNA transcript from RNA polymerase I promoter	molecular_function	DNA-directed RNA polymerase I complex|nucleolus|nucleus
YJR102C	VPS25	hom	FF|FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|PROTEOLYSIS|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS	0.0375973041789169	0.02977043616868	829	Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome	negative regulation of transcription from RNA polymerase II promoter by glucose|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|protein targeting to vacuole	structural molecule activity	ESCRT II complex
YDR211W	GCD6	het	FT	TRANSLATION	0.0375813415099365	0.0297664888894257	830	Catalytic epsilon subunit of the translation initiation factor eIF2B; eIF2B is the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression; forms cytoplasmic foci upon DNA replication stress	regulation of translational initiation	guanyl-nucleotide exchange factor activity|translation initiation factor activity	eukaryotic translation initiation factor 2B complex|guanyl-nucleotide exchange factor complex
YGR115C_d	YGR115C	het	FF		0.037572060503132	0.0298804735099839	831	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified and essential ORF SPT6/YGR115C	Unknown	Unknown	Unknown
YLR111W_d	YLR111W	hom	FF		0.0375351133106251	0.0299683314631198	832	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YNR004W_p	SWM2	hom	FT	NUCLEUS	0.0373997929273259	0.0305659430138122	833	Putative protein of unknown function; haploid disruptant exhibits cold-sensitive growth and elongated buds	biological_process	molecular_function	nucleolus
YMR187C_p	YMR187C	hom			0.0373453120511697	0.0308094182415125	834	Putative protein of unknown function; YMR187C is not an essential gene	biological_process	molecular_function	integral to membrane
YGL016W	KAP122	hom	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0373124018684307	0.0309572988577339	835	Karyopherin beta, responsible for import of the Toa1p-Toa2p complex into the nucleus; binds to nucleoporins Nup1p and Nup2p; may play a role in regulation of pleiotropic drug resistance	protein import into nucleus|regulation of cell size	protein transporter activity	integral to membrane|nuclear pore|cytoplasm
YIL110W	HPM1	hom	FT	NUCLEUS	0.0373097391966746	0.0309944291146368	836	AdoMet-dependent methyltransferase involved in a novel 3-methylhistidine modification of ribosomal protein Rpl3p; seven beta-strand MTase family member; null mutant exhibits a weak vacuolar protein sorting defect and caspofungin resistance	peptidyl-histidine methylation, to form tele-methylhistidine	S-adenosylmethionine-dependent methyltransferase activity|protein-histidine N-methyltransferase activity	nucleus|cytoplasm
YKL035W	UGP1	het	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0372923719749599	0.0310476002013989	837	UDP-glucose pyrophosphorylase (UGPase); catalyses the reversible formation of UDP-Glc from glucose 1-phosphate and UTP, involved in a wide variety of metabolic pathways, expression modulated by Pho85p through Pho4p; UGP1 has a paralog, YHL012W, that arose from the whole genome duplication	(1->6)-beta-D-glucan biosynthetic process|UDP-glucose metabolic process|trehalose biosynthetic process|glycogen biosynthetic process	UTP:glucose-1-phosphate uridylyltransferase activity	plasma membrane|cytoplasm
YOL084W	PHM7	hom	FT	PLASMA MEMBRANE	0.037273665205044	0.0311321404556001	838	Protein of unknown function; expression is regulated by phosphate levels; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	integral to membrane|fungal-type vacuole
YLR015W	BRE2	hom	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0372412890299121	0.0312789225856875	839	Subunit of COMPASS (Set1C) complex, which methylates Lys4 of histone H3 and functions in silencing at telomeres; has a C-terminal Sdc1 Dpy-30 Interaction (SDI) domain that mediates binding to Sdc1p; similar to trithorax-group protein ASH2L	histone H3-K4 methylation|telomere maintenance|histone H3-K4 trimethylation|chromatin silencing at telomere	histone methyltransferase activity (H3-K4 specific)	Set1C/COMPASS complex
YIL064W	SEE1	hom	FT	VESICLE-MEDIATED TRANSPORT	0.037142508482053	0.0317304320617924	840	Probable lysine methyltransferase involved in the dimethylation of eEF1A (Tef1p/Tef2p); sequence similarity to S-adenosylmethionine-dependent methyltransferases of the seven beta-strand family; role in vesicular transport	vesicle-mediated transport|peptidyl-lysine dimethylation	protein-lysine N-methyltransferase activity	cytoplasm
YMR194C-B	CMC4	hom	FT	MITOCHONDRION	0.0370676621269551	0.0320762516803421	841	Protein that localizes to the mitochondrial intermembrane space via the Mia40p-Erv1p system; contains twin cysteine-x(9)-cysteine motifs	biological_process	molecular_function	mitochondrial intermembrane space
YIL073C	SPO22	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME	0.0369849346492191	0.0326704170350635	842	Meiosis-specific protein essential for chromosome synapsis, involved in completion of nuclear divisions during meiosis; induced early in meiosis	regulation of synaptonemal complex assembly	molecular_function	condensed nuclear chromosome
YDR378C	LSM6	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0369341529108384	0.0330154629767519	843	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA	nuclear-transcribed mRNA catabolic process|mRNA splicing, via spliceosome|maturation of SSU-rRNA	RNA binding	U6 snRNP|nucleolus|small nucleolar ribonucleoprotein complex|U4/U6 x U5 tri-snRNP complex|cytoplasmic mRNA processing body
YAL042W	ERV46	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0368055474033129	0.0333128932807588	844	Protein localized to COPII-coated vesicles, forms a complex with Erv41p; involved in the membrane fusion stage of transport	ER to Golgi vesicle-mediated transport	molecular_function	integral to endoplasmic reticulum membrane|integral to Golgi membrane|ER to Golgi transport vesicle
YCR107W	AAD3	hom	FT	OXIDATION-REDUCTION PROCESS	0.0367422891667883	0.0336173773953873	845	Putative aryl-alcohol dehydrogenase; similar to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role	cellular aldehyde metabolic process	aryl-alcohol dehydrogenase (NAD+) activity	cellular_component
YER092W	IES5	hom	FT	NUCLEUS	0.036665648452671	0.0339894607490817	846	Protein that associates with the INO80 chromatin remodeling complex under low-salt conditions	biological_process	molecular_function	nucleus
YDR207C	UME6	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO NUTRIENT LEVELS|NUCLEUS|CHROMOSOME	0.0366652073518214	0.0340719451000615	847	Key transcriptional regulator of early meiotic genes, binds URS1 upstream regulatory sequence, couples metabolic responses to nutritional cues with initiation and progression of meiosis, forms complex with Ime1p, and also with Sin3p-Rpd3p	spore germination|positive regulation of transcription from RNA polymerase II promoter during meiosis|negative regulation of transcription from RNA polymerase II promoter during meiosis|lipid particle organization|nitrogen catabolite repression of transcription from RNA polymerase II promoter|pseudohyphal growth|negative regulation of transcription from RNA polymerase II promoter during mitosis|Unknown	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|repressing transcription factor binding|transcription factor binding transcription factor activity	Rpd3L-Expanded complex|Rpd3L complex
YBR162W-A	YSY6	hom	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0366531549278814	0.0340504479930934	848	Protein whose expression suppresses a secretory pathway mutation in E. coli; has similarity to the mammalian RAMP4 protein involved in secretion	protein secretion	molecular_function	endoplasmic reticulum
YOR014W	RTS1	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|SIGNALING|CHROMOSOME SEGREGATION|NUCLEUS|SITE OF POLARIZED GROWTH|CHROMOSOME|CYTOSKELETON	0.0366199306053182	0.0342399591385603	849	B-type regulatory subunit of protein phosphatase 2A (PP2A); Rts1p and Cdc55p are alternative regulatory subunits for PP2A catalytic subunits, Pph21p and Pph22p; PP2A-Rts1p protects cohesin when recruited by Sgo1p to the pericentromere; highly enriched at centromeres in the absence of Cdc55p; required for maintenance of septin ring organization during cytokinesis, for ring disassembly in G1 and for dephosphorylation of septin, Shs1p; homolog of the mammalian B' subunit of PP2A	mitotic cell cycle spindle orientation checkpoint|cellular protein localization|meiotic sister chromatid cohesion, centromeric|protein dephosphorylation	protein serine/threonine phosphatase activity	nucleus|spindle pole body|condensed nuclear chromosome, centromeric region|cellular bud neck|cytoplasm
YJR044C	VPS55	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT	0.0366147007751412	0.0343194693903027	850	Late endosomal protein involved in late endosome to vacuole trafficking; functional homolog of human obesity receptor gene-related protein (OB-RGRP)	late endosome to vacuole transport via multivesicular body sorting pathway	molecular_function	Vps55/Vps68 complex|late endosome|integral to membrane
YER134C	YER134C	hom	FT	NUCLEUS	0.0365340187020806	0.0346367240346954	851	Magnesium-dependent acid phosphatase, member of the haloacid dehalogenase superfamily; non-essential gene	biological_process	acid phosphatase activity	nucleus|cytoplasm
YDR510W	SMT3	het	FT	NUCLEUS|CHROMOSOME|CYTOSKELETON	0.0364870309653974	0.0348703118466953	852	Ubiquitin-like protein of the SUMO family, conjugated to lysine residues of target proteins; regulates chromatid cohesion, chromosome segregation, APC-mediated proteolysis, DNA replication and septin ring dynamics; phosphorylated at Ser2	protein sumoylation	protein tag	condensed nuclear chromosome|nucleus|septin ring
YNL151C	RPC31	het	FT	NUCLEUS	0.0364742519135687	0.0350978769628583	853	RNA polymerase III subunit C31	transcription initiation from RNA polymerase III promoter|tRNA transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex
YDR426C_d	YDR426C	hom			0.036464840839344	0.0349810911093338	854	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SNX41	Unknown	Unknown	Unknown
YJL013C	MAD3	hom	FT	CELL CYCLE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS	0.036440796301864	0.0351014670025789	855	Subunit of the spindle-assembly checkpoint complex, which delays anaphase onset in cells with defects in mitotic spindle assembly; pseudosubstrate inhibitor of APC(Cdc20), the anaphase promoting complex involved in securin (Pds1p) turnover	distributive segregation|mitotic cell cycle spindle assembly checkpoint|mitotic cell cycle G2/M transition decatenation checkpoint	molecular_function	mitotic checkpoint complex
YEL059W_d	HHY1	hom			0.036435391761474	0.0351285727387326	856	Dubious open reading frame unlikely to encode a functional protein; mutant is hypersensitive to hygromycin B indicative of defects in vacuolar trafficking	Unknown	Unknown	Unknown
YER083C	GET2	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0363450067684936	0.0355845399688362	857	Subunit of the GET complex; involved in insertion of proteins into the ER membrane; required for the retrieval of HDEL proteins from the Golgi to the ER in an ERD2 dependent fashion and for meiotic nuclear division	retrograde vesicle-mediated transport, Golgi to ER|protein insertion into ER membrane	protein anchor	integral to membrane|endoplasmic reticulum|GET complex
YAL016C-B_d	YAL016C-B	hom			0.0362921553491825	0.0358534918124402	858	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YCL014W	BUD3	hom	FT	CELL CYCLE|SIGNALING|CELL DIVISION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0362619701053712	0.0360078753753752	859	Protein involved in bud-site selection and required for axial budding pattern; localizes with septins to bud neck in mitosis and may constitute an axial landmark for next round of budding	cellular bud site selection|axial cellular bud site selection|cytokinesis	molecular_function	cellular bud neck contractile ring|cellular bud neck
YOR104W	PIN2	hom			0.0362555122376311	0.0360409778508087	860	Protein that induces appearance of [PIN+] prion when overproduced; predicted to be palmitoylated	biological_process	molecular_function	cellular_component
YDR437W	GPI19	het	FT	LIPID METABOLISM|CELL WALL ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0362082617707674	0.0362839696433696	861	Subunit of GPI-GlcNAc transferase involved in synthesis of N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI), which is the first intermediate in glycosylphosphatidylinositol (GPI) anchor synthesis, shares similarity with mammalian PIG-P	GPI anchor biosynthetic process	UDP-glycosyltransferase activity	glycosylphosphatidylinositol-N-acetylglucosaminyltransferase (GPI-GnT) complex|nuclear envelope|integral to endoplasmic reticulum membrane|endoplasmic reticulum
YLR352W_p	YLR352W	hom			0.0360435164428234	0.0372557459999283	862	Putative protein of unknown function with similarity to F-box proteins; interacts with Skp1p and Cdc53p; YLR352W is not an essential gene	biological_process	molecular_function	SCF ubiquitin ligase complex
YGR206W	MVB12	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|VACUOLAR TRANSPORT	0.0359779654411009	0.0374883724387833	863	ESCRT-I subunit required to stabilize oligomers of the ESCRT-I core complex (Stp22p, Vps28p, Srn2p), which is involved in ubiquitin-dependent sorting of proteins into the endosome; deletion mutant is sensitive to rapamycin and nystatin	negative regulation of protein complex assembly|protein targeting to vacuole|endosome transport via multivesicular body sorting pathway	ubiquitin binding	cytosol|endosome|ESCRT I complex
YBR088C	POL30	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0359648911659192	0.0375577565368408	864	Proliferating cell nuclear antigen (PCNA), functions as the sliding clamp for DNA polymerase delta; may function as a docking site for other proteins required for mitotic and meiotic chromosomal DNA replication and for DNA repair	lagging strand elongation|postreplication repair|base-excision repair|nucleotide-excision repair|mismatch repair|meiotic mismatch repair|leading strand elongation|chromatin silencing at telomere|mitotic sister chromatid cohesion|chromatin silencing at silent mating-type cassette	DNA polymerase processivity factor activity	PCNA complex|nucleus|replication fork
YMR097C	MTG1	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0358824262605756	0.038199945875231	865	Putative GTPase peripheral to the mitochondrial inner membrane, essential for respiratory competence, likely functions in assembly of the large ribosomal subunit, has homologs in plants and animals	mitochondrial translation	GTPase activity	mitochondrion|mitochondrial inner membrane
YDL021W	GPM2	hom	FT	CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0358727305243813	0.038049950751337	866	Homolog of Gpm1p phosphoglycerate mutase, which converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional derivative of a gene duplication event	biological_process	phosphoglycerate mutase activity|molecular_function	cytosol|cytoplasm
YDR329C	PEX3	hom	FT	PROTEIN LOCALIZATION|PEROXISOME ORGANIZATION|ENDOPLASMIC RETICULUM	0.035848101984065	0.0382401983963467	867	Peroxisomal membrane protein (PMP) required for proper localization and stability of PMPs; anchors peroxisome retention factor Inp1p at the peroxisomal membrane; interacts with Pex19p	protein import into peroxisome membrane|peroxisome inheritance|ER-dependent peroxisome organization	protein binding	peroxisomal membrane|endoplasmic reticulum
YIL071C	PCI8	hom	FT	NUCLEUS	0.0358236981443081	0.0383140408356412	868	Possible shared subunit of Cop9 signalosome (CSN) and eIF3, binds eIF3b subunit Prt1p, has possible dual functions in transcriptional and translational control, contains a PCI (Proteasome-COP9 signalosome (CSN)-eIF3) domain	cullin deneddylation	molecular_function	signalosome
YCR069W	CPR4	hom			0.0357462344340947	0.0387344365750257	869	Peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; has a potential role in the secretory pathway	biological_process	peptidyl-prolyl cis-trans isomerase activity	membrane
YML127W	RSC9	het	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA PROCESSING|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|NUCLEUS|RSC COMPLEX	0.0356918963472445	0.0390316618466715	870	Component of the RSC chromatin remodeling complex; DNA-binding protein involved in the synthesis of rRNA and in transcriptional repression and activation of genes regulated by the Target of Rapamycin (TOR) pathway	G2/M transition of mitotic cell cycle|ATP-dependent chromatin remodeling|nucleosome disassembly|rRNA transcription|regulation of transcription from RNA polymerase II promoter|chromatin remodeling|transcription elongation from RNA polymerase II promoter|response to stress	chromatin binding|DNA translocase activity	RSC complex
YMR002W	MIC17	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS|MITOCHONDRION	0.0356474891469584	0.0392760016268617	871	Mitochondrial intermembrane space protein; required for normal oxygen consumption; contains twin cysteine-x9-cysteine motifs; protein abundance increases in response to DNA replication stress	aerobic respiration	molecular_function	nucleus|cytoplasm|mitochondrial intermembrane space
YBR091C	TIM12	het	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0356069035886529	0.0395004479591995	872	Essential protein of the inner mitochondrial membrane, peripherally localized; component of the TIM22 complex, which is a twin-pore translocase that mediates insertion of numerous multispanning inner membrane proteins	protein import into mitochondrial inner membrane	phospholipid binding|protein channel activity	mitochondrion|integral to membrane|mitochondrial inner membrane protein insertion complex
YEL062W	NPR2	hom	FT	SIGNALING|RESPONSE TO NUTRIENT LEVELS	0.0355055514743067	0.0401551781633337	873	Subunit of SEA (Seh1-associated), Npr2/3, and Iml1p complexes; Npr2/3 complex mediates downregulation of TORC1 activity upon amino acid limitation; SEA complex is a coatomer-related complex that associates dynamically with the vacuole; Iml1p complex (Iml1p-Npr2p-Npr3p) is required for non-nitrogen-starvation (NNS)-induced autophagy; Iml1p interacts primarily with phosphorylated Npr2p; homolog of human NPRL2; target of Grr1p; required for growth on urea and proline	proline transport|urea transport|regulation of TOR signaling cascade|cellular response to amino acid starvation|response to drug|cellular response to nitrogen starvation	molecular_function	Seh1-associated complex|extrinsic to fungal-type vacuolar membrane
YNL101W	AVT4	hom	FT	VACUOLAR TRANSPORT	0.0354205714550775	0.0405449196528356	874	Vacuolar transporter, exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters	amino acid export from vacuole	transporter activity|L-glutamine transmembrane transporter activity|L-isoleucine transmembrane transporter activity|L-tyrosine transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YLR039C	RIC1	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|NUCLEUS|GOLGI APPARATUS	0.0353507777031549	0.0409421231841996	875	Protein involved in retrograde transport to the cis-Golgi network; forms heterodimer with Rgp1p that acts as a GTP exchange factor for Ypt6p; involved in transcription of rRNA and ribosomal protein genes	intracellular protein transport|retrograde transport, endosome to Golgi	guanyl-nucleotide exchange factor activity	nucleus|Ric1p-Rgp1p complex|Golgi membrane|guanyl-nucleotide exchange factor complex
YKL044W_p	YKL044W	hom			0.0353308823832632	0.0410559513773192	876	Protein of unknown function; mRNA identified as translated by ribosome profiling data	biological_process	molecular_function	cellular_component
YBL079W	NUP170	hom	FF|FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA LOCALIZATION|CHROMOSOME SEGREGATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0352837916554924	0.0414177237970214	877	Subunit of the inner ring of the nuclear pore complex (NPC); contributes to NPC assembly and nucleocytoplasmic transport; both Nup170p and NUP157p are similar to human Nup155p; NUP170 has a paralog, NUP157, that arose from the whole genome duplication	nucleocytoplasmic transport|chromosome segregation|protein targeting to nuclear inner membrane|mitotic cell cycle spindle assembly checkpoint|nuclear pore complex assembly	structural constituent of nuclear pore	integral to membrane|nuclear pore|nuclear pore inner ring
YIL053W	RHR2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.0352082268143448	0.0417636423875312	878	Constitutively expressed glycerol-1-phosphatase; involved in glycerol biosynthesis, induced in response to both anaerobic and osmotic stress; RHR2 has a paralog, HOR2, that arose from the whole genome duplication	glycerol biosynthetic process|response to osmotic stress	glycerol-1-phosphatase activity	nucleus|cytoplasm
YPR056W	TFB4	het	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0351905707606197	0.0418663581973086	879	Subunit of TFIIH complex, involved in transcription initiation, similar to 34 kDa subunit of human TFIIH; interacts with Ssl1p	phosphorylation of RNA polymerase II C-terminal domain|nucleotide-excision repair|transcription from RNA polymerase II promoter	core RNA polymerase binding transcription factor activity	core TFIIH complex|holo TFIIH complex|nucleotide-excision repair factor 3 complex
YMR061W	RNA14	het	FT	RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.0350916666212028	0.0424457025957684	880	Component of the cleavage and polyadenylation factor I (CF I); CF 1, composed of the CF 1A complex (Rna14p, Rna15p, Clp1p, Pcf11p) and Hrp1, is involved in cleavage and polyadenylation of mRNA 3' ends; bridges interaction between Rna15p and Hrp1p in the CF I complex; mutant displays reduced transcription elongation in the G-less-based run-on (GLRO) assay; required for gene looping	mRNA cleavage|mRNA polyadenylation	RNA binding|protein heterodimerization activity	mRNA cleavage factor complex|mitochondrion|nucleus
YGL258W	VEL1	hom			0.0350791276669642	0.0425196330587736	881	Protein of unknown function; highly induced in zinc-depleted conditions and has increased expression in NAP1 deletion mutants; VEL1 has paralog YOR387C	biological_process	molecular_function	cytosol
YCL030C	HIS4	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0350487488497536	0.0426991999355852	882	Multifunctional enzyme containing phosphoribosyl-ATP pyrophosphatase, phosphoribosyl-AMP cyclohydrolase, and histidinol dehydrogenase activities; catalyzes the second, third, ninth and tenth steps in histidine biosynthesis	histidine biosynthetic process	phosphoribosyl-ATP diphosphatase activity|phosphoribosyl-AMP cyclohydrolase activity|histidinol dehydrogenase activity	intracellular
YMR181C_p	YMR181C	hom			0.0349187857809674	0.0434746543769902	883	Protein of unknown function; mRNA transcribed as part of a bicistronic transcript with a predicted transcriptional repressor RGM1/YMR182C; mRNA is destroyed by nonsense-mediated decay (NMD); not an essential gene; YMR181C has a paralog, YPL229W, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YIL020C	HIS6	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0348902654221186	0.0436464095489223	884	Phosphoribosyl-5-amino-1-phosphoribosyl-4-imidazolecarboxiamide isomerase, catalyzes the fourth step in histidine biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts	histidine biosynthetic process	1-(5-phosphoribosyl)-5-[(5-phosphoribosylamino)methylideneamino]imidazole-4-carboxamide isomerase activity	intracellular
YDR259C	YAP6	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0348572715257663	0.0439406223693855	885	Basic leucine zipper (bZIP) transcription factor; physically interacts with the Tup1-Cyc8 complex and recruits Tup1p to its targets; overexpression increases sodium and lithium tolerance; computational analysis suggests a role in regulation of expression of genes involved in carbohydrate metabolism; YAP6 has a paralog, CIN5, that arose from the whole genome duplication	negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding transcription factor recruiting transcription factor activity|sequence-specific DNA binding RNA polymerase II transcription factor activity|sequence-specific DNA binding	nucleus
YPL254W	HFI1	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0348326984988997	0.0439948342621746	886	Adaptor protein required for structural integrity of the SAGA complex, a histone acetyltransferase-coactivator complex that is involved in global regulation of gene expression through acetylation and transcription functions	histone acetylation|chromatin modification|transcription from RNA polymerase II promoter	transcription coactivator activity|transcription cofactor activity	SLIK (SAGA-like) complex|Ada2/Gcn5/Ada3 transcription activator complex|SAGA complex
YNL163C	RIA1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEOTIDE METABOLISM	0.0347385403798269	0.0446016933649587	887	Cytoplasmic GTPase/eEF2-like factor involved in ribosomal biogenesis; with Sdo1p, promotes release of Tif6p from 60S ribosomal subunits in the cytoplasm so that they can assemble with 40S subunits to generate mature ribosomes; required for quality control check of newly made large ribosomal subunits before they are released into the pool of translating ribosomes	mature ribosome assembly	GTPase activity	cytoplasm
YFL038C	YPT1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|SIGNALING|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION|GOLGI APPARATUS	0.0347122722170577	0.044731311561596	888	Rab family GTPase, involved in the ER-to-Golgi step of the secretory pathway; complex formation with the Rab escort protein Mrs6p is required for prenylation of Ypt1p by protein geranylgeranyltransferase type II (Bet2p-Bet4p)	Golgi vesicle budding|Golgi vesicle docking|early endosome to Golgi transport|macroautophagy|endocytic recycling|protein complex assembly|CVT pathway|retrograde vesicle-mediated transport, Golgi to ER|SNARE complex disassembly|ER to Golgi vesicle-mediated transport|COPII-coated vesicle budding	SNARE binding|GTPase activity	trans-Golgi network|mitochondrion|Golgi stack|endoplasmic reticulum membrane|Golgi membrane|pre-autophagosomal structure
YLR077W	FMP25	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0346431327661347	0.0451588175669431	889	Mitochondrial inner membrane protein required for an early step in assembly of respiratory complex III (cytochrome bc1 complex); mRNA is targeted to mitochondria	mitochondrial respiratory chain complex III assembly	molecular_function	mitochondrion|integral to mitochondrial inner membrane
YGL169W	SUA5	het	FT	RNA PROCESSING|TRANSLATION|NUCLEUS|CHROMOSOME	0.0346355236104688	0.0453672940169346	890	Single-stranded telomeric DNA-binding protein, required for normal telomere length; null mutant lacks N6-threonylcarbamoyl adenosine (t6A) modification in the anticodon loop of ANN-decoding tRNA; member of conserved YrdC/Sua5 family	threonylcarbamoyladenosine metabolic process|telomere maintenance|regulation of translational fidelity	single-stranded telomeric DNA binding	cytoplasm
YBR240C	THI2	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0344299242649948	0.0464988751477844	891	Transcriptional activator of thiamine biosynthetic genes; interacts with regulatory factor Thi3p to control expression of thiamine biosynthetic genes with respect to thiamine availability; acts together with Pdc2p to respond to thiaminediphosphate demand, possibly as related to carbon source availability; zinc finger protein of the Zn(II)2Cys6 type	thiamine biosynthetic process|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II activating transcription factor binding|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription	nucleus
YEL035C_p	UTR5	het			0.0343736281549843	0.047122381210459	892	Protein of unknown function; transcription may be regulated by Gcr1p; essential for growth under standard (aerobic) conditions but not under anaerobic conditions	biological_process	molecular_function	cellular_component
YDR361C	BCP1	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0343670077178472	0.0469995799471618	893	Essential protein involved in nuclear export of Mss4p, which is a lipid kinase that generates phosphatidylinositol 4,5-biphosphate and plays a role in actin cytoskeleton organization and vesicular transport	protein export from nucleus|ribosomal large subunit export from nucleus	molecular_function	nucleus|cytoplasm
YFL032W_d	YFL032W	hom			0.0343474756507949	0.047025976305132	894	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HAC1/YFL031W; YFL032W is not an essential gene	Unknown	Unknown	Unknown
YBL024W	NCL1	hom	FT	RNA PROCESSING|NUCLEUS	0.0343326397836998	0.0471213546773445	895	S-adenosyl-L-methionine-dependent tRNA: m5C-methyltransferase, methylates cytosine to m5C at several positions in tRNAs and intron-containing pre-tRNAs; increases proportion of tRNALeu(CAA) with m5C at wobble position in response to hydrogen peroxide, causing selective translation of mRNA from genes enriched in TTG codon; loss of NCL1 confers hypersensitivity to oxidative stress; similar to Nop2p and human proliferation associated nucleolar protein p120	tRNA methylation	tRNA (cytosine-5-)-methyltransferase activity	nucleus
YOR126C	IAH1	hom	FT	KETONE METABOLISM|LIPID METABOLISM	0.0340923120308907	0.0488581003476303	896	Isoamyl acetate-hydrolyzing esterase, required in balance with alcohol acetyltransferase to maintain optimal amounts of isoamyl acetate, which is particularly important in sake brewing	acetate metabolic process	hydrolase activity, acting on ester bonds	cellular_component
YLR412C-A_p	YLR412C-A	hom			0.0340918488527597	0.0486922581844456	897	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YBR058C-A	TSC3	hom	FF|FT	KETONE METABOLISM|LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0340881155679963	0.0487169557383343	898	Protein that stimulates the activity of serine palmitoyltransferase (Lcb1p, Lcb2p) several-fold; involved in sphingolipid biosynthesis	3-keto-sphinganine metabolic process|sphingolipid biosynthetic process	enzyme activator activity	SPOTS complex
YBR013C_p	YBR013C	hom			0.0340166532196978	0.049191745452769	899	Putative protein of unknown function, haploid deletion mutant exhibits synthetic phenotype with alpha-synuclein	biological_process	molecular_function	cellular_component
YDR449C	UTP6	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0339756421665695	0.0495000336162471	900	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|nucleolus|Pwp2p-containing subcomplex of 90S preribosome|90S preribosome
YER178W	PDA1	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0338732998684517	0.0501558799925601	901	E1 alpha subunit of the pyruvate dehydrogenase (PDH) complex, catalyzes the direct oxidative decarboxylation of pyruvate to acetyl-CoA; phosphorylated; regulated by glucose	acetyl-CoA biosynthetic process from pyruvate	pyruvate dehydrogenase (acetyl-transferring) activity	mitochondrial nucleoid|mitochondrion|mitochondrial pyruvate dehydrogenase complex
YBR069C	TAT1	hom	FF|FT	PLASMA MEMBRANE	0.0337877982911476	0.0512601508328897	902	Amino acid transporter for valine, leucine, isoleucine, and tyrosine; low-affinity tryptophan and histidine transporter; overexpression confers FK506 and FTY720 resistance; protein abundance increases in response to DNA replication stress	amino acid transport|tyrosine transport|tryptophan transport|transmembrane transport	amino acid transmembrane transporter activity|low-affinity tryptophan transmembrane transporter activity	integral to membrane|plasma membrane
YNL114C_d	YNL114C	het			0.0337054082730546	0.0513051282711016	903	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF RPC19/YNL113W, an RNA polymerase subunit	Unknown	Unknown	Unknown
YIL034C	CAP2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0336701879021028	0.051548993554883	904	Beta subunit of the capping protein heterodimer (Cap1p and Cap2p); capping protein (CP) binds to the barbed ends of actin filaments preventing further polymerization; localized predominantly to cortical actin patches; protein increases in abundance and relocalizes from bud neck to plasma membrane upon DNA replication stress	barbed-end actin filament capping|filamentous growth	actin filament binding	actin filament|F-actin capping protein complex|mating projection tip|actin cortical patch
YMR093W	UTP15	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|CHROMOSOME	0.03365729045478	0.0520247394512686	905	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA	positive regulation of transcription from RNA polymerase I promoter|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|rDNA heterochromatin|nucleolus|t-UTP complex|90S preribosome
YNL146W_p	YNL146W	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0335865825525135	0.0521317607040522	906	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YNL146W is not an essential gene	biological_process	molecular_function	endoplasmic reticulum
YOR201C	MRM1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|MITOCHONDRION	0.0335539024225974	0.0523610483702733	907	Ribose methyltransferase that modifies a functionally critical, conserved nucleotide in mitochondrial 21S rRNA	rRNA modification	rRNA (guanine-N1-)-methyltransferase activity	mitochondrion
YFR010W	UBP6	hom	FT	PROTEOLYSIS	0.0334405920065892	0.0531625849661486	908	Ubiquitin-specific protease situated in the base subcomplex of the 26S proteasome, releases free ubiquitin from branched polyubiquitin chains; works in opposition to Hul5p polyubiquitin elongation activity; mutant has aneuploidy tolerance	protein deubiquitination	ubiquitin-specific protease activity	proteasome complex|proteasome regulatory particle
YPL093W	NOG1	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0334321456320064	0.0532227411661489	909	Putative GTPase that associates with free 60S ribosomal subunits in the nucleolus and is required for 60S ribosomal subunit biogenesis; constituent of 66S pre-ribosomal particles; member of the ODN family of nucleolar G-proteins	ribosomal subunit export from nucleus|ribosomal large subunit biogenesis|rRNA processing	GTP binding	nucleolus|preribosome, large subunit precursor
YPL051W	ARL3	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|SIGNALING|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.033423332200681	0.0532855721781844	910	GTPase of the Ras superfamily required to recruit Arl1p to the Golgi; similar to ADP-ribosylation factor	intracellular protein transport|Golgi to plasma membrane protein transport|protein localization to organelle	GTPase activity	Golgi apparatus|nuclear outer membrane-endoplasmic reticulum membrane network
YLR180W	SAM1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|COFACTOR METABOLISM	0.0333732757782144	0.0536436005608374	911	S-adenosylmethionine synthetase; catalyzes transfer of the adenosyl group of ATP to the sulfur atom of methionine; SAM1 has a paralog, SAM2, that arose from the whole genome duplication	methionine metabolic process|S-adenosylmethionine biosynthetic process	methionine adenosyltransferase activity	cytoplasm
YOR239W	ABP140	hom	FT	RNA PROCESSING|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.03333655132913	0.053907546998058	912	AdoMet-dependent tRNA methyltransferase and actin binding protein; C-terminal domain is responsible for 3-methylcytidine modification of residue 32 of the tRNA anticodon loop of tRNA-Thr and tRNA-Ser and contains an S-adenosylmethionine (AdoMet) binding motif; N-terminal actin binding sequence interacts with actin filaments and localizes to actin patches and cables; N- and C-terminal domains are encoded in separate ORFs that are translated into one protein via a +1 frameshift	actin filament bundle assembly|tRNA methylation	tRNA (cytosine-3-)-methyltransferase activity|actin filament binding|protein binding, bridging	actin filament|actin filament bundle|mating projection tip|actin cortical patch
YKR089C	TGL4	hom	FT	LIPID METABOLISM|CELL DIVISION	0.0333281915122834	0.0539677819492192	913	Multifunctional triacylglycerol lipase, steryl ester hydrolase, and Ca2+-independent phospholipase A2; catalyzes acyl-CoA dependent acylation of LPA to PA; required with Tgl3p for timely bud formation; phosphorylated and activated by Cdc28p	phospholipid metabolic process|triglyceride catabolic process|triglyceride mobilization|cell budding	lysophosphatidic acid acyltransferase activity|triglyceride lipase activity|calcium-independent phospholipase A2 activity|sterol esterase activity	lipid particle
YDR281C	PHM6	hom			0.0332145907568743	0.0547918898715606	914	Protein of unknown function, expression is regulated by phosphate levels	biological_process	molecular_function	fungal-type vacuole
YAL043C	PTA1	het	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|NUCLEUS	0.0332099003440368	0.0548261403714169	915	Subunit of holo-CPF, a multiprotein complex and functional homolog of mammalian CPSF, required for the cleavage and polyadenylation of mRNA and snoRNA 3' ends; involved in pre-tRNA processing; binds to the phosphorylated CTD of RNAPII	tRNA processing|termination of RNA polymerase II transcription, exosome-dependent|mRNA cleavage|termination of RNA polymerase II transcription, poly(A)-coupled|mRNA polyadenylation	RNA binding	mRNA cleavage factor complex|mRNA cleavage and polyadenylation specificity factor complex
YOL097W-A_p	YOL097W-A	hom			0.0331330334645706	0.0553899877320088	916	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YDR356W	SPC110	het	FT	CYTOSKELETON ORGANIZATION|NUCLEUS|CYTOSKELETON	0.033129895453785	0.0554496329708474	917	Inner plaque spindle pole body (SPB) component, ortholog of human kendrin; involved in connecting nuclear microtubules to SPB; interacts with Tub4p-complex and calmodulin; phosphorylated by Mps1p in cell cycle-dependent manner	karyogamy involved in conjugation with cellular fusion|microtubule nucleation	structural constituent of cytoskeleton	central plaque of spindle pole body|inner plaque of spindle pole body
YDL087C	LUC7	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0331175351228706	0.0555042570574085	918	Essential protein associated with the U1 snRNP complex; splicing factor involved in recognition of 5' splice site; contains two zinc finger motifs; N-terminal zinc finger binds pre-mRNA	mRNA splice site selection	mRNA binding	U1 snRNP|U2-type prespliceosome
YPR159C-A_p	YPR159C-A	hom			0.0330296410831402	0.0561560202468912	919	Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YLR438C-A	LSM3	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0329151700816817	0.057014398678511	920	Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA; protein increases in abundance and relocalizes from nucleus to cytoplasmic foci upon DNA replication stress	nuclear-transcribed mRNA catabolic process|mRNA splicing, via spliceosome	RNA binding	U6 snRNP|nucleolus|small nucleolar ribonucleoprotein complex|U4/U6 x U5 tri-snRNP complex
YKL036C_d	YKL036C	het			0.0326976808784791	0.0586753367325981	921	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related <i>Saccharomyces</i> species; partially overlaps the essential gene UGP1 gene and uncharacterized ORF YKL037W	Unknown	Unknown	Unknown
YNL023C	FAP1	hom	FT	NUCLEUS	0.0326638348609652	0.0589373909606857	922	Protein that binds to Fpr1p, conferring rapamycin resistance by competing with rapamycin for Fpr1p binding; accumulates in the nucleus upon treatment of cells with rapamycin; has similarity to D. melanogaster shuttle craft and human NFX1	biological_process	sequence-specific DNA binding transcription factor activity	cytoplasm
YNL235C_d	YNL235C	hom			0.0326410010715283	0.0591147305883283	923	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SIN4/YNL236W, a subunit of the mediator complex	Unknown	Unknown	Unknown
YGR095C	RRP46	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0325991619748418	0.0594408245364334	924	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp46p (EXOSC5)	nuclear polyadenylation-dependent tRNA catabolic process|nuclear polyadenylation-dependent rRNA catabolic process|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|nuclear polyadenylation-dependent mRNA catabolic process|nonfunctional rRNA decay|nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'|polyadenylation-dependent snoRNA 3'-end processing|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|nuclear-transcribed mRNA catabolic process, non-stop decay|ncRNA 3'-end processing	molecular_function	nuclear exosome (RNase complex)|cytoplasmic exosome (RNase complex)
YHR196W	UTP9	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|CHROMOSOME	0.0325978800781247	0.0594508391484258	925	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA	positive regulation of transcription from RNA polymerase I promoter|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|rDNA heterochromatin|nucleolus|t-UTP complex|nucleus|90S preribosome
YPR107C	YTH1	het	FF|FT	RNA PROCESSING|NUCLEUS	0.0325529018282736	0.0599945525691137	926	Essential RNA-binding component of cleavage and polyadenylation factor, contains five zinc fingers; required for pre-mRNA 3'-end processing and polyadenylation	mRNA cleavage|mRNA polyadenylation	RNA binding	mRNA cleavage and polyadenylation specificity factor complex
YGL164C	YRB30	hom	FT	PROTEIN LOCALIZATION|NUCLEUS	0.0325418463057732	0.0598899633599583	927	RanGTP-binding protein, inhibits RanGAP1 (Rna1p)-mediated GTP hydrolysis of RanGTP (Gsp1p); shares similarity to proteins in other fungi but not in higher eukaryotes	biological_process	GTPase regulator activity	nucleus|cytoplasm
YGR187C	HGH1	hom			0.0324881387497198	0.060351807704135	928	Nonessential protein of unknown function; predicted to be involved in ribosome biogenesis; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; similar to mammalian BRP16 (Brain protein 16); relative distribution to the nucleus increases upon DNA replication stress	biological_process	molecular_function	cytoplasm
YNR051C	BRE5	hom	FT	VESICLE-MEDIATED TRANSPORT	0.0323413656688881	0.0614831602201347	929	Ubiquitin protease cofactor, forms deubiquitination complex with Ubp3p that coregulates anterograde and retrograde transport between the endoplasmic reticulum and Golgi compartments; null is sensitive to brefeldin A	protein deubiquitination|ribophagy|regulation of ER to Golgi vesicle-mediated transport|Unknown	molecular_function	cytoplasm
YGL185C_p	YGL185C	hom	FT	OXIDATION-REDUCTION PROCESS	0.0323105689375932	0.0617309785238964	930	Putative protein with sequence similarity to hydroxyacid dehydrogenases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm	metabolic process	oxidoreductase activity, acting on the CH-OH group of donors, NAD or NADP as acceptor	cytoplasm
YML097C	VPS9	hom	FF|FT	PROTEIN LOCALIZATION|VACUOLAR TRANSPORT	0.0323000815716145	0.0618155577421017	931	A guanine nucleotide exchange factor involved in vesicle-mediated vacuolar protein transport; specifically stimulates the intrinsic guanine nucleotide exchange activity of Vps21p/Rab5: similar to mammalian ras inhibitors; binds ubiquitin	vacuole inheritance|protein targeting to vacuole	ubiquitin binding|guanyl-nucleotide exchange factor activity	cytosol
YOR027W	STI1	hom			0.0321377074853778	0.063137361093067	932	Hsp90 cochaperone, interacts with the Ssa group of the cytosolic Hsp70 chaperones and activates Ssa1p ATPase activity; interacts with Hsp90 chaperones and inhibits their ATPase activity; homolog of mammalian Hop	protein folding	Hsp70 protein binding|Hsp90 protein binding|mRNA binding|ATPase inhibitor activity	cytoplasm
YGL226C-A	OST5	hom	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0321097059550493	0.0633676508906511	933	Zeta subunit of the oligosaccharyltransferase complex of the ER lumen, which catalyzes asparagine-linked glycosylation of newly synthesized proteins	protein N-linked glycosylation	dolichyl-diphosphooligosaccharide-protein glycotransferase activity	oligosaccharyltransferase complex
YOR160W	MTR10	het	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|NUCLEUS	0.0321006102337072	0.0634426049095426	934	Nuclear import receptor; mediates the nuclear localization of proteins involved in mRNA-nucleus export; promotes dissociation of mRNAs from the nucleus-cytoplasm mRNA shuttling protein Npl3p; required for retrograde import of mature tRNAs; relocalizes from cytoplasm to the nuclear periphery upon DNA replication stress	RNA localization|tRNA transport|RNA import into nucleus|protein import into nucleus|mRNA-binding (hnRNP) protein import into nucleus	nuclear localization sequence binding	integral to membrane|nucleus|cytoplasm
YDL054C	MCH1	hom			0.0320789155138228	0.0636613373283053	935	Protein with similarity to mammalian monocarboxylate permeases, which are involved in transport of monocarboxylic acids across the plasma membrane; mutant is not deficient in monocarboxylate transport	transport	monocarboxylic acid transmembrane transporter activity|transporter activity	integral to membrane|membrane
YBR043C	QDR3	hom	FT	PLASMA MEMBRANE	0.0320747661358932	0.0636559749450199	936	Multidrug transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; has a role in polyamine homeostasis; expression is upregulated under polyamine stress; required for resistance to quinidine, barban, cisplatin, and bleomycin	drug transmembrane transport|polyamine homeostasis	drug transmembrane transporter activity|polyamine transmembrane transporter activity	integral to membrane|plasma membrane
YDR220C_d	YDR220C	hom			0.032060278253997	0.0637758465090778	937	Dubious open reading frame, null mutant exhibits synthetic phenotype with alpha-synuclein	Unknown	Unknown	Unknown
YPR161C	SGV1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0320340173799631	0.0639936019005429	938	Cyclin (Bur2p)-dependent protein kinase that functions in transcriptional regulation; phosphorylates the carboxy-terminal domain of Rpo21p and the C-terminal repeat domain of Spt5p; regulated by Cak1p; similar to metazoan CDK9 proteins	phosphorylation of RNA polymerase II C-terminal domain|protein phosphorylation|transcription, DNA-dependent|positive regulation of histone H3-K4 methylation	RNA polymerase II carboxy-terminal domain kinase activity|cyclin-dependent protein kinase activity	cyclin-dependent protein kinase holoenzyme complex|nucleus
YDL171C	GLT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.0319739915554622	0.064493641686976	939	NAD(+)-dependent glutamate synthase (GOGAT), synthesizes glutamate from glutamine and alpha-ketoglutarate; with Gln1p, forms the secondary pathway for glutamate biosynthesis from ammonia; expression regulated by nitrogen source	glutamate biosynthetic process|ammonia assimilation cycle	glutamate synthase (NADH) activity	mitochondrion
YDR434W	GPI17	het	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0319359524539065	0.0648121884450567	940	Transmembrane protein subunit of the glycosylphosphatidylinositol transamidase complex that adds GPIs to newly synthesized proteins; human PIG-S homolog	attachment of GPI anchor to protein	GPI-anchor transamidase activity	integral to membrane|endoplasmic reticulum|GPI-anchor transamidase complex
YDR120C	TRM1	hom	FT	RNA PROCESSING|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION	0.031916988100856	0.0649714836435621	941	tRNA methyltransferase; two forms of the protein are made by alternative translation starts; localizes to both the nucleus and mitochondrion to produce the modified base N2,N2-dimethylguanosine in tRNAs in both compartments	tRNA methylation	tRNA (guanine-N2-)-methyltransferase activity	mitochondrion|nuclear envelope|nuclear inner membrane
YLR282C_d	YLR282C	hom			0.0319091767598911	0.0651577883660723	942	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition	Unknown	Unknown	Unknown
YOL022C	TSR4	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS	0.0318900544990298	0.0651982729784871	943	Cytoplasmic protein required for correct processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; essential gene in S288C background but not in CEN.PK2	maturation of SSU-rRNA	molecular_function	cytoplasm
YLR332W	MID2	hom	FT	RNA PROCESSING|SIGNALING|CELL WALL ORG/BIOGENESIS|PEROXISOME ORGANIZATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.0318484765706944	0.0655496531206459	944	O-glycosylated plasma membrane protein that acts as a sensor for cell wall integrity signaling and activates the pathway; interacts with Rom2p, a guanine nucleotide exchange factor for Rho1p, and with cell integrity pathway protein Zeo1p	UFP-specific transcription factor mRNA processing involved in endoplasmic reticulum unfolded protein response|fungal-type cell wall organization|peroxisome degradation|cell morphogenesis involved in conjugation|response to acid|response to osmotic stress	transmembrane signaling receptor activity	integral to plasma membrane|mating projection tip
YNL313C	EMW1	het	FT	CELL WALL ORG/BIOGENESIS|NUCLEUS	0.0317842219755779	0.0661362963073684	945	Essential conserved protein with a role in cell wall integrity; contains six TPR (tetratricopeptide repeat) domains clustered in the C-terminal region; conditional mutant is suppressed by overexpression of GFA1; protein abundance increases in response to DNA replication stress	fungal-type cell wall organization	molecular_function	nucleus|cytoplasm
YNL257C	SIP3	hom	FT	TRANSCRIPTION FROM RNA POL II	0.0317212361436577	0.066634684737884	946	Transcription cofactor; acts through interaction with DNA-bound Snf1p; C-terminal region has a putative leucine zipper motif; potential Cdc28p substrate; SIP3 has a paralog, YSP1, that arose from the whole genome duplication	positive regulation of transcription from RNA polymerase II promoter	transcription cofactor activity	integral to membrane
YPL219W	PCL8	hom	FT	CELL CYCLE|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.0317136122671631	0.0667001633742016	947	Cyclin, interacts with Pho85p cyclin-dependent kinase (Cdk) to phosphorylate and regulate glycogen synthase, also activates Pho85p for Glc8p phosphorylation	negative regulation of glycogen biosynthetic process	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex
YBR168W	PEX32	hom	FT	PEROXISOME ORGANIZATION	0.0316517739796416	0.0677677134078722	948	Peroxisomal integral membrane protein, involved in negative regulation of peroxisome size; partially functionally redundant with Pex31p; genetic interactions suggest action at a step downstream of steps mediated by Pex28p and Pex29p	peroxisome organization	molecular_function	integral to membrane|integral to peroxisomal membrane
YDR129C	SAC6	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0316463075619558	0.068022082528489	949	Fimbrin, actin-bundling protein; cooperates with Scp1p (calponin/transgelin) in the organization and maintenance of the actin cytoskeleton; relocalizes from plasma membrane to cytoplasm upon DNA replication stress	bipolar cellular bud site selection|actin filament organization|endocytosis|response to osmotic stress	actin filament binding|protein binding, bridging	actin filament bundle|mating projection tip|actin cortical patch
YGR266W	YGR266W	hom	FT	MITOCHONDRION|PLASMA MEMBRANE	0.0316252282931093	0.0674631334243598	950	Protein of unknown function; predicted to contain a single transmembrane domain; mutant has increased aneuploidy tolerance; localized to both the mitochondrial outer membrane and the plasma membrane; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	mitochondrial outer membrane|mitochondrion|plasma membrane
YER097W_d	YER097W	hom			0.0316223386927846	0.0674881984226527	951	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR124W_d	YLR124W	hom			0.0315721142241156	0.0679250808035825	952	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGR035C_p	YGR035C	hom			0.031523050130182	0.0683541119084544	953	Putative protein of unknown function, potential Cdc28p substrate; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance	biological_process	molecular_function	cellular_component
YGR113W	DAM1	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0315140598561285	0.0685571656798484	954	Essential subunit of the Dam1 complex (aka DASH complex), couples kinetochores to the force produced by MT depolymerization thereby aiding in chromosome segregation; Ipl1p target for regulating kinetochore-MT attachments	mitotic spindle organization in nucleus|regulation of microtubule polymerization or depolymerization	microtubule binding|structural constituent of cytoskeleton	spindle midzone|DASH complex|condensed nuclear chromosome kinetochore|kinetochore microtubule|spindle
YOR316C-A_p	YOR316C-A	hom			0.0315056547032286	0.0685067563999355	955	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YDR003W	RCR2	hom	FT	VESICLE-MEDIATED TRANSPORT	0.0314605964783935	0.0691947588480663	956	Vacuolar protein; presumably functions within the endosomal-vacuolar trafficking pathway, affecting events that determine whether plasma membrane proteins are degraded or routed to the plasma membrane; RCR2 has a paralog, RCR1, that arose from the whole genome duplication	vesicle-mediated transport	molecular_function	vesicle|integral to membrane|fungal-type vacuole|cytoplasm
YGL113W	SLD3	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0314481451435423	0.0690133961392521	957	Protein involved in the initiation of DNA replication; required for proper assembly of replication proteins at the origins of replication; interacts with Cdc45p; localizes to nuclear foci that become diffuse upon DNA replication stress	DNA unwinding involved in replication|double-strand break repair via break-induced replication|DNA replication initiation	chromatin binding	nuclear chromatin|DNA replication preinitiation complex
YFL023W	BUD27	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|RIBOSOME	0.0314136805488377	0.0696945678865716	958	Unconventional prefoldin protein involved in translation initiation; mutants have inappropriate expression of nutrient sensitive genes due to translational derepression of Gcn4p transcription factor; diploid mutants show random budding; ortholog of human URI/RMP	formation of translation preinitiation complex	molecular_function	cytosolic ribosome|cytoplasm
YOR372C	NDD1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS	0.0313919354338043	0.0698462696646646	959	Transcriptional activator essential for nuclear division; localized to the nucleus; essential component of the mechanism that activates the expression of a set of late-S-phase-specific genes	positive regulation of transcription involved in G2/M-phase of mitotic cell cycle	transcription coactivator activity	nucleus
YEL036C	ANP1	hom	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0313870772643469	0.0695547475483963	960	Subunit of the alpha-1,6 mannosyltransferase complex; type II membrane protein; has a role in retention of glycosyltransferases in the Golgi; involved in osmotic sensitivity and resistance to aminonitrophenyl propanediol	protein N-linked glycosylation	alpha-1,6-mannosyltransferase activity|mannosyltransferase activity	alpha-1,6-mannosyltransferase complex|Golgi cis cisterna
YNL062C	GCD10	het	FT	RNA PROCESSING|TRANSLATION|NUCLEUS	0.031369031506851	0.0700086559624958	961	Subunit of tRNA (1-methyladenosine) methyltransferase with Gcd14p, required for the modification of the adenine at position 58 in tRNAs, especially tRNAi-Met; first identified as a negative regulator of GCN4 expression	tRNA methylation	tRNA (adenine-N1-)-methyltransferase activity	tRNA (m1A) methyltransferase complex|nucleus
YDL084W	SUB2	het	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|RESPONSE TO DNA DAMAGE|RNA LOCALIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0313161519225823	0.0701878521776052	962	Component of the TREX complex required for nuclear mRNA export; member of the DEAD-box RNA helicase superfamily and is involved in early and late steps of spliceosome assembly; homolog of the human splicing factor hUAP56; relocalizes from nucleus to cytoplasm upon DNA replication stress	mRNA 3'-end processing|mRNA export from nucleus|transcription-coupled nucleotide-excision repair|mRNA splicing, via spliceosome|transcription elongation from RNA polymerase II promoter|chromatin silencing at telomere	ATP-dependent RNA helicase activity	chromosome, telomeric region|nucleus|transcription export complex|spliceosomal complex
YHL023C	NPR3	hom	FT	CELL CYCLE|SIGNALING|RESPONSE TO NUTRIENT LEVELS	0.0312899894941726	0.0704225773065544	963	Subunit of SEA (Seh1-associated), Npr2/3, and Iml1p complexes; Npr2/3 complex mediates downregulation of TORC1 activity upon amino acid limitation; SEA complex is a coatomer-related complex that associates dynamically with the vacuole; Iml1p complex (Iml1p-Npr2p-Npr3p) is required for non-nitrogen-starvation (NNS)-induced autophagy; required for Npr2p phosphorylation and Iml1p-Npr2p interaction; null mutant shows delayed meiotic DNA replication and double-strand break repair	meiosis|regulation of TOR signaling cascade|cellular response to amino acid starvation	molecular_function	Seh1-associated complex|extrinsic to fungal-type vacuolar membrane
YGR169C-A_p	YGR169C-A	hom			0.0311686410850762	0.0715197268815877	964	Putative protein of unknown function; YGR169C-A has a paralog, YJR005C-A, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YLR358C_p	YLR358C	hom			0.0311325131491846	0.072019378689255	965	Protein of unknown function; expressed at both mRNA and protein levels; partially overlaps ORF RSC2/YLR357W	biological_process	molecular_function	cellular_component
YLR129W	DIP2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0311153900807279	0.072005586579939	966	Nucleolar protein, specifically associated with the U3 snoRNA, part of the large ribonucleoprotein complex known as the small subunit (SSU) processome, required for 18S rRNA biogenesis, part of the active pre-rRNA processing complex	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|nucleolus|Pwp2p-containing subcomplex of 90S preribosome|90S preribosome
YOR109W	INP53	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|MEMBRANE ORGANIZATION|CYTOSKELETON	0.0310674014352283	0.0724457444677163	967	Polyphosphatidylinositol phosphatase, dephosphorylates multiple phosphatidylinositols; involved in trans Golgi network-to-early endosome pathway; hyperosmotic stress causes translocation to actin patches; contains Sac1 and 5-ptase domains	phosphatidylinositol dephosphorylation	phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity|phosphatidylinositol-4,5-bisphosphate 5-phosphatase activity|phosphatidylinositol-3-phosphatase activity|phosphatidylinositol-4-phosphate phosphatase activity	membrane|actin cortical patch|cytoplasm
YIL047C	SYG1	hom	FT	SIGNALING|MITOCHONDRION|PLASMA MEMBRANE	0.0310432273099177	0.0726683051331933	968	Plasma membrane protein of unknown function; truncation and overexpression suppresses lethality of G-alpha protein deficiency	signal transduction	molecular_function	mitochondrion|integral to membrane|plasma membrane
YGL030W	RPL30	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0310383061056018	0.0728422434665757	969	Ribosomal 60S subunit protein L30; involved in pre-rRNA processing in the nucleolus; autoregulates splicing of its transcript; homologous to mammalian ribosomal protein L30, no bacterial homolog	cytoplasmic translation|negative regulation of mRNA splicing, via spliceosome|negative regulation of translation|rRNA processing	structural constituent of ribosome|RNA binding|pre-mRNA 5'-splice site binding	cytosolic large ribosomal subunit|cytoplasm
YEL013W	VAC8	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS	0.0309557247582988	0.0734785845744962	970	Phosphorylated and palmitoylated vacuolar membrane protein that interacts with Atg13p, required for the cytoplasm-to-vacuole targeting (Cvt) pathway; interacts with Nvj1p to form nucleus-vacuole junctions	piecemeal microautophagy of nucleus|vacuole inheritance|CVT vesicle assembly|vacuole fusion, non-autophagic|macroautophagy|nucleus-vacuole junction assembly	protein anchor	fungal-type vacuole membrane|nucleus-vacuole junction|Myo2p-Vac17p-Vac8p transport complex
YBR105C	VID24	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|KETONE METABOLISM|MEMBRANE ORGANIZATION|CARBOHYDRATE METABOLISM|PROTEOLYSIS|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM	0.0309402653404623	0.0736225046715733	971	GID Complex regulatory subunit; binds GID Complex in response to glucose through interactions with complex member Vid28p; regulates fructose-1,6-bisphosphatase (FBPase) targeting to the vacuole; promotes proteasome-dependent catabolite degradation of FBPase; peripheral membrane protein located at Vid (vacuole import and degradation) vesicles	negative regulation of gluconeogenesis|vesicle fusion with vacuole|vacuolar protein catabolic process|proteasomal ubiquitin-dependent protein catabolic process|vesicle-mediated transport|protein targeting to vacuole	molecular_function	cytoplasmic membrane-bounded vesicle|GID complex|extrinsic to membrane
YDR401W_d	YDR401W	hom			0.0307729105056512	0.0751952973805794	972	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGL224C	SDT1	hom			0.0307648872384318	0.0752713832136109	973	Pyrimidine nucleotidase; overexpression suppresses the 6-AU sensitivity of transcription elongation factor S-II, as well as resistance to other pyrimidine derivatives	pyrimidine nucleobase metabolic process	nucleotidase activity	cellular_component
YHR178W	STB5	hom	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0307603336947142	0.0763704688686934	974	Transcription factor, involved in regulating multidrug resistance and oxidative stress response; forms a heterodimer with Pdr1p; contains a Zn(II)2Cys6 zinc finger domain that interacts with a pleiotropic drug resistance element in vitro	response to xenobiotic stimulus|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|transcription, DNA-dependent	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YNL148C	ALF1	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|NUCLEUS|CYTOSKELETON	0.030754356076073	0.0756778093153567	975	Alpha-tubulin folding protein, similar to mammalian cofactor B; Alf1p-GFP localizes to cytoplasmic microtubules; required for the folding of alpha-tubulin and may play an additional role in microtubule maintenance	protein folding|post-chaperonin tubulin folding pathway	microtubule binding|alpha-tubulin binding	nucleus|cytoplasm
YOR207C	RET1	het	FF|FT	NUCLEUS	0.0307541051518456	0.0753737302696897	976	Second-largest subunit of RNA polymerase III, which is responsible for the transcription of tRNA and 5S RNA genes, and other low molecular weight RNAs	tRNA transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex
YPR070W	MED1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0306655197433405	0.0762189173136888	977	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation	negative regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	molecular_function	core mediator complex
YMR171C	EAR1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS|VACUOLAR TRANSPORT	0.0306417377167892	0.0764471308352556	978	Specificity factor required for Rsp5p-dependent ubiquitination and sorting of specific cargo proteins at the multivesicular body; mRNA is targeted to the bud via the mRNA transport system involving She2p	protein targeting to vacuole involved in ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	molecular_function	endosome
YGR190C_d	YGR190C	het			0.0306246260694652	0.0766116793649956	979	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene HIP1/YGR191W	Unknown	Unknown	Unknown
YHL035C	VMR1	hom	FT	NUCLEOTIDE METABOLISM|MITOCHONDRION	0.0305946286086653	0.0769008365437099	980	Vacuolar membrane protein involved in multiple drug resistance and metal sensitivity; ATP-binding cassette (ABC) family member involved in drug transport; potential Cdc28p substrate; induced under respiratory conditions	transport|response to drug|response to metal ion|drug transport	ATPase activity, coupled to transmembrane movement of substances	fungal-type vacuole membrane|mitochondrion|integral to membrane|ribosome
YMR277W	FCP1	het	FF|FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0305756935866927	0.0771280637859632	981	Carboxy-terminal domain (CTD) phosphatase, essential for dephosphorylation of the repeated C-terminal domain of the RNA polymerase II large subunit (Rpo21p)	dephosphorylation of RNA polymerase II C-terminal domain|regulation of transcription from RNA polymerase II promoter	protein serine/threonine phosphatase activity	nucleus
YMR007W_d	YMR007W	hom			0.0305707002534728	0.0771321282456366	982	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR018C	POM34	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CYTOSKELETON ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0305457470822027	0.0774182690750387	983	Subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication	nuclear pore organization|protein import into nucleus|spindle pole body duplication associated with nuclear envelope	structural constituent of nuclear pore	nuclear pore transmembrane ring|integral to membrane|integral to nuclear outer membrane|nuclear pore
YDR495C	VPS3	hom	FF|FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|ION HOMEOSTASIS|VACUOLAR TRANSPORT	0.0304405697232557	0.0783999100540495	984	Component of CORVET tethering complex; cytoplasmic protein required for the sorting and processing of soluble vacuolar proteins, acidification of the vacuolar lumen, and assembly of the vacuolar H+-ATPase	vacuole inheritance|vacuolar acidification|protein targeting to vacuole	molecular_function	CORVET complex|cytoplasm
YBR060C	ORC2	het	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0303854691223446	0.0792562160301735	985	Subunit of the origin recognition complex, which directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; interacts with Spp1p and with trimethylated histone H3; phosphorylated by Cdc28p	histone H3-K4 methylation|DNA replication initiation|pre-replicative complex assembly|chromatin silencing at silent mating-type cassette|chromatin silencing at telomere	chromatin binding|DNA replication origin binding	DNA replication preinitiation complex|pre-replicative complex|nuclear origin of replication recognition complex
YOL038C-A_p	YOL038C-A	hom			0.0303730133779392	0.0790647248024748	986	Putative protein of unknown function; identified by SAGE analysis	biological_process	molecular_function	cellular_component
YOL019W-A_p	YOL019W-A	hom			0.0303451567784638	0.0795652522384214	987	Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YHR041C	SRB2	hom	FT	TRANSCRIPTION FROM RNA POL II|RIBOSOME BIOGENESIS|RESPONSE TO NUTRIENT LEVELS|NUCLEUS|RNA POL II, HOLOENZYME	0.0302940703338023	0.0798473943548733	988	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; general transcription factor involved in telomere maintenance	negative regulation of ribosomal protein gene transcription from RNA polymerase II promoter in response to chemical stimulus|RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of ribosomal protein gene transcription from RNA polymerase II promoter in response to nutrient levels|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II transcription coactivator activity involved in preinitiation complex assembly|core RNA polymerase II binding transcription factor activity|RNA polymerase II transcription factor recruiting transcription factor activity|TBP-class protein binding RNA polymerase II transcription factor activity involved in preinitiation complex assembly|protein domain specific binding	core mediator complex
YDL086W_p	YDL086W	hom	FT	MITOCHONDRION	0.0302362250689317	0.0806062168873546	989	Putative carboxymethylenebutenolidase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL086W is not an essential gene	biological_process	carboxymethylenebutenolidase activity	mitochondrion|cytoplasm
YIL057C	RGI2	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.030138129203519	0.0814119451815495	990	Protein of unknown function involved in energy metabolism under respiratory conditions; expression induced under carbon limitation and repressed under high glucose	energy reserve metabolic process	molecular_function	cytoplasm
YIL127C_p	RRT14	hom	FT	NUCLEUS	0.0300815203244776	0.0823069839217469	991	Putative protein of unknown function; identified in a screen for mutants with decreased levels of rDNA transcription; green fluorescent protein (GFP)-fusion protein localizes to the nucleolus; predicted to be involved in ribosome biogenesis	biological_process	molecular_function	nucleolus
YER093C	TSC11	het	FT	LIPID METABOLISM|SIGNALING|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|PLASMA MEMBRANE	0.0300072841907658	0.0827438123856637	992	Subunit of TORC2 (Tor2p-Lst8p-Avo1-Avo2-Tsc11p-Bit61p), a membrane-associated complex that regulates actin cytoskeletal dynamics during polarized growth and cell wall integrity; involved in sphingolipid metabolism; contains a RasGEFN domain	fungal-type cell wall organization|TOR signaling cascade|regulation of cell growth|establishment or maintenance of actin cytoskeleton polarity|sphingolipid biosynthetic process	protein binding	TORC2 complex
YGR047C	TFC4	het	FT	NUCLEUS	0.0299441426040746	0.0833928137940033	993	One of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauA domain of TFIIIC that binds BoxA DNA promoter sites of tRNA and similar genes; has TPR motifs; human homolog is TFIIIC-102	transcription from a RNA polymerase III hybrid type promoter|transcription from RNA polymerase III type 2 promoter|5S class rRNA transcription from RNA polymerase III type 1 promoter	RNA polymerase III type 1 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|RNA polymerase III type 2 promoter sequence-specific DNA binding|RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|DNA binding, bending	transcription factor TFIIIC complex
YMR042W	ARG80	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0299302701900214	0.08427905637069	994	Transcription factor involved in regulation of arginine-responsive genes; acts with Arg81p and Arg82p	Unknown|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity|core promoter proximal region sequence-specific DNA binding	nucleus
YDR408C	ADE8	hom	FT	NUCLEOTIDE METABOLISM|NUCLEUS	0.0299199824940138	0.0838274681069621	995	Phosphoribosyl-glycinamide transformylase, catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway	purine nucleotide biosynthetic process|'de novo' IMP biosynthetic process|adenine biosynthetic process	phosphoribosylglycinamide formyltransferase activity	nucleus|cytoplasm
YBR203W	COS111	hom	FT	SIGNALING|MITOCHONDRION	0.0298855874741147	0.0841375546422526	996	Protein required for resistance to the antifungal drug ciclopirox olamine; not related to the subtelomerically-encoded COS family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	signal transduction	molecular_function	mitochondrion
YPR006C	ICL2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0298426034303044	0.0845847239051817	997	2-methylisocitrate lyase of the mitochondrial matrix, functions in the methylcitrate cycle to catalyze the conversion of 2-methylisocitrate to succinate and pyruvate; ICL2 transcription is repressed by glucose and induced by ethanol	threonine catabolic process|propionate metabolic process	methylisocitrate lyase activity	mitochondrion|mitochondrial matrix
YPL115C	BEM3	hom	FT	SIGNALING|SITE OF POLARIZED GROWTH	0.0298402878711627	0.0844692444032385	998	Rho GTPase activating protein (RhoGAP) involved in control of the cytoskeleton organization; targets the essential Rho-GTPase Cdc42p, which controls establishment and maintenance of cell polarity, including bud-site assembly	negative regulation of Rho protein signal transduction|establishment of cell polarity	Rho GTPase activator activity|phosphatidylinositol-3-phosphate binding	cell cortex|incipient cellular bud site|mating projection tip|cytoplasm|cellular bud tip
YHR079C	IRE1	hom	FF|FT	RNA PROCESSING|SIGNALING|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0298369955813579	0.0845035511427004	999	Serine-threonine kinase and endoribonuclease; transmembrane protein that mediates the unfolded protein response (UPR) by regulating Hac1p synthesis through HAC1 mRNA splicing; Kar2p binds inactive Ire1p and releases from it upon ER stress	endoplasmic reticulum unfolded protein response|fungal-type cell wall organization|inositol metabolic process|protein phosphorylation	unfolded protein binding|protein serine/threonine kinase activity|endoribonuclease activity|protein kinase activity|protein homodimerization activity	nucleus
YLR262C	YPT6	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|SIGNALING|GOLGI APPARATUS|PLASMA MEMBRANE	0.02982147730791	0.0851792190244877	1000	Rab family GTPase, Ras-like GTP binding protein involved in the secretory pathway, required for fusion of endosome-derived vesicles with the late Golgi, maturation of the vacuolar carboxypeptidase Y; has similarity to the human GTPase, Rab6	intracellular protein transport|retrograde transport, endosome to Golgi	GTPase activity	Golgi apparatus
YJR148W	BAT2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0298057274191706	0.0848765575109821	1001	Cytosolic branched-chain amino acid (BCAA) aminotransferase, preferentially involved in BCAA catabolism; homolog of murine ECA39; highly expressed during stationary phase and repressed during logarithmic phase	branched-chain amino acid catabolic process|branched-chain amino acid biosynthetic process	branched-chain-amino-acid transaminase activity	nucleus|cytoplasm
YLR305C	STT4	het	FT	LIPID METABOLISM|SIGNALING|MITOCHONDRION|PLASMA MEMBRANE	0.0297572722155532	0.0853377405444305	1002	Phosphatidylinositol-4-kinase that functions in the Pkc1p protein kinase pathway; required for normal vacuole morphology, cell wall integrity, and actin cytoskeleton organization	phosphatidylinositol phosphorylation	1-phosphatidylinositol 4-kinase activity	mitochondrion|plasma membrane
YPR047W	MSF1	hom	FT	KETONE METABOLISM|RNA PROCESSING|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0297069425297217	0.0858677856234075	1003	Mitochondrial phenylalanyl-tRNA synthetase, active as a monomer, unlike the cytoplasmic subunit which is active as a dimer complexed to a beta subunit dimer; similar to the alpha subunit of E. coli phenylalanyl-tRNA synthetase	phenylalanyl-tRNA aminoacylation|mitochondrial phenylalanyl-tRNA aminoacylation	phenylalanine-tRNA ligase activity	mitochondrion
YGL218W_d	YGL218W	hom			0.029701319297203	0.0861621567285256	1004	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 93% of ORF overlaps the verified gene MDM34; deletion in cyr1 mutant results in loss of stress resistance	Unknown	Unknown	Unknown
YPR063C_p	YPR063C	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0296956559401816	0.086033973166612	1005	ER-localized protein of unknown function	biological_process	molecular_function	endoplasmic reticulum
YDR202C	RAV2	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|ION HOMEOSTASIS	0.0296195576087554	0.0867943903682521	1006	Subunit of RAVE (Rav1p, Rav2p, Skp1p), a complex that associates with the V1 domain of the vacuolar membrane (H+)-ATPase (V-ATPase) and promotes assembly and reassembly of the holoenzyme	vacuolar acidification|regulation of protein complex assembly	molecular_function	RAVE complex
YOR059C	YOR059C	hom	FT	LIPID METABOLISM	0.0295128905183707	0.0879363757551644	1007	Lipid particle protein of unknown function; contains a putative lipase serine active site; induced by transcription factor Rpn4p; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	lipid particle
YJL064W_d	YJL064W	hom			0.0294804579742168	0.0882859921557735	1008	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified gene YJL065C/DLS1	Unknown	Unknown	Unknown
YPL138C	SPP1	hom	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS	0.0294244635172077	0.0888922369320954	1009	Subunit of COMPASS (Set1C), a complex which methylates histone H3 on lysine 4 and is required in telomeric transcriptional silencing; interacts with Orc2p; PHD finger domain protein similar to human CGBP, an unmethylated CpG binding protein	histone H3-K4 methylation|regulation of transcription, DNA-dependent|chromatin silencing at telomere	histone methyltransferase activity (H3-K4 specific)|chromatin binding|methylated histone residue binding	Set1C/COMPASS complex
YER114C	BOI2	hom	FT	SIGNALING|CELL DIVISION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0293549682828458	0.0896493107749923	1010	Protein implicated in polar growth, functionally redundant with Boi1p; interacts with bud-emergence protein Bem1p; contains an SH3 (src homology 3) domain and a PH (pleckstrin homology) domain; BOI2 has a paralog, BOI1, that arose from the whole genome duplication	cytokinesis, completion of separation|establishment of cell polarity|budding cell apical bud growth|Rho protein signal transduction	phospholipid binding	site of polarized growth|cellular bud|cellular bud neck
YGL188C-A_p	YGL188C-A	hom			0.0293362466807281	0.0898541467895475	1011	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YDR531W	CAB1	het	FT	NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.0293288670927221	0.0899349914366421	1012	Pantothenate kinase (ATP:D-pantothenate 4'-phosphotransferase, EC 2.7.1.33); catalyzes the first committed step in the universal biosynthetic pathway for synthesis of coenzyme A (CoA); transcriptionally regulated by Upc2p via a sterol response element	coenzyme A biosynthetic process	pantothenate kinase activity	nucleus|cytoplasm
YLR139C	SLS1	hom	FT	TRANSLATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0292174114893355	0.0911631379313269	1013	Mitochondrial membrane protein that coordinates expression of mitochondrially-encoded genes; may facilitate delivery of mRNA to membrane-bound translation machinery	aerobic respiration|mitochondrial translation	molecular_function	mitochondrial nucleoid|mitochondrion|integral to membrane|mitochondrial inner membrane
YOL077W-A	ATP19	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.0292168952503385	0.091168857650497	1014	Subunit k of the mitochondrial F1F0 ATP synthase, which is a large enzyme complex required for ATP synthesis; associated only with the dimeric form of ATP synthase	mitochondrial proton-transporting ATP synthase complex assembly|ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism	mitochondrion|mitochondrial proton-transporting ATP synthase complex|mitochondrial proton-transporting ATP synthase complex, coupling factor F(o)
YGR204W	ADE3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.0292017328016353	0.0913369801137828	1015	Cytoplasmic trifunctional enzyme C1-tetrahydrofolate synthase, involved in single carbon metabolism and required for biosynthesis of purines, thymidylate, methionine, and histidine; null mutation causes auxotrophy for adenine and histidine	purine nucleobase biosynthetic process|folic acid-containing compound metabolic process	methylenetetrahydrofolate dehydrogenase (NADP+) activity|formate-tetrahydrofolate ligase activity|methenyltetrahydrofolate cyclohydrolase activity	nucleus|cytoplasm
YCR031C	RPS14A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|RIBOSOME	0.0291675123892558	0.0917173344348021	1016	Protein component of the small (40S) ribosomal subunit; required for ribosome assembly and 20S pre-rRNA processing; mutations confer cryptopleurine resistance; homologous to mammalian ribosomal protein S14 and bacterial S11; RPS14A has a paralog, RPS14B, that arose from the whole genome duplication	cytoplasmic translation|ribosomal small subunit assembly|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome|mRNA binding	small-subunit processome|cytosolic small ribosomal subunit|90S preribosome
YDR280W	RRP45	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0291586007027627	0.0921574642172535	1017	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase PH and to human hRrp45p (PM/SCL-75, EXOSC9); protein abundance increases in response to DNA replication stress	U5 snRNA 3'-end processing|nuclear polyadenylation-dependent tRNA catabolic process|nuclear polyadenylation-dependent rRNA catabolic process|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|nonfunctional rRNA decay|nuclear polyadenylation-dependent mRNA catabolic process|U4 snRNA 3'-end processing|nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'|polyadenylation-dependent snoRNA 3'-end processing|U1 snRNA 3'-end processing|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|nuclear-transcribed mRNA catabolic process, non-stop decay	molecular_function	nucleolus|nuclear exosome (RNase complex)|cytoplasmic exosome (RNase complex)
YNL162W-A_p	YNL162W-A	hom	FT	NUCLEUS	0.0291149107500844	0.0924996241224323	1018	Putative protein of unknown function; identified by homology	biological_process	molecular_function	nucleus|cytoplasm
YBR200W	BEM1	hom	FT	SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0290739173640286	0.0927641290988594	1019	Protein containing SH3-domains, involved in establishing cell polarity and morphogenesis; functions as a scaffold protein for complexes that include Cdc24p, Ste5p, Ste20p, and Rsr1p	establishment of cell polarity|cell morphogenesis involved in conjugation with cellular fusion	protein complex scaffold|phosphatidylinositol-3-phosphate binding	incipient cellular bud site|mating projection tip|cellular bud neck|cellular bud tip
YDR177W	UBC1	het	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PROTEOLYSIS	0.0290454005781458	0.0930849679556415	1020	Ubiquitin-conjugating enzyme; mediates selective degradation of short-lived and abnormal proteins; plays a role in vesicle biogenesis and ER-associated protein degradation (ERAD); component of the cellular stress response; protein abundance increases in response to DNA replication stress	spore germination|vesicle organization|endocytosis|ER-associated protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|protein polyubiquitination|protein monoubiquitination	ubiquitin-protein ligase activity	proteasome complex
YMR188C	MRPS17	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0290418652205891	0.0932717999712954	1021	Mitochondrial ribosomal protein of the small subunit	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YBR267W	REI1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RIBOSOME BIOGENESIS|CELL DIVISION|RIBOSOME	0.0289885538344205	0.0937271994120988	1022	Cytoplasmic pre-60S factor; required for the correct recycling of shuttling factors Alb1, Arx1 and Tif6 at the end of the ribosomal large subunit biogenesis; involved in bud growth in the mitotic signaling network	ribosomal large subunit biogenesis|nucleocytoplasmic transport|mitotic cell cycle|budding cell bud growth	sequence-specific DNA binding	cytosolic large ribosomal subunit|preribosome, large subunit precursor|cytoplasm
YDR137W	RGP1	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|CELL DIVISION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0288223496318548	0.096172920515189	1023	Subunit of a Golgi membrane exchange factor (Ric1p-Rgp1p) that catalyzes nucleotide exchange on Ypt6p	retrograde transport, endosome to Golgi	guanyl-nucleotide exchange factor activity	Golgi apparatus|Ric1p-Rgp1p complex|Golgi membrane|guanyl-nucleotide exchange factor complex
YGR132C	PHB1	hom	FT	MEMBRANE ORGANIZATION|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0288174508958758	0.0960299056680071	1024	Subunit of the prohibitin complex (Phb1p-Phb2p), a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation	mitochondrion inheritance|protein folding|negative regulation of proteolysis|replicative cell aging|mitochondrion morphogenesis|inner mitochondrial membrane organization	molecular_function	mitochondrion|mitochondrial inner membrane
YIL107C	PFK26	hom	FT	CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0288036505487954	0.0958407628910948	1025	6-phosphofructo-2-kinase, inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate; has negligible fructose-2,6-bisphosphatase activity; transcriptional regulation involves protein kinase A	regulation of glycolysis|fructose 2,6-bisphosphate metabolic process	6-phosphofructo-2-kinase activity	cytoplasm
YBR004C	GPI18	het	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0287802381847233	0.0961110801878471	1026	Functional ortholog of human PIG-V, which is a mannosyltransferase that transfers the second mannose in glycosylphosphatidylinositol biosynthesis; the authentic, non-tagged protein was localized to mitochondria	GPI anchor biosynthetic process	mannosyltransferase activity|dolichyl-phosphate-mannose-glycolipid alpha-mannosyltransferase activity	integral to endoplasmic reticulum membrane|mitochondrion|mannosyltransferase complex|integral to membrane|endoplasmic reticulum
YHR163W	SOL3	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0286391083001661	0.0992208722415648	1027	6-phosphogluconolactonase; catalyzes the second step of the pentose phosphate pathway; weak multicopy suppressor of los1-1 mutation; homologous to Sol2p and Sol1p; SOL3 has a paralog, SOL4, that arose from the whole genome duplication	pentose-phosphate shunt, oxidative branch	6-phosphogluconolactonase activity	nucleus|cytoplasm
YBR196C	PGI1	het	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.0285529644672941	0.0989184580212989	1028	Glycolytic enzyme phosphoglucose isomerase, catalyzes the interconversion of glucose-6-phosphate and fructose-6-phosphate; required for cell cycle progression and completion of the gluconeogenic events of sporulation	gluconeogenesis|pentose-phosphate shunt|glycolysis	glucose-6-phosphate isomerase activity	cytosol|mitochondrion|plasma membrane
YMR209C_p	YMR209C	hom			0.0285048560940762	0.099336606252746	1029	Putative S-adenosylmethionine-dependent methyltransferase; YMR209C is not an essential gene	biological_process	S-adenosylmethionine-dependent methyltransferase activity	cellular_component
YKL195W	MIA40	het	FF|FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0285034280346163	0.0996069225827633	1030	Oxidoreductase that mediates mitochondrial intermembrane space import; substrates include small proteins containing twin cysteine motifs; acts in concert with Erv1p, which oxidizes the cysteine residues of Mia40p to comprise a disulfide relay system that catalyzes import; also mediates folding of Atp23p	protein import into mitochondrial intermembrane space	molecular_function	mitochondrion|mitochondrial inner membrane|mitochondrial outer membrane translocase complex|mitochondrial intermembrane space
YKL098W	MTC2	hom			0.0284159490016568	0.100650910386198	1031	Protein of unknown function; mtc2 is synthetically sick with cdc13-1	biological_process	molecular_function	cellular_component
YFL004W	VTC2	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|ENDOPLASMIC RETICULUM	0.0283930618743799	0.100976576674137	1032	Subunit of the vacuolar transporter chaperone (VTC) complex involved in membrane trafficking, vacuolar polyphosphate accumulation, microautophagy and non-autophagic vacuolar fusion	polyphosphate metabolic process|vacuolar transport|microautophagy|protein localization|vacuole fusion, non-autophagic	molecular_function	fungal-type vacuole membrane|integral to membrane|endoplasmic reticulum|vacuolar transporter chaperone complex
YIL045W	PIG2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0283445094795521	0.101254143928402	1033	Putative type-1 protein phosphatase targeting subunit that tethers Glc7p type-1 protein phosphatase to Gsy2p glycogen synthase	regulation of glycogen biosynthetic process	protein phosphatase type 1 regulator activity	cytoplasm
YDL033C	SLM3	hom	FT	RNA PROCESSING|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0283378322408108	0.10164177965469	1034	tRNA-specific 2-thiouridylase, responsible for 2-thiolation of the wobble base of mitochondrial tRNAs; human ortholog is implicated in myoclonus epilepsy associated with ragged red fibers (MERRF)	mitochondrial tRNA thio-modification	tRNA (5-methylaminomethyl-2-thiouridylate)-methyltransferase activity	mitochondrion
YJL048C	UBX6	hom	FT	PROTEOLYSIS|NUCLEUS	0.0283285793796009	0.101446245686446	1035	UBX (ubiquitin regulatory X) domain-containing protein; interacts with Cdc48p, transcription is repressed when cells are grown in media containing inositol and choline; UBX6 has a paralog, UBX7, that arose from the whole genome duplication	sporulation resulting in formation of a cellular spore|ubiquitin-dependent protein catabolic process	molecular_function	nucleus
YDR136C_d	VPS61	hom	FF		0.0283091787645466	0.10198826257025	1036	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 4% of ORF overlaps the verified gene RGP1; deletion causes a vacuolar protein sorting defect	Unknown	Unknown	Unknown
YGR271W	SLH1	hom	FT	TRANSLATION|RIBOSOME	0.0281549189963272	0.103559294882578	1037	Putative RNA helicase related to Ski2p, involved in translation inhibition of non-poly(A) mRNAs; required for repressing propagation of dsRNA viruses	cytoplasmic translation|regulation of translation	RNA helicase activity	polysomal ribosome|cytoplasm
YLR223C	IFH1	het	FT	TRANSCRIPTION FROM RNA POL II|RIBOSOME BIOGENESIS|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0281137582011105	0.104065218597326	1038	Coactivator that regulates transcription of ribosomal protein (RP) genes; recruited to RP gene promoters during optimal growth conditions via Fhl1p; subunit of CURI, a complex that coordinates RP production and pre-rRNA processing	positive regulation of ribosomal protein gene transcription from RNA polymerase II promoter|chromatin silencing at telomere	transcription coactivator activity	nuclear chromatin|nucleolus|nucleus|CURI complex
YHR159W_p	TDA11	hom			0.0281062164521444	0.104158129637801	1039	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; potential Cdc28p substrate; null mutant is sensitive to expression of the top1-T722A allele	biological_process	molecular_function	cytoplasm
YMR278W	PGM3	hom	FT	CARBOHYDRATE METABOLISM|NUCLEUS	0.0280473961601664	0.104885031834067	1040	Phosphoglucomutase, catalyzes interconversion of glucose-1-phosphate and glucose-6-phospate; transcription induced in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; non-essential	biological_process	phosphoglucomutase activity	nucleus|cytoplasm
YBR026C	ETR1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0280460189581279	0.104902099425943	1041	2-enoyl thioester reductase, member of the medium chain dehydrogenase/reductase family; localized to in mitochondria, where it has a probable role in fatty acid synthesis	fatty acid biosynthetic process|aerobic respiration	enoyl-[acyl-carrier-protein] reductase activity	mitochondrion
YAR035C-A_p	YAR035C-A	hom			0.0280403222491627	0.104972721850959	1042	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching; predicted to have a role in cell budding based on computational guilt by association analysis	biological_process	molecular_function	cellular_component
YJR049C	UTR1	hom	FF|FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|COFACTOR METABOLISM|NUCLEUS	0.028028345633283	0.105121319660555	1043	ATP-NADH kinase; phosphorylates both NAD and NADH; active as a hexamer; enhances the activity of ferric reductase (Fre1p); UTR1 has a paralog, YEF1, that arose from the whole genome duplication	cellular iron ion homeostasis|NADP biosynthetic process	NAD+ kinase activity|NADH kinase activity	nucleus|cytoplasm
YCL032W	STE50	hom	FT	CELL CYCLE|SIGNALING	0.0280171121440554	0.105521595845118	1044	Protein involved in mating response, invasive/filamentous growth, and osmotolerance, acts as an adaptor that links G protein-associated Cdc42p-Ste20p complex to the effector Ste11p to modulate signal transduction	pheromone-dependent signal transduction involved in conjugation with cellular fusion|MAPK cascade involved in osmosensory signaling pathway|osmosensory signaling pathway via Sho1 osmosensor|signal transduction involved in filamentous growth|cellular response to heat	SAM domain binding|protein kinase regulator activity	cytoplasm
YLR025W	SNF7	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT	0.0279416556456241	0.106201892126413	1045	One of four subunits of the endosomal sorting complex required for transport III (ESCRT-III); involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway; recruited from the cytoplasm to endosomal membranes	cellular response to anoxia|intralumenal vesicle formation|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|late endosome to vacuole transport	protein binding	ESCRT III complex|cytoplasm
YDR387C_p	YDR387C	hom			0.0278071439843233	0.107895957636245	1046	Putative transporter, member of the sugar porter family; YDR387C is not an essential gene	transport|transmembrane transport	substrate-specific transmembrane transporter activity	integral to membrane|membrane
YNL233W	BNI4	hom	FT	PROTEIN LOCALIZATION|CELL DIVISION|CARBOHYDRATE METABOLISM|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.027762811531561	0.108458950731849	1047	Targeting subunit for Glc7p protein phosphatase, localized to the bud neck, required for localization of chitin synthase III to the bud neck via interaction with the chitin synthase III regulatory subunit Skt5p	asymmetric protein localization|barrier septum assembly|chitin biosynthetic process	protein binding	incipient cellular bud site|cellular bud neck septin collar|cellular bud neck|septin ring
YDR404C	RPB7	het	FF|FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|TRANSLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0277553485580311	0.108659743967077	1048	RNA polymerase II subunit B16; forms two subunit dissociable complex with Rpb4p; involved in recruitment of 3'-end processing factors to transcribing RNA polymerase II complex and in export of mRNA to cytoplasm under stress conditions; also involved in translation initiation	transcription initiation from RNA polymerase II promoter|positive regulation of translational initiation|positive regulation of nuclear-transcribed mRNA poly(A) tail shortening|nuclear-transcribed mRNA catabolic process, exonucleolytic|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|translation initiation factor binding|single-stranded RNA binding|single-stranded DNA binding	nucleus|DNA-directed RNA polymerase II, core complex|cytoplasmic mRNA processing body|cytoplasm
YPR085C	ASA1	het	FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0277541061616316	0.108569775663973	1049	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1	biological_process	molecular_function	ASTRA complex
YKL013C	ARC19	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.0277476341384881	0.108652226687826	1050	Subunit of the ARP2/3 complex, which is required for the motility and integrity of cortical actin patches	mitochondrion inheritance|actin cortical patch assembly	structural molecule activity	Arp2/3 protein complex
YGL048C	RPT6	het	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|PROTEOLYSIS|NUCLEUS	0.0276866020931997	0.109432188128133	1051	ATPase of the 19S regulatory particle of the 26S proteasome; one of six ATPases of the regulatory particle; involved in the degradation of ubiquitinated substrates; bound by ubiquitin-protein ligases Ubr1p and Ufd4p; localized mainly to the nucleus throughout the cell cycle; protein abundance increases in response to DNA replication stress	proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription elongation from RNA polymerase II promoter|positive regulation of sequence-specific DNA binding transcription factor activity|nucleotide-excision repair|proteasome regulatory particle assembly|positive regulation of RNA polymerase II transcriptional preinitiation complex assembly|negative regulation of sequence-specific DNA binding transcription factor activity|chromatin remodeling	ATPase activity|protein domain specific binding	proteasome regulatory particle, base subcomplex|proteasome storage granule|nucleus
YMR259C	TRM732	hom			0.0276645279720869	0.109715372308676	1052	Interacts with Trm7p for 2'-O-methylation of C32 of substrate tRNAs; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; non-essential gene	biological_process	molecular_function	cytoplasm
YJR072C	NPA3	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CHROMOSOME SEGREGATION	0.0275936057855876	0.110629137518948	1053	Member of the conserved GPN-loop GTPase family; has a role in transport of RNA polymerase II to the nucleus; exhibits GTP-dependent binding to PolII; has ATPase activity; involved in sister chromatid cohesion; phosphorylated by the Pcl1p-Pho85p kinase complex; human homolog XAB1 interacts with human RNA polymerase II; protein abundance increases in response to DNA replication stress	cellular protein complex localization|nucleocytoplasmic transport|mitotic sister chromatid cohesion	ATPase activity|GTPase activity	cytoplasm
YNR058W	BIO3	hom	FT	KETONE METABOLISM|COFACTOR METABOLISM	0.0275921713178424	0.110647681069812	1054	7,8-diamino-pelargonic acid aminotransferase (DAPA), catalyzes the second step in the biotin biosynthesis pathway; BIO3 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis	biotin biosynthetic process	adenosylmethionine-8-amino-7-oxononanoate transaminase activity	cytoplasm
YMR026C	PEX12	hom	FT	PROTEIN LOCALIZATION|PEROXISOME ORGANIZATION	0.027536370350403	0.111800018479985	1055	C3HC4-type RING-finger peroxin and E3 ubiquitin ligase, required for peroxisome biogenesis and peroxisomal matrix protein import; forms translocation subcomplex with Pex2p and Pex10p; mutations in human homolog cause peroxisomal disorder	protein import into peroxisome matrix	ubiquitin-protein ligase activity|protein binding	integral to peroxisomal membrane
YML058W-A	HUG1	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0275341214126312	0.111400160489415	1056	Protein involved in the Mec1p-mediated checkpoint pathway; transcription is induced by DNA damage; protein abundance increases in response to DNA replication stress	cell cycle arrest|cell cycle checkpoint|response to DNA damage stimulus	molecular_function	cytoplasm
YBL029W_p	YBL029W	hom	FT	NUCLEUS	0.0274634045479237	0.112322284537867	1057	Non-essential protein of unknown function	biological_process	molecular_function	nucleus|cytoplasm
YBR170C	NPL4	hom	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM|UBIQUITIN LIGASE COMPLEX	0.0274601911865453	0.112364328153036	1058	Substrate-recruiting cofactor of the Cdc48p-Npl4p-Ufd1p segregase; assists Cdc48p in the dislocation of misfolded, polyubiquitinated ERAD substrates that are subsequently delivered to the proteasome for degradation; also involved in the regulated destruction of resident ER membrane proteins, such as HMG-CoA reductase (Hmg1/2p) and cytoplasmic proteins (Fbp1p); role in mobilizing membrane bound transcription factors by regulated ubiquitin/proteasome-dependent processing (RUP)	retrograde protein transport, ER to cytosol|proteasomal ubiquitin-dependent protein catabolic process|mitochondria-associated protein catabolic process|mitotic spindle disassembly|ER-associated protein catabolic process|ER-associated misfolded protein catabolic process|Unknown|cytoplasm-associated proteasomal ubiquitin-dependent protein catabolic process	molecular_function	Doa10p ubiquitin ligase complex|integral to membrane|Cdc48p-Npl4p-Ufd1p AAA ATPase complex|Cdc48p-Npl4p-Vms1p AAA ATPase complex|nuclear outer membrane-endoplasmic reticulum membrane network
YEL053C	MAK10	hom			0.0274075744280273	0.11305453153208	1059	Non-catalytic subunit of N-terminal acetyltransferase of the NatC type, required for replication of dsRNA virus; expression is glucose-repressible	N-terminal protein amino acid acetylation	peptide alpha-N-acetyltransferase activity	NatC complex|cytoplasm
YNL317W	PFS2	het	FT	RNA PROCESSING|NUCLEUS	0.0273710932096294	0.113805458795755	1060	Integral subunit of the pre-mRNA cleavage and polyadenylation factor (CPF) complex; plays an essential role in mRNA 3'-end formation by bridging different processing factors and thereby promoting the assembly of the processing complex	mRNA cleavage|mRNA polyadenylation	RNA binding	mRNA cleavage and polyadenylation specificity factor complex
YPR156C	TPO3	hom	FT	PLASMA MEMBRANE	0.0273514643402394	0.113902435248171	1061	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; TPO3 has a paralog, TPO2, that arose from the whole genome duplication	spermine transport	spermine transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane|plasma membrane
YOR208W	PTP2	hom	FT	PROTEIN LOCALIZATION|SIGNALING|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0273225061777978	0.114177477952067	1062	Phosphotyrosine-specific protein phosphatase involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; localized to the nucleus	inactivation of MAPK activity involved in osmosensory signaling pathway|inactivation of MAPK activity involved in cell wall biogenesis|regulation of sporulation|regulation of protein localization|protein dephosphorylation	protein tyrosine phosphatase activity	nucleus
YPR012W_d	YPR012W	hom			0.0272869608793008	0.114757871090614	1063	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YPR012W is not an essential gene	Unknown	Unknown	Unknown
YJR005W	APL1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|PLASMA MEMBRANE	0.0272857493245436	0.114665395359798	1064	Beta-adaptin, large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport; similar to mammalian beta-chain of the clathrin associated protein complex	vesicle-mediated transport	molecular_function	AP-2 adaptor complex
YBR296C-A_p	YBR296C-A	hom			0.0272762170469495	0.114792196018679	1065	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YBR129C	OPY1	hom	FT	MITOCHONDRION	0.0271815867793696	0.11605697961857	1066	Protein of unknown function, overproduction blocks cell cycle arrest in the presence of mating pheromone; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion|cytoplasm
YJR050W	ISY1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0271656796014071	0.116489374286389	1067	Member of NineTeen Complex (NTC) that contains Prp19p and stabilizes U6 snRNA in catalytic forms of spliceosome containing U2, U5, and U6 snRNAs, interacts with Prp16p to modulate splicing fidelity; isy1 syf2 cells have defective spindles	generation of catalytic spliceosome for second transesterification step|mRNA 3'-splice site recognition	first spliceosomal transesterification activity|second spliceosomal transesterification activity	post-spliceosomal complex|Prp19 complex|post-mRNA release spliceosomal complex|U2-type catalytic step 2 spliceosome|U2-type catalytic step 1 spliceosome
YOR244W	ESA1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0271630423311825	0.116306113989843	1068	Catalytic subunit of the histone acetyltransferase complex (NuA4); acetylates four conserved internal lysines of histone H4 N-terminal tail and can acetylate histone H2A; required for cell cycle progression and transcriptional silencing at the rDNA locus and regulation of autophagy	DNA repair|histone acetylation|regulation of cell cycle|regulation of transcription by chromatin organization|DNA-dependent transcription, elongation|chromatin silencing at rDNA|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter	H4 histone acetyltransferase activity|histone acetyltransferase activity	Piccolo NuA4 histone acetyltransferase complex|NuA4 histone acetyltransferase complex
YIL060W_p	YIL060W	hom			0.0271470589696501	0.116521178418601	1069	Putative protein of unknown function; mutant accumulates less glycogen than does wild type; null mutation results in a decrease in plasma membrane electron transport; YIL060W is not an essential gene	biological_process	molecular_function	cellular_component
YGR082W	TOM20	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|RNA LOCALIZATION|MITOCHONDRION	0.0271229770978752	0.116845802024169	1070	Component of the TOM (translocase of outer membrane) complex responsible for recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins	tRNA import into mitochondrion|protein import into mitochondrial matrix|mitochondrial outer membrane translocase complex assembly	protein channel activity|mitochondrion targeting sequence binding	mitochondrial outer membrane|mitochondrion|integral to membrane|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex
YDR376W	ARH1	het	FT	KETONE METABOLISM|ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|ION HOMEOSTASIS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0271138539815175	0.116968966876824	1071	Oxidoreductase of the mitochondrial inner membrane, involved in cytoplasmic and mitochondrial iron homeostasis and required for activity of Fe-S cluster-containing enzymes; one of the few mitochondrial proteins essential for viability	ubiquinone biosynthetic process|cellular iron ion homeostasis	NADPH-adrenodoxin reductase activity	mitochondrion|mitochondrial inner membrane
YLR073C	RFU1	hom			0.0270639772584054	0.117644120099162	1072	Protein that inhibits Doa4p deubiquitinating activity; contributes to ubiquitin homeostasis by regulating the conversion of free ubiquitin chains to ubiquitin monomers by Doa4p; GFP-fusion protein localizes to endosomes	regulation of ubiquitin homeostasis	enzyme inhibitor activity	endosome
YOR255W	OSW1	hom	FT	CELL WALL ORG/BIOGENESIS	0.0270635006944202	0.117650585790685	1073	Protein involved in sporulation; required for the construction of the outer spore wall layers; required for proper localization of Spo14p	ascospore wall assembly|ascospore formation	molecular_function	prospore membrane
YHR038W	RRF1	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0270428547510298	0.117930963419495	1074	Mitochondrial ribosome recycling factor, essential for mitochondrial protein synthesis and for the maintenance of the respiratory function of mitochondria	mitochondrial translation	translation release factor activity	mitochondrion
YBR221W-A_p	YBR221W-A	hom			0.027004196117663	0.118512478901289	1075	Putative protein of unknown function; identified by expression profiling and mass spectrometry	biological_process	molecular_function	cellular_component
YLR146C	SPE4	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|COFACTOR METABOLISM	0.0269618983248876	0.119035432597721	1076	Spermine synthase, required for the biosynthesis of spermine and also involved in biosynthesis of pantothenic acid	pantothenate biosynthetic process|spermine biosynthetic process	spermine synthase activity	cytoplasm
YOL001W	PHO80	hom	FF|FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|CELL CYCLE|SIGNALING|ION HOMEOSTASIS|PROTEIN PHOSPHORYLATION|ION HOMEOSTASIS|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0269424361540908	0.119302154833346	1077	Cyclin, interacts with cyclin-dependent kinase Pho85p; regulates the response to nutrient levels and environmental conditions, including the response to phosphate limitation and stress-dependent calcium signaling	negative regulation of phosphate metabolic process|regulation of cyclin-dependent protein kinase activity|negative regulation of calcium-mediated signaling|negative regulation of transcription from RNA polymerase II promoter|cellular metal ion homeostasis|regulation of protein localization|negative regulation of macroautophagy	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex|nucleus
YBR280C	SAF1	hom	FT	PROTEOLYSIS|UBIQUITIN LIGASE COMPLEX	0.0269153552137996	0.119784840403604	1078	F-Box protein involved in proteasome-dependent degradation of Aah1p during entry of cells into quiescence; interacts with Skp1	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity	SCF ubiquitin ligase complex
YLR095C	IOC2	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS	0.0267602057069315	0.121822324442726	1079	Member of a complex (Isw1b) with Isw1p and Ioc4p that exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing, contains a PHD finger motif	chromatin remodeling	protein binding|nucleosome binding|ATPase activity|DNA binding	ISW1 complex
YKL125W	RRN3	het	FT	NUCLEUS	0.0266231494077279	0.123745019822193	1080	Protein required for transcription of rDNA by RNA polymerase I; transcription factor independent of DNA template; involved in recruitment of RNA polymerase I to rDNA; structure reveals unique HEAT repeat fold and a surface serine patch; phosphorylation of serine patch impairs cell growth and reduces RNA polymerase I binding in vitro and RNA polymerase I recruitment to the rDNA gene in vivo	transcription initiation from RNA polymerase I promoter for nuclear large rRNA transcript	core RNA polymerase I binding transcription factor activity|RNA polymerase I transcription factor binding transcription factor activity|RNA polymerase I transcription factor binding|RNA polymerase I core binding	nucleolus
YPR108W-A_p	YPR108W-A	hom			0.026524073518034	0.125319197083711	1081	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YMR090W_p	YMR090W	hom			0.0264664420652208	0.125972308619601	1082	Putative protein of unknown function with similarity to DTDP-glucose 4,6-dehydratases; GFP-fusion protein localizes to the cytoplasm; up-regulated in response to the fungicide mancozeb; not essential for viability	biological_process	molecular_function	cytoplasm
YGR276C	RNH70	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0264417072605887	0.126497018871447	1083	3'-5' exoribonuclease; required for maturation of 3' ends of 5S rRNA and tRNA-Arg3 from dicistronic transcripts	U5 snRNA 3'-end processing|generation of mature 3'-end of 5S rRNA generated by RNA polymerase III|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|tRNA 3'-trailer cleavage, exonucleolytic	3'-5'-exoribonuclease activity|3'-5' exonuclease activity	nucleus
YNL264C	PDR17	hom	FT	LIPID METABOLISM	0.0264416046153709	0.12632817244297	1084	Phosphatidylinositol transfer protein (PITP), downregulates Plb1p-mediated turnover of phosphatidylcholine, found in the cytosol and microsomes, homologous to Pdr16p, deletion affects phospholipid composition	Golgi to plasma membrane protein transport|phosphatidylserine metabolic process|response to drug|sterol biosynthetic process|Unknown|phospholipid transport|phospholipid biosynthetic process	phosphatidylinositol transporter activity|phosphatidylcholine transporter activity	endosome|cell periphery|cytosol|cytoplasm
YBR171W	SEC66	hom	FF|FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0264336861506373	0.126612178020614	1085	Non-essential subunit of Sec63 complex (Sec63p, Sec62p, Sec66p and Sec72p); with Sec61 complex, Kar2p/BiP and Lhs1p forms a channel competent for SRP-dependent and post-translational SRP-independent protein targeting and import into the ER	posttranslational protein targeting to membrane, translocation|filamentous growth	protein transporter activity	integral to membrane|Sec62/Sec63 complex|endoplasmic reticulum membrane
YDR151C	CTH1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|NUCLEUS	0.0264281457056223	0.126521334445238	1086	Member of the CCCH zinc finger family; has similarity to mammalian Tis11 protein, which activates transcription and also has a role in mRNA degradation; may function with Tis11p in iron homeostasis	nuclear-transcribed mRNA catabolic process|cellular iron ion homeostasis	mRNA binding	nucleus
YPR087W_d	VPS69	hom			0.0264184890488608	0.126887482865412	1087	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 85% of ORF overlaps the verified gene SRP54; deletion causes a vacuolar protein sorting defect	Unknown	Unknown	Unknown
YOR206W	NOC2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.0263712100827398	0.127626033495121	1088	Protein that forms a nucleolar complex with Mak21p that binds to 90S and 66S pre-ribosomes, as well as a nuclear complex with Noc3p that binds to 66S pre-ribosomes; both complexes mediate intranuclear transport of ribosomal precursors	ribosomal subunit export from nucleus|ribosome assembly	molecular_function	mitochondrion|nucleus|Noc2p-Noc3p complex|Noc1p-Noc2p complex
YER125W	RSP5	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|PROTEIN COMPLEX ORG/BIOGENESIS|LIPID METABOLISM|MEMBRANE ORGANIZATION|RNA PROCESSING|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|PROTEOLYSIS|MITOCHONDRION ORGAN	0.0263075401555395	0.128262536370389	1089	E3 ubiquitin ligase of the NEDD4 family; involved in regulating many cellular processes including MVB sorting, heat shock response, transcription, endocytosis, and ribosome stability; human homolog is involved in Liddle syndrome; mutant tolerates aneuploidy; ubiquitylates Sec23p	cellular response to UV|late endosome to vacuole transport via multivesicular body sorting pathway|chromatin assembly or disassembly|response to drug|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|ubiquitin-dependent endocytosis|protein monoubiquitination|positive regulation of fatty acid biosynthetic process|positive regulation of receptor-mediated endocytosis|regulation of phosphate metabolic process|regulation of ubiquinone biosynthetic process|regulation of dolichol biosynthetic process|regulation of multivesicular body size|positive regulation of transcription from RNA polymerase II promoter|regulation of nitrogen utilization|proteasomal ubiquitin-dependent protein catabolic process|positive regulation of endocytosis|regulation of actin cytoskeleton organization|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|regulation of protein localization|mitochondrion organization|regulation of mRNA export from nucleus|regulation of ergosterol biosynthetic process|ribophagy|Unknown|protein polyubiquitination	ubiquitin binding|ubiquitin-protein ligase activity|phosphatidylinositol binding	mitochondrion|ubiquitin ligase complex|Golgi apparatus|cytoplasm|cellular bud tip|endosome membrane|extrinsic to internal side of plasma membrane|plasma membrane|nucleus
YDL020C	RPN4	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|PROTEOLYSIS|NUCLEUS	0.0262895809541318	0.129153938290938	1090	Transcription factor that stimulates expression of proteasome genes; Rpn4p levels are in turn regulated by the 26S proteasome in a negative feedback control mechanism; RPN4 is transcriptionally regulated by various stress responses; relative distribution to the nucleus increases upon DNA replication stress	positive regulation of proteasomal ubiquitin-dependent protein catabolic process|positive regulation of transcription from RNA polymerase II promoter in response to arsenic-containing substance|regulation of DNA repair|negative regulation of transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter in response to stress|positive regulation of transcription from RNA polymerase II promoter in response to stress|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus
YHR031C	RRM3	hom	FT	RESPONSE TO DNA DAMAGE|MITOCHONDRION ORGANIZATION|NUCLEUS|CHROMOSOME	0.0262140718798271	0.130027071419694	1091	DNA helicase involved in rDNA replication and Ty1 transposition; relieves replication fork pauses at telomeric regions; structurally and functionally related to Pif1p	mitochondrial genome maintenance|replication fork progression beyond termination site|DNA replication	ATP-dependent DNA helicase activity|DNA helicase activity	nuclear telomeric heterochromatin|replication fork
YPL131W	RPL5	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0261023301608724	0.13184629466861	1092	Ribosomal 60S subunit protein L5; homologous to mammalian ribosomal protein L5 and bacterial L18; binds 5S rRNA and is required for 60S subunit assembly	cytoplasmic translation|ribosomal large subunit assembly	structural constituent of ribosome|RNA binding	cytosolic large ribosomal subunit
YLL002W	RTT109	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0260683834107181	0.132059606973674	1093	Histone acetyltransferase critical for cell survival in the presence of DNA damage during S phase; acetylates H3-K56 and H3-K9; involved in non-homologous end joining and in regulation of Ty1 transposition; interacts physically with Vps75p	negative regulation of transposition, RNA-mediated|histone acetylation|double-strand break repair via nonhomologous end joining|response to DNA damage stimulus|regulation of transcription from RNA polymerase II promoter in response to stress	H3 histone acetyltransferase activity	nucleus
YER133W	GLC7	het	FF|FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA PROCESSING|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|CELL DIVISION|CARBOHYDRATE METABOLISM	0.0260397300029328	0.132369239531136	1094	Type 1 serine/threonine protein phosphatase catalytic subunit; involved in various processes including glycogen metabolism, sporulation, mitosis; accumulates at mating projections by interaction with Afr1p; interacts with many regulatory subunits; involved in regulation of the nucleocytoplasmic shuttling of Hxk2p; import into nucleus is inhibited during spindle assembly checkpoint arrest	replication fork processing|glycogen metabolic process|chromosome segregation|regulation of cell shape during vegetative growth phase|termination of RNA polymerase II transcription, poly(A)-coupled|protein dephosphorylation|mitotic cell cycle spindle assembly checkpoint|rRNA processing|regulation of cell cycle|ascospore formation|protein localization to kinetochore|cell budding|DNA damage checkpoint|meiosis|termination of RNA polymerase II transcription, exosome-dependent|DNA replication checkpoint|response to heat|cellular ion homeostasis|histone dephosphorylation|regulation of carbohydrate metabolic process	protein serine/threonine phosphatase activity	protein phosphatase type 1 complex|mating projection base|condensed nuclear chromosome kinetochore|mRNA cleavage and polyadenylation specificity factor complex|nucleolus|spindle pole body|cellular bud neck
YDL130W-A	STF1	hom	FT	NUCLEOTIDE METABOLISM|MITOCHONDRION	0.0260289816147351	0.132355266589073	1095	Protein involved in regulation of the mitochondrial F1F0-ATP synthase; Stf1p and Stf2p act as stabilizing factors that enhance inhibitory action of the Inh1p protein; protein abundance increases in response to DNA replication stress	negative regulation of ATPase activity	molecular_function	mitochondrion|mitochondrial proton-transporting ATP synthase complex
YBR155W	CNS1	het			0.0259926778482437	0.132896026228293	1096	TPR-containing co-chaperone; binds both Hsp82p (Hsp90) and Ssa1p (Hsp70) and stimulates the ATPase activity of SSA1, ts mutants reduce Hsp82p function while over expression suppresses the phenotypes of an HSP82 ts allele and a cpr7 deletion	protein folding	Hsp70 protein binding|Hsp90 protein binding	cytoplasm
YFL017W-A	SMX2	het	FT	RNA PROCESSING|NUCLEUS	0.0259560152120848	0.133443864974691	1097	Core Sm protein Sm G; part of heteroheptameric complex (with Smb1p, Smd1p, Smd2p, Smd3p, Sme1p, and Smx3p) that is part of the spliceosomal U1, U2, U4, and U5 snRNPs; homolog of human Sm G	mRNA splicing, via spliceosome	molecular_function	U1 snRNP|U2-type prespliceosome|U4/U6 x U5 tri-snRNP complex|U5 snRNP
YDL090C	RAM1	hom	FF|FT	PROTEIN PRENYLATION	0.025953031895005	0.134715235784709	1098	Beta subunit of the CAAX farnesyltransferase (FTase) that prenylates the a-factor mating pheromone and Ras proteins; required for the membrane localization of Ras proteins and a-factor; homolog of the mammalian FTase beta subunit	protein farnesylation	protein farnesyltransferase activity	protein farnesyltransferase complex
YOL037C_d	YOL037C	hom			0.0258955378769181	0.134409666843429	1099	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOL036W	Unknown	Unknown	Unknown
YER122C	GLO3	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|NUCLEOTIDE METABOLISM|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0258541625089762	0.135033395128161	1100	ADP-ribosylation factor GTPase activating protein (ARF GAP), involved in ER-Golgi transport; shares functional similarity with Gcs1p	retrograde vesicle-mediated transport, Golgi to ER|COPI coating of Golgi vesicle|ER to Golgi vesicle-mediated transport	ARF GTPase activator activity	COPI-coated vesicle|endoplasmic reticulum-Golgi intermediate compartment|COPI vesicle coat
YCL042W_p	YCL042W	hom			0.0258413283857079	0.135285793019936	1101	Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm	biological_process	molecular_function	cytoplasm
YPL179W	PPQ1	hom	FT	TRANSLATION	0.0257782799696294	0.136124502951069	1102	Putative protein serine/threonine phosphatase; null mutation enhances efficiency of translational suppressors	protein dephosphorylation|regulation of translation	protein serine/threonine phosphatase activity	cytoplasm
YKR053C	YSR3	hom	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0257249952124859	0.136936197744376	1103	Dihydrosphingosine 1-phosphate phosphatase; membrane protein involved in sphingolipid metabolism; YSR3 has a paralog, LCB3, that arose from the whole genome duplication	phospholipid dephosphorylation|sphingolipid biosynthetic process	sphingosine-1-phosphate phosphatase activity	integral to membrane|endoplasmic reticulum
YGR285C	ZUO1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|MITOCHONDRION|RIBOSOME	0.025684196234091	0.137560213743364	1104	Ribosome-associated chaperone, functions in ribosome biogenesis and, in partnership with Ssz1p and SSb1/2, as a chaperone for nascent polypeptide chains; contains a DnaJ domain and functions as a J-protein partner for Ssb1p and Ssb2p	protein folding|ribosomal subunit export from nucleus|rRNA processing|regulation of translational fidelity	unfolded protein binding	mitochondrion|ribosome|nucleolus|polysome|cytoplasm
YMR183C	SSO2	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.0256427611584211	0.138196199566762	1105	Plasma membrane t-SNARE involved in fusion of secretory vesicles at the plasma membrane; syntaxin homolog that is functionally redundant with Sso1p	Golgi to plasma membrane transport|ascospore-type prospore assembly|vesicle fusion	phosphatidic acid binding|SNAP receptor activity	endoplasmic reticulum|plasma membrane|prospore membrane|cytoplasm
YEL023C_p	YEL023C	hom			0.0256226090008317	0.138683564053208	1106	Putative protein of unknown function; expression is increased greatly during sporulation; YEL023C is not an essential gene	biological_process	molecular_function	cellular_component
YOR190W	SPR1	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM	0.0255920889228482	0.138977041999692	1107	Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance	ascospore formation	glucan exo-1,3-beta-glucosidase activity	fungal-type cell wall|ascospore wall
YOR106W	VAM3	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|RESPONSE TO NUTRIENT LEVELS	0.0255665224265164	0.139372300098606	1108	Syntaxin-like vacuolar t-SNARE that functions with Vam7p in vacuolar protein trafficking; mediates docking/fusion of late transport intermediates with the vacuole; has an acidic di-leucine sorting signal and C-terminal transmembrane region	autophagic vacuole fusion|vesicle fusion with vacuole|piecemeal microautophagy of nucleus|vacuole fusion, non-autophagic|vesicle docking|vesicle fusion	protein homodimerization activity|SNAP receptor activity	SNARE complex|fungal-type vacuole membrane
YOL052C-A	DDR2	hom			0.0254826077140736	0.140675702054605	1109	Multi-stress response protein; expression is activated by a variety of xenobiotic agents and environmental or physiological stresses; DDR2 has a paralog, HOR7, that arose from the whole genome duplication	response to stress	molecular_function	fungal-type vacuole|cytoplasm
YER171W	RAD3	het	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0253649324125043	0.142519243822398	1110	5' to 3' DNA helicase; involved in nucleotide excision repair and transcription; subunit of RNA polII initiation factor TFIIH and of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPD protein; mutant has aneuploidy tolerance; protein abundance increases in response to DNA replication stress	regulation of transposition, RNA-mediated|phosphorylation of RNA polymerase II C-terminal domain|nucleotide-excision repair, DNA incision|regulation of mitotic recombination|transcription from RNA polymerase II promoter	damaged DNA binding|ATP-dependent 5'-3' DNA helicase activity|core RNA polymerase binding transcription factor activity	core TFIIH complex|holo TFIIH complex|nucleotide-excision repair factor 3 complex
YBR214W	SDS24	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CELL DIVISION	0.025304692049506	0.143470136506169	1111	Protein involved in cell separation during budding; one of two S. cerevisiae homologs (Sds23p and Sds24p) of the S. pombe Sds23 protein, which is implicated in APC/cyclosome regulation; may play an indirect role in fluid-phase endocytosis; protein abundance increases in response to DNA replication stress; SDS24 has a paralog, SDS23, that arose from the whole genome duplication	endocytosis|cytokinetic cell separation	molecular_function	cytoplasm
YOL086W-A	MHF1	hom	FT	RESPONSE TO DNA DAMAGE	0.0253015947709585	0.143519158137998	1112	Component of the heterotetrameric MHF histone-fold complex; in humans the MMF complex interacts with both DNA and Mph1p ortholog FANCM, a Fanconi anemia complementation group protein, to stabilize and remodel blocked replication forks and repair damaged DNA; mhf1 srs2 double mutants are MMS hypersensitive; ortholog of human centromere constitutive-associated network (CCAN) subunit CENP-S, also known as MHF1	response to DNA damage stimulus	molecular_function	cellular_component
YLR083C	EMP70	hom	FT	VESICLE-MEDIATED TRANSPORT|ION HOMEOSTASIS|ION HOMEOSTASIS|VACUOLAR TRANSPORT	0.0252810998282397	0.143843861936406	1113	Protein with a role in cellular adhesion, filamentous growth, and endosome-to-vacuole sorting; similar to Tmn2p and Tmn3p; member of Transmembrane Nine family of proteins with 9 transmembrane segments	cellular copper ion homeostasis|vacuolar transport|pseudohyphal growth|endosomal transport|invasive growth in response to glucose limitation	molecular_function	endosome|fungal-type vacuole membrane|integral to membrane
YEL001C	IRC22	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0252765213482863	0.14391647621954	1114	Putative protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; YEL001C is non-essential; null mutant displays increased levels of spontaneous Rad52p foci	biological_process	molecular_function	endoplasmic reticulum
YMR013C	SEC59	het	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0252718388266463	0.143990769650443	1115	Dolichol kinase, catalyzes the terminal step in dolichyl monophosphate (Dol-P) biosynthesis; required for viability and for normal rates of lipid intermediate synthesis and protein N-glycosylation	protein glycosylation	dolichol kinase activity	integral to membrane|endoplasmic reticulum membrane
YCR049C_d	YCR049C	hom			0.0252572388152933	0.144222603820969	1116	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YNL275W	BOR1	hom	FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|ION HOMEOSTASIS|VACUOLAR TRANSPORT|PLASMA MEMBRANE	0.0252524790097697	0.14429824675244	1117	Boron efflux transporter of the plasma membrane; binds HCO3-, I-, Br-, NO3- and Cl-; has similarity to the characterized boron efflux transporter A. thaliana BOR1	borate transport|protein targeting to vacuole	borate efflux transmembrane transporter activity	integral to membrane|plasma membrane|fungal-type vacuole
YIL161W_p	YIL161W	hom			0.0252462573034125	0.144577473140597	1118	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; mRNA is enriched in Scp160p-associated mRNPs; YIL161W is a non-essential gene	biological_process	molecular_function	cytoplasm
YOR076C	SKI7	hom	FT	TRANSLATION|NUCLEOTIDE METABOLISM	0.0252354755189461	0.144568714852846	1119	Coupling protein that mediates interactions between the Ski complex and the cytoplasmic exosome during 3'-5' RNA degradation; eRF3-like domain targets nonstop mRNA for degradation; null mutants have superkiller phenotype	nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|nuclear-transcribed mRNA catabolic process, non-stop decay|nonfunctional rRNA decay	protein binding, bridging	Ski complex|cytoplasmic exosome (RNase complex)|cytoplasm
YOR332W	VMA4	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0251131454046171	0.146949634398156	1120	Subunit E of the V1 domain of the vacuolar H+-ATPase (V-ATPase); V-ATPase is an electrogenic proton pump found throughout the endomembrane system; V1 domain has eight subunits; required for the V1 domain to assemble onto the vacuolar membrane; protein abundance increases in response to DNA replication stress	vacuolar acidification	proton-transporting ATPase activity, rotational mechanism	vacuolar proton-transporting V-type ATPase, V1 domain|fungal-type vacuole membrane|integral to membrane
YPL117C	IDI1	het	FT	LIPID METABOLISM|NUCLEUS	0.0251041178340326	0.146671275978045	1121	Isopentenyl diphosphate:dimethylallyl diphosphate isomerase (IPP isomerase), catalyzes an essential activation step in the isoprenoid biosynthetic pathway; required for viability	farnesyl diphosphate biosynthetic process	isopentenyl-diphosphate delta-isomerase activity	nucleus|cytoplasm
YOR042W	CUE5	hom			0.025085199600583	0.146976004776474	1122	Protein containing a CUE domain that binds ubiquitin, which may facilitate intramolecular monoubiquitination; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern	biological_process	ubiquitin binding	cytoplasm
YML114C	TAF8	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0250143924563575	0.14812083982012	1123	TFIID subunit (65 kDa), involved in RNA polymerase II transcription initiation	RNA polymerase II transcriptional preinitiation complex assembly|transcription from RNA polymerase II promoter	RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	nucleus|transcription factor TFIID complex
YDR414C	ERD1	hom	FT	PROTEIN LOCALIZATION|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0249685464125217	0.1488657187854	1124	Predicted membrane protein required for the retention of lumenal endoplasmic reticulum proteins; mutants secrete the endogenous ER protein, BiP (Kar2p)	protein retention in ER lumen|protein glycosylation	molecular_function	integral to membrane|membrane
YBR161W	CSH1	hom	FT	LIPID METABOLISM	0.0249367475974966	0.149384043424585	1125	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Sur1p; CSH1 has a paralog, SUR1, that arose from the whole genome duplication	glycosphingolipid biosynthetic process|sphingolipid biosynthetic process	mannosyltransferase activity|transferase activity, transferring glycosyl groups	integral to membrane|fungal-type vacuole
YDR516C	EMI2	hom	FT	TRANSCRIPTION FROM RNA POL II|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0248991397364356	0.150426396568322	1126	Non-essential protein of unknown function; required for transcriptional induction of the early meiotic-specific transcription factor IME1; required for sporulation; expression regulated by glucose-repression transcription factors Mig1/2p; EMI2 has a paralog, GLK1, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress	ascospore formation|positive regulation of transcription from RNA polymerase II promoter	molecular_function	cytoplasm
YNL286W	CUS2	hom	FT	RNA PROCESSING|NUCLEUS	0.0248609387126015	0.150992290385867	1127	Protein that binds to U2 snRNA and Prp11p, may be involved in U2 snRNA folding; contains two RNA recognition motifs (RRMs)	mRNA splicing, via spliceosome	RNA binding	U2 snRNP
YJR010C-A	SPC1	hom	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0248256254352488	0.151206162432638	1128	Subunit of the signal peptidase complex (SPC); SPC cleaves the signal sequence from proteins targeted to the endoplasmic reticulum (ER); homolog of the SPC12 subunit of mammalian signal peptidase complex; protein abundance increases in response to DNA replication stress	signal peptide processing|protein targeting to ER	molecular_function	signal peptidase complex
YLR371W	ROM2	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|CELL WALL ORG/BIOGENESIS|NUCLEOTIDE METABOLISM|SITE OF POLARIZED GROWTH	0.0248246489622426	0.151222248776947	1129	GDP/GTP exchange factor (GEF) for Rho1p and Rho2p; mutations are synthetically lethal with mutations in rom1, which also encodes a GEF; Rom2p localization to the bud surface is dependent on Ack1p	regulation of fungal-type cell wall organization|positive regulation of endocytosis|establishment of cell polarity|small GTPase mediated signal transduction|negative regulation of cAMP-mediated signaling|activation of Rho GTPase activity	phosphatidylinositol-4,5-bisphosphate binding|Rho guanyl-nucleotide exchange factor activity|signal transducer activity	incipient cellular bud site|mating projection tip|cellular bud tip
YJL072C	PSF2	het	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0248151635975471	0.1514397941887	1130	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p), which is localized to DNA replication origins and implicated in assembly of the DNA replication machinery	double-strand break repair via break-induced replication|DNA-dependent DNA replication	molecular_function	GINS complex|replication fork protection complex|nuclear replication fork|nucleus|DNA replication preinitiation complex
YER017C	AFG3	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0247518262799999	0.152425600843661	1131	Component, with Yta12p, of the mitochondrial inner membrane m-AAA protease; mediates degradation of misfolded or unassembled proteins and is also required for correct assembly of mitochondrial enzyme complexes; involved in cytoplasmic mRNA translation and aging	proteolysis|signal peptide processing|protein complex assembly|protein import into mitochondrial intermembrane space	metallopeptidase activity|protein binding|ATPase activity	mitochondrion|mitochondrial inner boundary membrane|mitochondrial inner membrane|m-AAA complex
YPL085W	SEC16	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0247046861790725	0.153208438621774	1132	COPII vesicle coat protein required for ER transport vesicle budding; Sec16p is bound to the periphery of ER membranes and may act to stabilize initial COPII complexes; interacts with Sec23p, Sec24p and Sec31p	COPII vesicle coating	protein anchor	ER to Golgi transport vesicle membrane
YOR380W	RDR1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0246969080525253	0.153645799083018	1133	Transcriptional repressor involved in the control of multidrug resistance; negatively regulates expression of the PDR5 gene; member of the Gal4p family of zinc cluster proteins	response to xenobiotic stimulus	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YLR042C_p	YLR042C	hom			0.0246693358439908	0.153797490915545	1134	Protein of unknown function; localizes to the cytoplasm; YLL042C is not an essential gene	biological_process	molecular_function	fungal-type cell wall
YCR095C_p	OCA4	hom			0.0246667700165612	0.153840312892784	1135	Cytoplasmic protein required for replication of Brome mosaic virus in S. cerevisiae, which is a model system for studying replication of positive-strand RNA viruses in their natural hosts	biological_process	molecular_function	cytoplasm
YEL043W	YEL043W	hom	FT	ENDOPLASMIC RETICULUM	0.0246639351667069	0.153887635211027	1136	Predicted cytoskeleton protein involved in intracellular signalling based on quantitative analysis of protein-protein interaction maps; may interact with ribosomes, based on co-purification studies; contains fibronectin type III domain fold	biological_process	molecular_function	ribosome|endoplasmic reticulum
YPL267W	ACM1	hom	FT	CELL CYCLE|CELL DIVISION|NUCLEUS	0.0246113885395431	0.154766802935278	1137	Pseudosubstrate inhibitor of the anaphase-promoting complex/cyclosome (APC/C), that suppresses APC/C [Cdh1]-mediated proteolysis of mitotic cyclins; associates with Cdh1p, Bmh1p and Bmh2p; cell cycle regulated protein	negative regulation of ubiquitin-protein ligase activity involved in mitotic cell cycle	ubiquitin-protein ligase inhibitor activity	nucleus|cytoplasm
YGL127C	SOH1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0245969112472284	0.155009694055447	1138	Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; involved in telomere maintenance; conserved with other metazoan MED31 subunits	DNA repair|meiotic gene conversion|meiotic sister chromatid segregation|transcription from RNA polymerase II promoter	molecular_function	core mediator complex|nucleus
YKL176C	LST4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM	0.0245656326263954	0.155535455278132	1139	Protein possibly involved in a post-Golgi secretory pathway; required for the transport of nitrogen-regulated amino acid permease Gap1p from the Golgi to the cell surface	intracellular protein transport|vesicle-mediated transport|protein transport|Golgi to plasma membrane transport	protein transporter activity	vesicle coat
YKL106C-A_p	YKL106C-A	hom			0.0245646660715856	0.156047420393282	1140	Putative protein of unknown function; identified by homology to uncharacterized proteins in other fungi	biological_process	molecular_function	cellular_component
YBR297W	MAL33	hom	FT	TRANSCRIPTION FROM RNA POL II|CARBOHYDRATE METABOLISM|NUCLEUS	0.0245621402294821	0.155594242718188	1141	MAL-activator protein, part of complex locus MAL3; nonfunctional in genomic reference strain S288C	cellular carbohydrate metabolic process|regulation of transcription, DNA-dependent	sequence-specific DNA binding transcription factor activity	nucleus
YHR022C-A_p	YHR022C-A	hom			0.0245402772605915	0.155962644729749	1142	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YMR004W	MVP1	hom	FT	PROTEIN LOCALIZATION|VACUOLAR TRANSPORT|NUCLEUS	0.0245212995956853	0.15628296393543	1143	Protein required for sorting proteins to the vacuole; Mvp1p and Vps1p act in concert to promote membrane traffic to the vacuole; participates in transcription initiation and/or early elongation of specific genes; interacts with foot domain of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions; protein abundance increases in response to DNA replication stress	protein targeting to vacuole	phosphatidylinositol-3-phosphate binding	nucleus|cytoplasm
YOR026W	BUB3	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0245127426178475	0.156489554976578	1144	Kinetochore checkpoint WD40 repeat protein that localizes to kinetochores during prophase and metaphase, delays anaphase in the presence of unattached kinetochores; forms complexes with Mad1p-Bub1p and with Cdc20p, binds Mad2p and Mad3p	mitotic cell cycle G2/M transition decatenation checkpoint|mitotic cell cycle spindle assembly checkpoint	ubiquitin binding	mitotic checkpoint complex|condensed nuclear chromosome kinetochore
YIL069C	RPS24B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|RIBOSOME	0.0244374335123382	0.157766681901726	1145	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S24, no bacterial homolog; RPS24B has a paralog, RPS24A, that arose from the whole genome duplication	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	cytosolic small ribosomal subunit
YPL065W	VPS28	hom	FF|FT	PROTEIN LOCALIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT	0.02441764555682	0.158041322512407	1146	Component of the ESCRT-I complex (Stp22p, Srn2p, Vps28p, and Mvb12p), which is involved in ubiquitin-dependent sorting of proteins into the endosome; conserved C-terminal domain interacts with ESCRT-III subunit Vps20p	protein targeting to membrane|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|protein targeting to vacuole	protein complex binding	endosome|ESCRT I complex
YBL042C	FUI1	hom	FF|FT	PLASMA MEMBRANE	0.0243762727404455	0.158747326687314	1147	High affinity uridine permease, localizes to the plasma membrane; also mediates low but significant transport of the cytotoxic nucleoside analog 5-fluorouridine; not involved in uracil transport; relative distribution to the vacuole increases upon DNA replication stress	uridine transport|transmembrane transport	uridine transmembrane transporter activity	integral to membrane|plasma membrane
YNL022C_p	YNL022C	hom	FT	NUCLEUS	0.024371825156597	0.158823364058559	1148	Putative cytosine 5-methyltransferase, contains seven beta-strand methyltransferase motif similar to NOP2/YNL061W; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; predicted to be involved in ribosome biogenesis	biological_process	tRNA (cytosine-5-)-methyltransferase activity	nucleus
YPL060W	MFM1	hom	FT	RNA PROCESSING|ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0243650110976087	0.158939912914989	1149	Mitochondrial inner membrane magnesium transporter, involved in maintenance of mitochondrial magnesium concentrations and membrane potential; indirectly affects splicing of group II introns; functionally and structurally related to Mrs2p	mitochondrial magnesium ion transport	magnesium ion transmembrane transporter activity	integral to membrane|mitochondrial inner membrane
YML034W	SRC1	hom	FF|FT	CELL CYCLE|CHROMOSOME SEGREGATION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.0242970228391829	0.160356677483402	1150	Inner nuclear membrane protein; functions in regulation of subtelomeric genes and is linked to TREX (transcription export) factors; SRC1 produces 2 splice variant proteins with different functions; alternative splicing of SRC1 pre-mRNA is promoted by Hub1p; mutant has aneuploidy tolerance	maintenance of rDNA|mitotic sister chromatid segregation	molecular_function	nuclear envelope
YEL050C	RML2	hom	FF|FT	KETONE METABOLISM|LIPID METABOLISM|TRANSLATION|MITOCHONDRION|RIBOSOME	0.0242656899662668	0.160646070876364	1151	Mitochondrial ribosomal protein of the large subunit, has similarity to E. coli L2 ribosomal protein; fat21 mutant allele causes inability to utilize oleate and may interfere with activity of the Adr1p transcription factor	cytoplasmic translation|fatty acid metabolic process	structural constituent of ribosome	mitochondrial large ribosomal subunit
YOR091W	TMA46	hom	FT	TRANSLATION	0.0241642359362524	0.162403113866379	1152	Protein of unknown function that associates with translating ribosomes; interacts with GTPase Rbg1p	cytoplasmic translation	molecular_function	polysomal ribosome|ribosome|cytoplasm
YJL059W	YHC3	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|VACUOLAR TRANSPORT	0.0240732426217441	0.163991285898613	1153	Vacuolar membrane protein involved in the ATP-dependent transport of arginine into the vacuole and possibly in balancing ion homeostasis; homolog of human CLN3 involved in Batten disease (juvenile onset neuronal ceroid lipofuscinosis)	basic amino acid transport|regulation of intracellular pH|arginine transport	molecular_function	integral to membrane|fungal-type vacuole
YPR084W_p	YPR084W	hom			0.0239815261301994	0.166111238454483	1154	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YGL232W	TAN1	hom	FT	RNA PROCESSING|NUCLEUS	0.023974958587887	0.165719818130663	1155	Putative tRNA acetyltransferase; RNA-binding protein required for the formation of the modified nucleoside N(4)-acetylcytidine in serine and leucine tRNAs but not required for the same modification in 18S rRNA; protein abundance increases in response to DNA replication stress	tRNA modification	RNA binding	nucleus|cytoplasm
YOR215C	AIM41	hom	FT	MITOCHONDRION	0.0239647140366343	0.165900775747419	1156	Putative protein of unknown function; the authentic protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays reduced frequency of mitochondrial genome loss	biological_process	molecular_function	mitochondrion
YGL249W	ZIP2	hom	FT	CELL CYCLE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0239471779511667	0.166401172931356	1157	Meiosis-specific protein; involved in normal synaptonemal complex formation and pairing between homologous chromosomes during meiosis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress	synaptonemal complex assembly|synapsis|reciprocal meiotic recombination	molecular_function	synaptonemal complex
YBL030C	PET9	het	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0239412532118201	0.166506084305579	1158	Major ADP/ATP carrier of the mitochondrial inner membrane; exchanges cytosolic ADP for mitochondrially synthesized ATP; also imports heme and ATP; phosphorylated; required for viability in many lab strains that carry a sal1 mutation; PET9 has a paralog, AAC3, that arose from the whole genome duplication	heme transport|transmembrane transport|aerobic respiration|anaerobic respiration|ATP transport|ADP transport|apoptotic process|mitochondrial transport	ATP:ADP antiporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YJR079W_p	YJR079W	hom			0.0239205386662903	0.167382474060355	1159	Putative protein of unknown function; mutation results in impaired mitochondrial respiration	biological_process	molecular_function	cellular_component
YOL040C	RPS15	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RNA LOCALIZATION|RIBOSOME	0.0239141948654682	0.16679530917209	1160	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15 and bacterial S19	cytoplasmic translation|rRNA export from nucleus	structural constituent of ribosome	cytosolic small ribosomal subunit
YML092C	PRE8	het	FF|FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION	0.0238662061183395	0.167839274239357	1161	Alpha 2 subunit of the 20S proteasome	proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	molecular_function	mitochondrion|proteasome core complex, alpha-subunit complex|proteasome storage granule|nucleus|nuclear outer membrane-endoplasmic reticulum membrane network
YKL048C	ELM1	hom	FT	CELL CYCLE|CELL DIVISION|CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0238650429072358	0.167923687992489	1162	Serine/threonine protein kinase that regulates cellular morphogenesis, septin behavior, and cytokinesis; required for the regulation of other kinases, such as Kin4p; forms part of the bud neck ring	positive regulation of protein autophosphorylation|protein autophosphorylation|cell morphogenesis|budding cell bud growth|protein phosphorylation|response to drug|septin checkpoint|pseudohyphal growth|glucose metabolic process|axial cellular bud site selection|response to osmotic stress|cytokinesis	protein serine/threonine kinase activity|protein kinase activity	cellular bud neck contractile ring
YJL202C_d	YJL202C	het			0.0238542026288569	0.16786228139691	1163	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 3' end of essential PRP21 gene encoding a subunit of the SF3a splicing factor complex	Unknown	Unknown	Unknown
YIL146C	ATG32	hom	FT	CELL WALL ORG/BIOGENESIS|MITOCHONDRION	0.0238098919137363	0.168653638629794	1164	Mitochondrial outer membrane protein required to initiate mitophagy; recruits the autophagy adaptor protein Atg11p and the ubiquitin-like protein Atg8p to the mitochondrial surface to initiate mitophagy, the selective vacuolar degradation of mitochondria in response to starvation; can promote pexophagy when placed ectopically in the peroxisomal membrane	fungal-type cell wall organization|mitochondrion degradation	molecular_function	integral to mitochondrial outer membrane
YOR165W	SEY1	hom	FT	MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0237451632316193	0.169814670995355	1165	Dynamin-like GTPase that mediates homotypic ER fusion; has a role in ER morphology; interacts physically and genetically with Yop1p and Rtn1p; functional ortholog of the human atlastin ATL1, defects in which cause a form of the human disease hereditary spastic paraplegia; homolog of Arabidopsis RHD3	cellular membrane organization|endoplasmic reticulum organization|endoplasmic reticulum membrane fusion|endoplasmic reticulum inheritance	GTPase activity	integral to membrane|endoplasmic reticulum|cortical endoplasmic reticulum|cytoplasm
YDR169C-A_p	YDR169C-A	hom			0.0237288807866416	0.170107668295837	1166	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YFL031W	HAC1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|SIGNALING|NUCLEUS	0.0237203349098828	0.170261600037507	1167	Basic leucine zipper (bZIP) transcription factor (ATF/CREB1 homolog); regulates the unfolded protein response, via UPRE binding, and membrane biogenesis; ER stress-induced splicing pathway facilitates efficient Hac1p synthesis; protein abundance increases in response to DNA replication stress	endoplasmic reticulum unfolded protein response|positive regulation of transcription from RNA polymerase II promoter involved in unfolded protein response|negative regulation of transcription from RNA polymerase II promoter during meiosis|positive regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus
YML024W	RPS17A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0236881471147724	0.170842316083055	1168	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17A has a paralog, RPS17B, that arose from the whole genome duplication	cytoplasmic translation|ribosomal small subunit assembly	structural constituent of ribosome	cytosolic small ribosomal subunit
YNL327W	EGT2	hom	FT	CELL CYCLE|CELL DIVISION	0.0236859407083885	0.170882177200734	1169	Glycosylphosphatidylinositol (GPI)-anchored cell wall endoglucanase required for proper cell separation after cytokinesis, expression is activated by Swi5p and tightly regulated in a cell cycle-dependent manner	cytokinesis	cellulase activity	fungal-type cell wall|cellular bud|cell septum
YML011C	RAD33	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.023678980492542	0.171007966653631	1170	Protein involved in nucleotide excision repair; green fluorescent protein (GFP)-fusion protein localizes to the nucleus	nucleotide-excision repair	molecular_function	nucleus
YBR194W	AIM4	hom			0.0236583718155154	0.171701584190741	1171	Protein proposed to be associated with the nuclear pore complex; null mutant is viable, displays elevated frequency of mitochondrial genome loss and is sensitive to freeze-thaw stress	biological_process	molecular_function	cytoplasm
YPL028W	ERG10	het	FT	LIPID METABOLISM	0.0236445591802432	0.171631069693183	1172	Acetyl-CoA C-acetyltransferase (acetoacetyl-CoA thiolase), cytosolic enzyme that transfers an acetyl group from one acetyl-CoA molecule to another, forming acetoacetyl-CoA; involved in the first step in mevalonate biosynthesis	ergosterol biosynthetic process	acetyl-CoA C-acetyltransferase activity	cytosol
YML043C	RRN11	het	FT	NUCLEUS	0.02361621385912	0.172145457714903	1173	Component of the core factor (CF) rDNA transcription factor complex; CF is required for transcription of 35S rRNA genes by RNA polymerase I and is composed of Rrn6p, Rrn7p, and Rrn11p	transcription initiation from RNA polymerase I promoter|transcription of nuclear large rRNA transcript from RNA polymerase I promoter	TBP-class protein binding|RNA polymerase I CORE element sequence-specific DNA binding|RNA polymerase I CORE element sequence-specific DNA binding transcription factor recruiting transcription factor activity	RNA polymerase I core factor complex
YGL093W	SPC105	het	FF|FT	PROTEIN LOCALIZATION|CELL CYCLE|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0235678562080074	0.1731543186861	1174	Subunit of a kinetochore-microtubule binding complex with Kre28p that bridges centromeric heterochromatin and kinetochore MAPs and motors; required for sister chromatid bi-orientation and kinetochore binding of SAC components	microtubule nucleation|protein localization to kinetochore|sister chromatid biorientation|mitotic cell cycle spindle assembly checkpoint	microtubule binding|structural constituent of cytoskeleton	mitochondrion|condensed nuclear chromosome kinetochore|spindle pole body
YGR018C_p	YGR018C	hom			0.0235265244886742	0.173780663244261	1175	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps the uncharacterized ORF YGR017W	biological_process	molecular_function	cellular_component
YKL115C_d	YKL115C	hom			0.0234882812052867	0.174481426846926	1176	Dubious open reading frame, unlikely to encode a protein; partially overlaps the verified gene PRR1	Unknown	Unknown	Unknown
YFR035C_p	YFR035C	hom			0.0234776371004175	0.174676842325727	1177	Putative protein of unknown function, deletion mutant exhibits synthetic phenotype with alpha-synuclein	biological_process	molecular_function	cellular_component
YJR047C	ANB1	hom	FT	KETONE METABOLISM|PROTEIN COMPLEX ORG/BIOGENESIS|AMINO ACID METABOLISM|TRANSLATION|RIBOSOME	0.023457405086602	0.175048732692461	1178	Translation elongation factor eIF-5A; previously thought to function in translation initiation; undergoes an essential hypusination modification; expressed under anaerobic conditions; ANB1 has a paralog, HYP2, that arose from the whole genome duplication	translational frameshifting|positive regulation of translational termination|positive regulation of translational elongation	ribosome binding|RNA binding|translation elongation factor activity	cytosolic ribosome
YML029W	USA1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|UBIQUITIN LIGASE COMPLEX	0.0233995315902564	0.176245207685833	1179	Scaffold subunit of the Hrd1p ubiquitin ligase that also promotes ligase oligomerization; involved in ER-associated protein degradation (ERAD); interacts with the U1 snRNP-specific protein, Snp1p	ER-associated protein catabolic process|mRNA splicing, via spliceosome|positive regulation of protein oligomerization	protein complex scaffold	Hrd1p ubiquitin ligase ERAD-L complex|endoplasmic reticulum membrane
YDR130C	FIN1	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0233621798082004	0.176807029892595	1180	Spindle pole body-related intermediate filament protein; forms cell cycle-specific filaments between spindle pole bodies in dividing cells; localizes to poles and microtubules of spindle during anaphase and contributes to spindle stability; involved in Glc7p localization and regulation; relative distribution to the nucleus increases upon DNA replication stress	intermediate filament cytoskeleton organization|mitotic cell cycle spindle checkpoint|mitotic spindle stabilization|mitotic sister chromatid segregation	microtubule binding|structural constituent of cytoskeleton	spindle microtubule|condensed nuclear chromosome kinetochore|intermediate filament|nucleus|spindle pole body|astral microtubule|spindle
YJL110C	GZF3	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0233154430138962	0.177674803757519	1181	GATA zinc finger protein; negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source; dimerizes with Dal80p and binds to Tor1p; GZF3 has a paralog, DAL80, that arose from the whole genome duplication	maintenance of protein location in nucleus|nitrogen catabolite repression of transcription|negative regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding RNA polymerase II transcription factor activity|sequence-specific DNA binding	nucleus
YGL088W_d	YGL088W	hom			0.023315380660775	0.177675963597131	1182	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps snR10, a snoRNA required for preRNA processing	Unknown	Unknown	Unknown
YOL012C	HTZ1	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0232871624268035	0.178201433624097	1183	Histone variant H2AZ, exchanged for histone H2A in nucleosomes by the SWR1 complex; involved in transcriptional regulation through prevention of the spread of silent heterochromatin	nuclear-transcribed mRNA catabolic process, non-stop decay|regulation of transcription from RNA polymerase II promoter|chromatin silencing at silent mating-type cassette	chromatin binding	nuclear chromatin|chromatin assembly complex
YGR098C	ESP1	het	FT	CELL CYCLE|LIPID METABOLISM|PROTEOLYSIS|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|MITOCHONDRION|CYTOSKELETON	0.0232600885198751	0.17870668025119	1184	Separase, a caspase-like cysteine protease; promotes sister chromatid separation by mediating dissociation of the cohesin Scc1p from chromatin; inhibits protein phosphatase 2A-Cdc55p to promote mitotic exit; inhibited by Pds1p; relative distribution to the nucleus increases upon DNA replication stress	regulation of exit from mitosis|regulation of mitotic spindle elongation|negative regulation of protein phosphatase type 2A activity|apoptotic process|mitotic sister chromatid segregation	cysteine-type endopeptidase activity	mitochondrion|nucleus|cytoplasm|spindle
YJL076W	NET1	het	FT	CELL CYCLE|CELL DIVISION|GENE SILENCING|NUCLEUS	0.0231498652690251	0.180774637830005	1185	Core subunit of the RENT complex; involved in nucleolar silencing and telophase exit; stimulates transcription by RNA polymerase I and regulates nucleolar structure; NET1 has a paralog, TOF2, that arose from the whole genome duplication	regulation of exit from mitosis|nucleolus organization|chromatin silencing at rDNA	rDNA binding	nucleolus|RENT complex
YJR133W	XPT1	hom	FT	NUCLEOTIDE METABOLISM	0.0230837032217647	0.182286247511432	1186	Xanthine-guanine phosphoribosyl transferase, required for xanthine utilization and for optimal utilization of guanine	XMP salvage|hypoxanthine metabolic process	xanthine phosphoribosyltransferase activity|hypoxanthine phosphoribosyltransferase activity	cytoplasm
YNR057C	BIO4	hom	FT	KETONE METABOLISM|COFACTOR METABOLISM	0.0230737370127659	0.18221325633831	1187	Dethiobiotin synthetase, catalyzes the third step in the biotin biosynthesis pathway; BIO4 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; expression appears to be repressed at low iron levels	biotin biosynthetic process	dethiobiotin synthase activity	cytoplasm
YJR135C	MCM22	hom	FT	CELL CYCLE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0230414422106738	0.18282609819968	1188	Outer kinetochore protein and component of the Ctf3 subcomplex; binds to centromeric DNA in a Ctf19p-dependent manner; involved in chromosome segregation and minichromosome maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-K and fission yeast sim4	chromosome segregation|establishment of mitotic sister chromatid cohesion	molecular_function	condensed nuclear chromosome kinetochore
YPL210C	SRP72	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0230066917923158	0.183487243353388	1189	Core component of the signal recognition particle (SRP) ribonucleoprotein (RNP) complex that functions in targeting nascent secretory proteins to the endoplasmic reticulum (ER) membrane	SRP-dependent cotranslational protein targeting to membrane, signal sequence recognition|protein targeting to ER	signal sequence binding	signal recognition particle, endoplasmic reticulum targeting
YDR436W	PPZ2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0230036692183153	0.183544833011919	1190	Serine/threonine protein phosphatase Z, isoform of Ppz1p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance	cellular sodium ion homeostasis	protein serine/threonine phosphatase activity	cellular_component
YNL006W	LST8	het	FT	SIGNALING|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS|PLASMA MEMBRANE	0.0229955046031422	0.183700461829558	1191	Protein required for the transport of amino acid permease Gap1p from the Golgi to the cell surface; component of the TOR signaling pathway; associates with both Tor1p and Tor2p; contains a WD-repeat	transport|TOR signaling cascade|fungal-type cell wall organization|signal transduction|regulation of cell growth|establishment or maintenance of actin cytoskeleton polarity|mitochondria-nucleus signaling pathway	protein kinase activator activity|protein binding	TORC1 complex|TORC2 complex|endosome membrane|extrinsic to internal side of plasma membrane|Golgi membrane
YKL192C	ACP1	het	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0229726762392805	0.184136120334704	1192	Mitochondrial matrix acyl carrier protein, involved in biosynthesis of octanoate, which is a precursor to lipoic acid; activated by phosphopantetheinylation catalyzed by Ppt2p	lipoate biosynthetic process	ACP phosphopantetheine attachment site binding involved in fatty acid biosynthetic process	mitochondrion
YJL034W	KAR2	het	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|ENDOPLASMIC RETICULUM	0.0229682888742067	0.184219936723397	1193	ATPase involved in protein import into the ER, also acts as a chaperone to mediate protein folding in the ER and may play a role in ER export of soluble proteins; regulates the unfolded protein response via interaction with Ire1p	karyogamy involved in conjugation with cellular fusion|posttranslational protein targeting to membrane, translocation|ER-associated protein catabolic process|SRP-dependent cotranslational protein targeting to membrane, translocation|response to unfolded protein	unfolded protein binding|ATPase activity	endoplasmic reticulum|luminal surveillance complex
YNL142W	MEP2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0229160599262936	0.185483165177767	1194	Ammonium permease involved in regulation of pseudohyphal growth; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation	nitrogen utilization|ammonium transport|pseudohyphal growth	ammonium transmembrane transporter activity	integral to membrane|plasma membrane
YBL032W	HEK2	hom	FT	CHROMATIN ORGANIZATION|TRANSLATION|RNA LOCALIZATION|NUCLEUS|CHROMOSOME	0.0228778443015814	0.185954088642296	1195	RNA binding protein involved in the asymmetric localization of ASH1 mRNA; represses translation of ASH1 mRNA, an effect reversed by Yck1p-dependent phosphoryation; regulates telomere position effect and length; similarity to hnRNP-K	telomere maintenance via telomerase|intracellular mRNA localization|mRNA stabilization	mRNA binding	nuclear chromosome, telomeric region|cytoplasmic mRNA processing body|cytoplasm
YDR520C_p	URC2	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEOTIDE METABOLISM|NUCLEUS	0.0228744747523057	0.186282562086701	1196	Putative Zn(II)2Cys6 motif containing transcription factor; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription; similar to S. kluyveri Urc2p involved in uracil catabolism	uracil catabolic process	sequence-specific DNA binding	nucleus|cytoplasm
YOL061W	PRS5	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM	0.0228714327105275	0.186077478508448	1197	5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase; synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes; forms cytoplasmic foci upon DNA replication stress	fungal-type cell wall organization|5-phosphoribose 1-diphosphate biosynthetic process	ribose phosphate diphosphokinase activity	cytoplasm
YFL012W_p	YFL012W	hom			0.0228441305166064	0.18660358137343	1198	Putative protein of unknown function; transcribed during sporulation; null mutant exhibits increased resistance to rapamycin	biological_process	molecular_function	cellular_component
YJL112W	MDV1	hom	FT	MITOCHONDRION ORGANIZATION|PEROXISOME ORGANIZATION|MITOCHONDRION	0.0228404220304541	0.186675127139943	1199	Peripheral protein of cytosolic face of mitochondrial outer membrane; required for mitochondrial fission; interacts with Fis1p and with the dynamin-related GTPase Dnm1p; contains WD repeats; MDV1 has a paralog, CAF4, that arose from the whole genome duplication	peroxisome fission|mitochondrial fission|mitochondrial genome maintenance	ubiquitin binding	mitochondrial outer membrane|mitochondrion
YMR119W-A_d	YMR119W-A	hom			0.0228023560442151	0.188936078610033	1200	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YBR217W	ATG12	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS	0.0227805284487258	0.188362740285187	1201	Conserved ubiquitin-like modifier involved in autophagy and the Cvt pathway; conjugated to Atg5p to form a complex involved in Atg8p lipidation; Atg12p-Atg5p also forms a complex with Atg16p that is required for autophagosome formation	C-terminal protein lipidation|piecemeal microautophagy of nucleus|mitochondrion degradation|CVT pathway|autophagic vacuole assembly	Atg8 ligase activity|protein tag	Atg12-Atg5-Atg16 complex|pre-autophagosomal structure
YGR064W_d	YGR064W	hom	FF		0.0227717260894768	0.188004105023969	1202	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SPT4/YGR063C	Unknown	Unknown	Unknown
YDR489W	SLD5	het	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0226917394644403	0.189560288087231	1203	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p), which is localized to DNA replication origins and implicated in assembly of the DNA replication machinery	double-strand break repair via break-induced replication|DNA-dependent DNA replication	molecular_function	GINS complex|replication fork protection complex|DNA replication preinitiation complex
YPL272C_p	YPL272C	hom			0.0226829905971456	0.190062724794848	1204	Putative protein of unknown function; gene expression induced in response to ketoconazole; YPL272C is not an essential gene	biological_process	molecular_function	cellular_component
YDL195W	SEC31	het	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|SITE OF POLARIZED GROWTH	0.0226826258949037	0.189738197870587	1205	Component of the Sec13p-Sec31p complex of the COPII vesicle coat, required for vesicle formation in ER to Golgi transport; mutant has increased aneuploidy tolerance	COPII-coated vesicle budding	structural molecule activity	COPII vesicle coat|mating projection tip
YMR272W-B_p	YMR272W-B	hom			0.0226771568249435	0.189845020884976	1206	Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YML124C	TUB3	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|NUCLEOTIDE METABOLISM|CHROMOSOME SEGREGATION|NUCLEUS|CYTOSKELETON	0.0226655918519359	0.190137368493139	1207	Alpha-tubulin; associates with beta-tubulin (Tub2p) to form tubulin dimer, which polymerizes to form microtubules; expressed at lower level than Tub1p; TUB3 has a paralog, TUB1, that arose from the whole genome duplication	nuclear migration along microtubule|nuclear migration involved in conjugation with cellular fusion|homologous chromosome segregation|mitotic sister chromatid segregation	structural constituent of cytoskeleton	tubulin complex|cytoplasmic microtubule|kinetochore microtubule|nuclear microtubule|spindle pole body|polar microtubule
YDL180W_p	YDL180W	hom			0.0226610326869121	0.190160218667851	1208	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole	biological_process	molecular_function	integral to membrane|fungal-type vacuole
YLR342W-A_p	YLR342W-A	hom			0.0225824117673103	0.191702636076052	1209	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YKL018C-A_p	YKL018C-A	hom			0.0225722406826421	0.191902846609703	1210	Putative protein of unknown function; identified by homology; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm	biological_process	molecular_function	cytoplasm
YDR149C_d	YDR149C	hom			0.0224642210289708	0.194038627552179	1211	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps the verified gene NUM1; null mutation blocks anaerobic growth	Unknown	Unknown	Unknown
YER006W	NUG1	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0224626526822557	0.194069765071963	1212	GTPase that associates with nuclear 60S pre-ribosomes, required for export of 60S ribosomal subunits from the nucleus	ribosomal large subunit export from nucleus|rRNA processing	RNA binding|GTPase activity	nucleolus|nucleus|preribosome, large subunit precursor
YCR009C	RVS161	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|RESPONSE TO NUTRIENT LEVELS|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0224537737088724	0.194379642077009	1213	Amphiphysin-like lipid raft protein; interacts with Rvs167p and regulates polarization of the actin cytoskeleton, endocytosis, cell polarity, cell fusion and viability following starvation or osmotic stress	conjugation with cellular fusion|actin cytoskeleton reorganization|endocytosis|actin cortical patch localization|response to starvation|response to osmotic stress|lipid tube assembly|actin cytoskeleton organization	cytoskeletal protein binding|lipid binding	membrane raft|mating projection tip|mating projection|actin cortical patch
YDR524C-B_p	YDR524C-B	hom	FT	PLASMA MEMBRANE	0.0224246385767269	0.194825608246379	1214	Putative protein of unknown function; YDR524C-B has a paralog, YCL048W-A, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YDL101C	DUN1	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0224044321929428	0.195228253917491	1215	Cell-cycle checkpoint serine-threonine kinase required for DNA damage-induced transcription of certain target genes, phosphorylation of Rad55p and Sml1p, and transient G2/M arrest after DNA damage; also regulates postreplicative DNA repair	protein phosphorylation|replication fork protection|cell cycle checkpoint|DNA damage checkpoint	protein kinase activity	nucleus
YKL134C	OCT1	hom	FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.0223945633593632	0.195425128319858	1216	Mitochondrial intermediate peptidase, cleaves destabilizing N-terminal residues of a subset of proteins upon import, after their cleavage by mitochondrial processing peptidase (Mas1p-Mas2p); may contribute to mitochondrial iron homeostasis	cellular iron ion homeostasis|protein processing involved in protein targeting to mitochondrion	metalloendopeptidase activity	mitochondrion
YNL131W	TOM22	het	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.022368096881816	0.195953829093983	1217	Component of the TOM (translocase of outer mitochondrial membrane) complex responsible for initial import of mitochondrially directed proteins; acts as a receptor for precursor proteins and mediates interaction between TOM and TIM complexes	protein import into mitochondrial matrix|protein import into mitochondrial outer membrane	protein channel activity	mitochondrial outer membrane|mitochondrion|integral to membrane|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex
YIL035C	CKA1	hom	FT	RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0223588847452599	0.196138098551719	1218	Alpha catalytic subunit of casein kinase 2 (CK2), a Ser/Thr protein kinase with roles in cell growth and proliferation; CK2, comprised of CKA1, CKA2, CKB1 and CKB2, has many substrates including transcription factors and all RNA polymerases; regulates Fkh1p-mediated donor preference during mating-type switching	regulation of transcription from RNA polymerase I promoter|protein phosphorylation|regulation of transcription from RNA polymerase III promoter|response to DNA damage stimulus	protein serine/threonine kinase activity|protein kinase activity	protein kinase CK2 complex|UTP-C complex
YDR515W	SLF1	hom	FT	TRANSLATION|ION HOMEOSTASIS|ION HOMEOSTASIS	0.0223382457410858	0.196551399115445	1219	RNA binding protein that associates with polysomes; may be involved in regulating mRNA translation; involved in the copper-dependent mineralization of copper sulfide complexes on cell surface in cells cultured in copper salts; SLF1 has a paralog, SRO9, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress	cellular copper ion homeostasis|regulation of translation	RNA binding	polysome|cytoplasm
YGL139W	FLC3	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0223131441984254	0.197390357536879	1220	Putative FAD transporter, similar to Flc1p and Flc2p; localized to the ER	FAD transport|transmembrane transport	FAD transmembrane transporter activity	mitochondrion|integral to membrane|endoplasmic reticulum
YOR347C	PYK2	hom	FT	KETONE METABOLISM|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0222718381245143	0.197885551879322	1221	Pyruvate kinase; appears to be modulated by phosphorylation; transcription repressed by glucose, and Pyk2p may be active under low glycolytic flux; PYK2 has a paralog, CDC19, that arose from the whole genome duplication	pyruvate metabolic process	pyruvate kinase activity	cytosol|mitochondrion
YMR102C_p	YMR102C	hom			0.0222266210720946	0.198797760626795	1222	Protein of unknown function; transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in multidrug resistance; mutant shows increased resistance to azoles; YMR102C is not an essential gene	biological_process	molecular_function	cellular_component
YBR162C	TOS1	hom			0.0221942300976167	0.199924543494681	1223	Covalently-bound cell wall protein of unknown function; identified as a cell cycle regulated SBF target gene; deletion mutants are highly resistant to treatment with beta-1,3-glucanase; has sequence similarity to YJL171C	biological_process	molecular_function	fungal-type cell wall|fungal-type vacuole
YDR298C	ATP5	hom	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|MITOCHONDRION	0.0221219339408071	0.200921502402933	1224	Subunit 5 of the stator stalk of mitochondrial F1F0 ATP synthase, which is an evolutionarily conserved enzyme complex required for ATP synthesis; homologous to bovine subunit OSCP (oligomycin sensitivity-conferring protein); phosphorylated	ATP synthesis coupled proton transport	hydrogen ion transporting ATP synthase activity, rotational mechanism|proton-transporting ATPase activity, rotational mechanism	mitochondrion|integral to membrane|mitochondrial proton-transporting ATP synthase, stator stalk|mitochondrial proton-transporting ATP synthase complex
YHR069C	RRP4	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|RNA LOCALIZATION|NUCLEUS	0.0220480980080254	0.20263203339654	1225	Exosome non-catalytic core component; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; predicted to contain RNA binding domains; has similarity to human hRrp4p (EXOSC2)	nuclear polyadenylation-dependent tRNA catabolic process|nuclear polyadenylation-dependent rRNA catabolic process|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|nuclear polyadenylation-dependent mRNA catabolic process|nonfunctional rRNA decay|U4 snRNA 3'-end processing|nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'|nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription|polyadenylation-dependent snoRNA 3'-end processing|nuclear-transcribed mRNA catabolic process, non-stop decay|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	nuclear exosome (RNase complex)|cytoplasmic exosome (RNase complex)
YML006C	GIS4	hom	FT	SIGNALING|ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0220307623909367	0.2027844991465	1226	CAAX box containing protein of unknown function, proposed to be involved in the RAS/cAMP signaling pathway	cellular ion homeostasis|intracellular signal transduction	molecular_function	plasma membrane
YHR037W	PUT2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.0220139049310216	0.20353643713765	1227	Delta-1-pyrroline-5-carboxylate dehydrogenase, nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; deficiency of the human homolog causes HPII, an autosomal recessive inborn error of metabolism	glutamate biosynthetic process|proline catabolic process to glutamate	1-pyrroline-5-carboxylate dehydrogenase activity	mitochondrion|mitochondrial matrix
YLR336C	SGD1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0219448973845441	0.204550533750415	1228	Essential nuclear protein, required for biogenesis of the small ribosomal subunit; has a possible role in the osmoregulatory glycerol response; putative homolog of human NOM1 which is implicated in acute myeloid leukemia	ribosomal small subunit biogenesis|hyperosmotic response	molecular_function	nucleolus|nucleus|FAl1-SGD1 complex
YLR110C	CCW12	hom	FF|FT	CELL WALL ORG/BIOGENESIS|SITE OF POLARIZED GROWTH	0.0219241669686341	0.205182017568455	1229	Cell wall mannoprotein; plays a role in maintenance of newly synthesized areas of cell wall; localizes to periphery of small buds, septum region of larger buds, and shmoo tip; CCW12 has a paralog, YDR134C, that arose from the whole genome duplication	conjugation with cellular fusion|agglutination involved in conjugation with cellular fusion|fungal-type cell wall organization	molecular_function	fungal-type cell wall|mating projection tip|cellular bud tip
YMR300C	ADE4	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEOTIDE METABOLISM	0.0218838572248835	0.20622033106066	1230	Phosphoribosylpyrophosphate amidotransferase (PRPPAT; amidophosphoribosyltransferase), catalyzes first step of the 'de novo' purine nucleotide biosynthetic pathway	'de novo' IMP biosynthetic process	amidophosphoribosyltransferase activity	cytoplasm
YKL003C	MRP17	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0218710284153105	0.20607876426605	1231	Mitochondrial ribosomal protein of the small subunit; MRP17 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial small ribosomal subunit
YPR064W_d	YPR064W	hom			0.0218663215230279	0.206176422502664	1232	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YPL123C	RNY1	hom			0.0218364170155682	0.206865613598234	1233	Vacuolar RNase of the T(2) family, relocalizes to the cytosol where it cleaves tRNAs upon oxidative or stationary phase stress; promotes apoptosis under stress conditions and this function is independent of its catalytic activity	cell morphogenesis|RNA catabolic process|apoptotic process	endoribonuclease activity	cytosol|extracellular region|vacuole
YJR074W	MOG1	hom	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|NUCLEUS	0.021823355240961	0.207137410970809	1234	Conserved nuclear protein that interacts with GTP-Gsp1p, which is a Ran homolog of the Ras GTPase family, and stimulates nucleotide release, involved in nuclear protein import, nucleotide release is inhibited by Yrb1p	protein import into nucleus	Ran GTPase binding	nucleus
YMR274C	RCE1	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0218035976230765	0.207821336350354	1235	Type II CAAX prenyl protease involved in the proteolysis and maturation of Ras and the a-factor mating pheromone	CAAX-box protein processing|peptide pheromone maturation|protein processing	metalloendopeptidase activity	integral to endoplasmic reticulum membrane|integral to membrane
YML106W	URA5	hom	FT	NUCLEOTIDE METABOLISM|NUCLEUS	0.0218024502964368	0.207504940328153	1236	Major orotate phosphoribosyltransferase (OPRTase) isozyme; catalyzes the fifth enzymatic step in de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; URA5 has a paralog, URA10, that arose from the whole genome duplication	'de novo' pyrimidine nucleobase biosynthetic process|pyrimidine ribonucleoside biosynthetic process	orotate phosphoribosyltransferase activity	nucleus|cytoplasm
YGL247W	BRR6	het	FT	PROTEIN LOCALIZATION|LIPID METABOLISM|MEMBRANE ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.0217976538741766	0.207604955634176	1237	Essential nuclear envelope integral membrane protein required for nuclear envelope morphology, nuclear pore complex localization, nuclear export; exhibits synthetic lethal genetic interactions with genes involved in lipid metabolism	mRNA export from nucleus|protein export from nucleus|cellular lipid metabolic process	molecular_function	nuclear envelope
YHR146W	CRP1	hom	FT	NUCLEUS	0.0217695351689994	0.208191991822074	1238	Protein that binds to cruciform DNA structures	biological_process	DNA binding	nucleus
YAL024C	LTE1	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|SIGNALING|CELL DIVISION	0.0216376746512789	0.211645189892086	1239	Protein similar to GDP/GTP exchange factors but without detectable GEF activity; required for asymmetric localization of Bfa1p at daughter-directed spindle pole bodies and for mitotic exit at low temperatures	regulation of exit from mitosis|mitotic cell cycle spindle orientation checkpoint|vesicle-mediated transport	guanyl-nucleotide exchange factor activity	cellular bud
YDR184C	ATC1	hom	FT	CELL CYCLE|CELL DIVISION|NUCLEUS	0.0216123116716149	0.211496533348341	1240	Nuclear protein; possibly involved in regulation of cation stress responses and/or in the establishment of bipolar budding pattern; relative distribution to the nucleus decreases upon DNA replication stress	bipolar cellular bud site selection|response to stress	molecular_function	nucleus
YER008C	SEC3	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|SITE OF POLARIZED GROWTH	0.021611948238143	0.211709363242862	1241	Subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to sites of exocytosis prior to SNARE-mediated fusion; PtdIns[4,5]P2-binding protein that localizes to exocytic sites in a Rho1p-dependent, actin-independent manner, targeting and anchoring the exocyst to the plasma membrane with Exo70p; direct GTP Rho1p effector; required for ER inheritance; relocalizes away from bud neck upon DNA replication stress	exocytosis|Golgi to plasma membrane transport|endoplasmic reticulum inheritance|exocyst localization|exocyst assembly|vesicle fusion|vesicle docking involved in exocytosis	Rho GTPase binding|phosphatidylinositol-4,5-bisphosphate binding	incipient cellular bud site|cellular bud neck|mating projection tip|exocyst|cellular bud tip
YJL103C	GSM1	hom	FT	TRANSCRIPTION FROM RNA POL II|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS	0.0215761241075875	0.212262464348978	1242	Putative zinc cluster protein of unknown function; proposed to be involved in the regulation of energy metabolism, based on patterns of expression and sequence analysis	oxidative phosphorylation	sequence-specific DNA binding|DNA binding	cellular_component
YDR530C	APA2	hom	FT	NUCLEOTIDE METABOLISM|NUCLEUS	0.0215378673267017	0.213074367426216	1243	Diadenosine 5',5'''-P1,P4-tetraphosphate phosphorylase II; AP4A phosphorylase involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; APA2 has a paralog, APA1, that arose from the whole genome duplication	nucleoside catabolic process	bis(5'-nucleosyl)-tetraphosphatase activity	nucleus|cytoplasm
YJL170C	ASG7	hom	FT	ENDOMEMBRANE SYSTEM|PLASMA MEMBRANE	0.0214956115774396	0.213973740283965	1244	Protein that regulates signaling from a G protein beta subunit Ste4p and its relocalization within the cell; specific to a-cells and induced by alpha-factor	conjugation with cellular fusion	molecular_function	plasma membrane
YEL010W_d	YEL010W	hom			0.0214518928638328	0.214907128471791	1245	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YPR119W	CLB2	hom	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|NUCLEUS|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0213411930461713	0.217283661763108	1246	B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome	G2/M transition of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity|positive regulation of spindle pole body separation	cyclin-dependent protein kinase regulator activity	nucleus|spindle pole body|cellular bud neck|spindle|cytoplasm
YCR024C-A	PMP1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0213347316837735	0.217422957296302	1247	Regulatory subunit for the plasma membrane H(+)-ATPase Pma1p; small single-membrane span proteolipid; forms unique helix and positively charged cytoplasmic domain that is able to specifically segregate phosphatidylserines; PMP1 has a paralog, PMP2, that arose from the whole genome duplication	cation transport	enzyme regulator activity	plasma membrane|membrane
YGL021W	ALK1	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION	0.0212965207516428	0.218730870908816	1248	Protein kinase; accumulation and phosphorylation are periodic during the cell cycle; phosphorylated in response to DNA damage; contains characteristic motifs for degradation via the APC pathway; ALK1 has a paralog, ALK2, that arose from the whole genome duplication; similar to mammalian haspins	mitosis|protein phosphorylation	protein serine/threonine kinase activity|protein kinase activity	cellular_component
YOR341W	RPA190	het	FT	NUCLEUS	0.0212783542269854	0.218847946364462	1249	RNA polymerase I largest subunit A190	transcription of nuclear large rRNA transcript from RNA polymerase I promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase I complex|nucleolus
YLR404W	FLD1	hom	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0212235436730569	0.219830036988771	1250	Seipin protein involved in lipid droplet morphology, number, and size; proposed to be involved in lipid metabolism; related to the human BSCL2 which is associated with lipodystrophy	lipid particle organization	molecular_function	integral to membrane|endoplasmic reticulum|cortical endoplasmic reticulum
YGR138C	TPO2	hom	FT	PLASMA MEMBRANE	0.0211915619257551	0.220802373737075	1251	Polyamine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; specific for spermine; localizes to the plasma membrane; transcription of TPO2 is regulated by Haa1p; TPO2 has a paralog, TPO3, that arose from the whole genome duplication	spermine transport	spermine transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane|plasma membrane
YOL146W	PSF3	het	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0210923559568348	0.222694593959266	1252	Subunit of the GINS complex (Sld5p, Psf1p, Psf2p, Psf3p), which is localized to DNA replication origins and implicated in assembly of the DNA replication machinery	double-strand break repair via break-induced replication|DNA-dependent DNA replication	molecular_function	replication fork protection complex|GINS complex|DNA replication preinitiation complex
YDR509W_d	YDR509W	hom			0.0210846260667706	0.22286420974734	1253	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YML007W	YAP1	hom	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0210814468345321	0.223349886452281	1254	Basic leucine zipper (bZIP) transcription factor; required for oxidative stress tolerance; activated by H2O2 through the multistep formation of disulfide bonds and transit from the cytoplasm to the nucleus; Yap1p is degraded in the nucleus after the oxidative stress has passed; mediates resistance to cadmium; YAP1 has a paralog, CAD1, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress	positive regulation of transcription from RNA polymerase II promoter in response to arsenic-containing substance|response to heat|response to drug|response to singlet oxygen|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|response to metal ion	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus|cytoplasm
YML119W_p	YML119W	hom			0.0210652361801774	0.22329008566303	1255	Putative protein of unknown function; YML119W is not an essential gene; potential Cdc28p substrate	biological_process	molecular_function	cellular_component
YHR014W	SPO13	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0210612395166767	0.2233779399401	1256	Meiosis-specific protein, involved in maintaining sister chromatid cohesion during meiosis I as well as promoting proper attachment of kinetochores to the spindle during meiosis I and meiosis II	protein localization to chromosome, centromeric region|meiotic sister chromatid cohesion|positive regulation of sister chromatid cohesion	molecular_function	nucleus|condensed nuclear chromosome, centromeric region
YJL138C	TIF2	hom	FT	TRANSLATION|RIBOSOME	0.0210458355825213	0.223716778964675	1257	Translation initiation factor eIF4A; DEA(D/H)-box RNA helicase that couples ATPase activity to RNA binding and unwinding; forms a dumbbell structure of two compact domains connected by a linker; interacts with eIF4G; protein abundance increases in response to DNA replication stress; TIF2 has a paralog, TIF1, that arose from the whole genome duplication	translational initiation|regulation of translational initiation	ATP-dependent RNA helicase activity|translation initiation factor activity	ribosome|eukaryotic translation initiation factor 4F complex|plasma membrane|cytoplasm
YGR035W-A_p	YGR035W-A	hom			0.0209716525252466	0.225353722688674	1258	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YGR052W_p	FMP48	hom	FT	PROTEIN PHOSPHORYLATION|MITOCHONDRION	0.0209713895021675	0.225359541798507	1259	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; induced by treatment with 8-methoxypsoralen and UVA irradiation	protein phosphorylation	protein kinase activity	mitochondrion
YPL225W	YPL225W	hom			0.0209136526949225	0.226639505085158	1260	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	ribosome|cytoplasm
YLR186W	EMG1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|CYTOSKELETON	0.0209119929503917	0.226676376332668	1261	Methyltransferase for rRNA; catalyzes methylation of the pseudouridine residue 1191 of 18S rRNA; member of the SPOUT methyltransferase family; required for maturation of 18S rRNA and for 40S ribosomal subunit production independently of methyltransferase activity; forms homodimers; human ortholog is mutated in Bowen-Conradi syndrome, and the equivalent mutation in yeast affects Emg1p dimerization and localization but not its methyltransferase activity	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit biogenesis|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|rRNA base methylation|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|rRNA processing	rRNA (pseudouridine) methyltransferase activity	small-subunit processome|nucleolus|nucleus|nuclear microtubule|cytoplasm|90S preribosome
YOL070C	NBA1	hom	FT	SITE OF POLARIZED GROWTH	0.0206566515940533	0.232469713331057	1262	Protein of unknown function, localizes to the bud neck and cytoplasm; interacts with Nap1p; may interact with ribosomes, based on co-purification experiments; potential Cdc28p substrate	biological_process	molecular_function	ribosome|cellular bud neck|cytoplasm
YGR134W	CAF130	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0206387904609184	0.232803974887757	1263	Part of the evolutionarily-conserved CCR4-NOT transcriptional regulatory complex involved in controlling mRNA initiation, elongation, and degradation	regulation of transcription from RNA polymerase II promoter|positive regulation of transcription elongation from RNA polymerase II promoter	molecular_function	CCR4-NOT core complex
YER175C	TMT1	hom			0.02057989544755	0.234140165423973	1264	Trans-aconitate methyltransferase, cytosolic enzyme that catalyzes the methyl esterification of 3-isopropylmalate, an intermediate of the leucine biosynthetic pathway, and trans-aconitate, which inhibits the citric acid cycle	biological_process	trans-aconitate 3-methyltransferase activity	cytosol
YJR118C	ILM1	hom	FF|FT	MITOCHONDRION ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0205187104755334	0.23553405273011	1265	Protein of unknown function; may be involved in mitochondrial DNA maintenance; required for slowed DNA synthesis-induced filamentous growth	mitochondrial genome maintenance	molecular_function	integral to membrane|endoplasmic reticulum
YKR051W_p	YKR051W	hom			0.020476747308123	0.236493424929098	1266	Putative protein of unknown function	biological_process	molecular_function	integral to membrane
YOR315W	SFG1	hom	FT	CELL CYCLE|NUCLEUS	0.0204651429519002	0.236759213346514	1267	Nuclear protein, putative transcription factor required for growth of superficial pseudohyphae (which do not invade the agar substrate) but not for invasive pseudohyphal growth; may act together with Phd1p; potential Cdc28p substrate	mitotic cell cycle|pseudohyphal growth	molecular_function	nucleus|cytoplasm
YOR210W	RPB10	het	FF|FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0204593776123694	0.236891342248734	1268	RNA polymerase subunit ABC10-beta, common to RNA polymerases I, II, and III	transcription from RNA polymerase I promoter|transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|DNA-directed RNA polymerase activity	DNA-directed RNA polymerase I complex|DNA-directed RNA polymerase III complex|DNA-directed RNA polymerase II, core complex
YJR053W	BFA1	hom	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON	0.0204578193401832	0.236927063361512	1269	Component of the GTPase-activating Bfa1p-Bub2p complex involved in multiple cell cycle checkpoint pathways that control exit from mitosis	regulation of exit from mitosis|mitotic cell cycle spindle orientation checkpoint	GTPase activator activity	spindle pole body
YGR069W_d	YGR069W	hom			0.020443270373653	0.237541689598633	1270	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YJL004C	SYS1	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0204144557336384	0.238203722407331	1271	Integral membrane protein of the Golgi required for targeting of the Arf-like GTPase Arl3p to the Golgi; multicopy suppressor of ypt6 null mutation	vesicle organization|Golgi to plasma membrane protein transport|Golgi to endosome transport	molecular_function	trans-Golgi network|integral to membrane|integral to Golgi membrane
YIL119C	RPI1	hom	FT	SIGNALING|NUCLEUS	0.0203794811718346	0.238727757966619	1272	Transcription factor with allelic differences between S288C and Sigma1278b; mediates fermentation stress tolerance by modulating cell wall integrity; overexpression suppresses heat shock sensitivity of wild-type RAS2 overexpression and also suppresses cell lysis defect of mpk1 mutation; allele from S288c can confer fMAPK pathway independent transcription of FLO11; S288C and Sigma1278b alleles differ in number of tandem repeats within ORF	fungal-type cell wall biogenesis|Ras protein signal transduction|positive regulation of transcription from RNA polymerase II promoter	small GTPase regulator activity	nucleus
YPR110C	RPC40	het	FT	NUCLEUS	0.0203689887668694	0.238969669272675	1273	RNA polymerase subunit AC40, common to RNA polymerase I and III	tRNA transcription from RNA polymerase III promoter|transcription from RNA polymerase I promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex|DNA-directed RNA polymerase I complex
YJL031C	BET4	het	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN PRENYLATION	0.0203632917009112	0.239805244995669	1274	Alpha subunit of Type II geranylgeranyltransferase required for vesicular transport between the endoplasmic reticulum and the Golgi; provides a membrane attachment moiety to Rab-like proteins Ypt1p and Sec4p	protein targeting to membrane|protein geranylgeranylation|ER to Golgi vesicle-mediated transport	Rab geranylgeranyltransferase activity	Rab-protein geranylgeranyltransferase complex
YNL126W	SPC98	het	FF|FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|NUCLEUS|CYTOSKELETON	0.0203502483038213	0.239402176569763	1275	Component of the microtubule-nucleating Tub4p (gamma-tubulin) complex; interacts with Spc110p at the spindle pole body (SPB) inner plaque and with Spc72p at the SPB outer plaque	microtubule nucleation|mitotic spindle organization in nucleus	structural constituent of cytoskeleton	outer plaque of spindle pole body|gamma-tubulin small complex, spindle pole body|inner plaque of spindle pole body
YEL039C	CYC7	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0203358613268799	0.239945675694019	1276	Cytochrome c isoform 2, expressed under hypoxic conditions; electron carrier of the mitochondrial intermembrane space that transfers electrons from ubiquinone-cytochrome c oxidoreductase to cytochrome c oxidase during cellular respiration; protein abundance increases in response to DNA replication stress; CYC7 has a paralog, CYC1, that arose from the whole genome duplication	mitochondrial electron transport, cytochrome c to oxygen|mitochondrial electron transport, ubiquinol to cytochrome c	electron carrier activity	mitochondrion|mitochondrial intermembrane space
YDR064W	RPS13	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0203191748250419	0.240120530434221	1277	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S13 and bacterial S15	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome|SSU rRNA binding	cytosolic small ribosomal subunit|90S preribosome
YPR061C	JID1	hom	FT	MITOCHONDRION	0.0203063507296235	0.240417438917111	1278	Probable Hsp40p co-chaperone, has a DnaJ-like domain and appears to be involved in ER-associated degradation of misfolded proteins containing a tightly folded cytoplasmic domain; inhibits replication of Brome mosaic virus in S. cerevisiae	biological_process	molecular_function	mitochondrion
YLR222C	UTP13	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0202776087163875	0.241083824154637	1279	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|nucleolus|Pwp2p-containing subcomplex of 90S preribosome|90S preribosome
YBR199W	KTR4	hom	FT	CARBOHYDRATE METABOLISM|GOLGI APPARATUS	0.0202444217018604	0.241854882913683	1280	Putative mannosyltransferase involved in protein glycosylation; member of the KRE2/MNT1 mannosyltransferase family	protein N-linked glycosylation	mannosyltransferase activity	Golgi apparatus
YDL152W_d	YDL152W	het	FF		0.0202424754365681	0.241900155735586	1281	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SAS10/YDL153C, a component of the small ribosomal subunit processosome	Unknown	Unknown	Unknown
YMR003W	AIM34	hom	FT	MITOCHONDRION	0.0201923559067886	0.243068058864413	1282	Protein of unknown function; GFP-fusion protein localizes to the mitochondria; null mutant is viable and displays reduced frequency of mitochondrial genome loss	biological_process	molecular_function	mitochondrion
YGL049C	TIF4632	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|RIBOSOME	0.0201869827227467	0.243193501440947	1283	Translation initiation factor eIF4G, subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); associates with the poly(A)-binding protein Pab1p, also interacts with eIF4A (Tif1p); TIF4632 has a paralog, TIF4631, that arose from the whole genome duplication	translational initiation|stress granule assembly	translation initiation factor binding|mRNA binding|translation initiation factor activity	eukaryotic translation initiation factor 4F complex|cytoplasmic stress granule
YBR107C	IML3	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0201522848951731	0.244004653484941	1284	Outer kinetochore protein and component of the Ctf19 complex; involved in the establishment of pericentromeric cohesion during mitosis; prevents non-disjunction of sister chromatids during meiosis II; required for localization of Sgo1p to pericentric sites during meiosis I; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-L and fission yeast fta1	establishment of meiotic sister chromatid cohesion|ascospore formation|protein localization to chromosome, centromeric region|meiotic sister chromatid segregation|maintenance of meiotic sister chromatid cohesion|establishment of mitotic sister chromatid cohesion	molecular_function	condensed nuclear chromosome outer kinetochore
YOR064C	YNG1	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.020143168514495	0.244571266544398	1285	Subunit of the NuA3 histone acetyltransferase complex that acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3, has similarity to the human tumor suppressor ING1	histone acetylation|chromatin modification	histone acetyltransferase activity|methylated histone residue binding	NuA3 histone acetyltransferase complex
YML096W_p	YML096W	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0201287911847894	0.244766843787716	1286	Putative protein of unknown function with similarity to asparagine synthetases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YML096W is not an essential gene and partially overlaps the verified gene RAD10	biological_process	molecular_function	cytoplasm
YMR103C_d	YMR103C	hom			0.0201212010553894	0.244732930376237	1287	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YNR008W	LRO1	hom	FT	LIPID METABOLISM|ENDOPLASMIC RETICULUM	0.0200566382958016	0.246250469188126	1288	Acyltransferase that catalyzes diacylglycerol esterification; one of several acyltransferases that contribute to triglyceride synthesis; putative homolog of human lecithin cholesterol acyltransferase	lipid storage|triglyceride biosynthetic process	phospholipid:diacylglycerol acyltransferase activity	lipid particle|perinuclear endoplasmic reticulum
YLR263W	RED1	hom	FT	CELL CYCLE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0200285790095838	0.246912049776182	1289	Protein component of the synaptonemal complex axial elements, involved in chromosome segregation during the first meiotic division; critical for coupling checkpoint signaling to SC formation; interacts with Hop1p, Mec3p and Ddc1p	synaptonemal complex assembly|meiotic recombination checkpoint|positive regulation of catalytic activity	chromatin DNA binding|structural molecule activity	lateral element
YDL079C	MRK1	hom	FT	PROTEIN PHOSPHORYLATION	0.0199943525899591	0.247720722283646	1290	Glycogen synthase kinase 3 (GSK-3) homolog; one of four GSK-3 homologs in S. cerevisiae that function to activate Msn2p-dependent transcription of stress responsive genes and that function in protein degradation	regulation of protein catabolic process|protein phosphorylation|response to stress	protein serine/threonine kinase activity	cellular_component
YGR151C_d	YGR151C	hom			0.0199845843261585	0.248164268998338	1291	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF RSR1/BUD1/YGR152C; relative distribution to the nucleus increases upon DNA replication stress	Unknown	Unknown	Unknown
YBL072C	RPS8A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0199267510220882	0.24932339432177	1292	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S8, no bacterial homolog; RPS8A has a paralog, RPS8B, that arose from the whole genome duplication	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	cytosolic small ribosomal subunit|90S preribosome
YDL193W	NUS1	het	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0198657050545278	0.251416001330988	1293	Putative prenyltransferase, required for cell viability; proposed to be involved in protein trafficking because tet-repressible mutant shows accumulation of hypoglycosylated forms of CPY	protein glycosylation	prenyltransferase activity	nuclear envelope|lipid particle|endoplasmic reticulum
YER038W-A_d	YER038W-A	hom			0.0198650127985865	0.251219253232585	1294	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 99% of ORF overlaps the verified gene HVG1; protein product detected in mitochondria	Unknown	Unknown	Unknown
YOL030W	GAS5	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM	0.0198541733862625	0.251052085082812	1295	1,3-beta-glucanosyltransferase, has similarity to Gas1p; localizes to the cell wall	(1->3)-beta-D-glucan metabolic process	1,3-beta-glucanosyltransferase activity	fungal-type cell wall|integral to membrane
YNL108C_p	YNL108C	hom	FT	NUCLEUS	0.0198228382035305	0.251801020416159	1296	Putative protein of unknown function; similar to prokaryotic phosphotransfer enzymes; null mutant shows alterations in glucose metabolism; GFP-fusion protein localizes to the cytoplasm and nucleus; YNL108C has a paralog, TFC7, that arose from the whole genome duplication	biological_process	molecular_function	nucleus|cytoplasm
YPR050C_d	YPR050C	hom			0.0198099986818513	0.252108344370954	1297	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene MAK3/YPR051W	Unknown	Unknown	Unknown
YKR096W	ESL2	hom	FT	NUCLEUS	0.0198074039629255	0.252454561029343	1298	Protein of unknown function that interacts with Pex14p; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; predicted to contain a PINc domain	biological_process	molecular_function	ribosome|nucleus|cytoplasm
YBL073W_d	YBL073W	het			0.0198065227454826	0.252191588558175	1299	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the essential gene AAR2/YBL074C	Unknown	Unknown	Unknown
YGL179C	TOS3	hom	FT	CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION	0.019796359298485	0.252435099858467	1300	Protein kinase, related to and functionally redundant with Elm1p and Sak1p for the phosphorylation and activation of Snf1p; functionally orthologous to LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome	protein phosphorylation|glucose metabolic process	protein serine/threonine kinase activity|protein kinase activity	nucleus|cytoplasm
YBL074C	AAR2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0197569800012968	0.253380155586501	1301	Component of the U5 snRNP, required for splicing of U3 precursors; originally described as a splicing factor specifically required for splicing pre-mRNA of the MATa1 cistron	assembly of spliceosomal tri-snRNP	molecular_function	U5 snRNP
YMR197C	VTI1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0196707852104996	0.255457313870586	1302	Protein involved in cis-Golgi membrane traffic; v-SNARE that interacts with two t-SNARES, Sed5p and Pep12p; required for multiple vacuolar sorting pathways	Golgi to vacuole transport|vacuole fusion, non-autophagic|intra-Golgi vesicle-mediated transport|vesicle fusion	SNAP receptor activity	SNARE complex|integral to Golgi membrane
YGR259C_d	YGR259C	hom			0.019660631449575	0.255916279441329	1303	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF TNA1/YGR260W	Unknown	Unknown	Unknown
YGL131C	SNT2	hom	FT	NUCLEUS|CHROMOSOME	0.0196106035898984	0.256914591112859	1304	DNA binding protein with similarity to the S. pombe Snt2 protein; RING finger ubiquitin ligase (E3) involved in ubiquitylation and degradation of excess histones; interacts with Ubc4p; null mutant sensitive to hydroxyurea (HU); computational analysis suggests that Snt2p is a transcription factor with a role in regulation of expression of genes encoding amine transporters; relocalizes from nucleus to cytoplasm upon DNA replication stress	biological_process	DNA binding	nucleus|Snt2C complex|cytoplasm
YLR043C	TRX1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|OXIDATION-REDUCTION PROCESS|NUCLEOTIDE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|RESPONSE TO OXIDATIVE STRESS|ENDOMEMBRANE SYSTEM|NUCLEUS|GOLGI APPARATUS	0.019606675828875	0.257009900599846	1305	Cytoplasmic thioredoxin isoenzyme; part of the thioredoxin system which protects cells against oxidative and reductive stress; forms LMA1 complex with Pbi2p; acts as a cofactor for Tsa1p, required for ER-Golgi transport and vacuole inheritance; protein abundance increases in response to DNA replication stress	vacuole inheritance|regulation of DNA replication|cell redox homeostasis|protein deglutathionylation|retrograde vesicle-mediated transport, Golgi to ER|cellular response to oxidative stress|ER to Golgi vesicle-mediated transport|vacuole fusion, non-autophagic	disulfide oxidoreductase activity	cytosol|fungal-type vacuole
YCR025C_d	YCR025C	hom			0.0195783313211992	0.257698424401057	1306	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YCR025C is not an essential gene	Unknown	Unknown	Unknown
YDL159W-A_p	YDL159W-A	hom			0.0195433487591147	0.258549956744852	1307	Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species	biological_process	molecular_function	cellular_component
YJL132W_p	YJL132W	hom			0.0195397495323938	0.258637678237964	1308	Putative protein of unknown function; localizes to the membrane fraction; possible Zap1p-regulated target gene induced by zinc deficiency; YJL132W is a non-essential gene	biological_process	molecular_function	membrane
YER116C	SLX8	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0195325891308508	0.258812255115576	1309	Subunit of Slx5-Slx8 SUMO-targeted ubiquitin ligase (STUbL) complex; stimulated by prior attachment of SUMO to the substrate; contains a C-terminal RING domain; forms nuclear foci upon DNA replication stress	protein sumoylation|telomere maintenance|response to DNA damage stimulus|protein ubiquitination	ubiquitin-protein ligase activity	ubiquitin ligase complex|nucleus
YJL030W	MAD2	hom	FT	CELL CYCLE|CELL DIVISION|ENDOMEMBRANE SYSTEM|NUCLEUS|CHROMOSOME|NUCLEAR PORE|KINETOCHORE	0.0195281304233103	0.258921003546687	1310	Component of the spindle-assembly checkpoint complex; delays the onset of anaphase in cells with defects in mitotic spindle assembly; forms a complex with Mad1p; regulates APC/C activity during prometaphase and metaphase of meiosis I	chromosome decondensation|mitotic cell cycle spindle assembly checkpoint|mitotic cell cycle G2/M transition decatenation checkpoint	molecular_function	mitotic checkpoint complex|condensed nuclear chromosome kinetochore|nuclear pore
YLR208W	SEC13	het	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|NUCLEOTIDE METABOLISM|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM|NUCLEAR PORE	0.0194627504173664	0.260519264845526	1311	Structural component of 3 distinct complexes; subunit of Nup84 nuclear pore sub-complex (NPC), COPII vesicle coat, and Seh1-associated (SEA) complex; COPII vesicle coat is required for ER to Golgi transport; the Nup84 subcomplex contributes to nucleocytoplasmic transport, NPC biogenesis and processes that may require localization of chromosomes at the nuclear periphery, including transcription; homologous to human SEC13; abundance increases under DNA replication stress	positive regulation of transcription, DNA-dependent|ER-associated protein catabolic process|positive regulation of GTPase activity|nuclear pore distribution|COPII-coated vesicle budding	structural molecule activity	COPII vesicle coat|nuclear pore outer ring|Seh1-associated complex
YDR172W	SUP35	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|NUCLEOTIDE METABOLISM	0.0194296093767753	0.261332021850913	1312	Translation termination factor eRF3, has a role in mRNA deadenylation and decay; altered protein conformation creates the [PSI(+)] prion that alters translational fidelity and results in a nonsense suppressor phenotype	translational termination|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	translation release factor activity	cytosol|translation release factor complex
YJL164C	TPK1	hom	FT	CELL CYCLE|SIGNALING|CELL DIVISION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0194165245442454	0.261653398673243	1313	cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; regulates Whi3p; partially redundant with Tpk2p and Tpk3p; TPK1 has a paralog, TPK3, that arose from the whole genome duplication	protein phosphorylation|Ras protein signal transduction	cAMP-dependent protein kinase activity|protein kinase activity	cAMP-dependent protein kinase complex|nucleus|cytoplasm
YEL017W	GTT3	hom	FT	ENDOMEMBRANE SYSTEM|NUCLEUS	0.0193491825642858	0.263311704238014	1314	Protein of unknown function with a possible role in glutathione metabolism, as suggested by computational analysis of large-scale protein-protein interaction data; GFP-fusion protein localizes to the nuclear periphery	biological_process	molecular_function	cellular_component
YIL009W	FAA3	hom	FT	KETONE METABOLISM|LIPID METABOLISM	0.0193307527490872	0.263766801765822	1315	Long chain fatty acyl-CoA synthetase, activates imported fatty acids; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery	long-chain fatty acid metabolic process	long-chain fatty acid-CoA ligase activity|very long-chain fatty acid-CoA ligase activity	cellular_component
YHR129C	ARP1	hom	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.0193220639997722	0.263981545822439	1316	Actin-related protein of the dynactin complex; required for spindle orientation and nuclear migration; putative ortholog of mammalian centractin	nuclear migration|establishment of mitotic spindle orientation	structural constituent of cytoskeleton	cell cortex|dynactin complex|spindle pole body|astral microtubule
YOR309C_d	YOR309C	hom			0.0193216597352255	0.263991540229391	1317	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene NOP58	Unknown	Unknown	Unknown
YJL098W	SAP185	hom	FT	CELL CYCLE|RNA PROCESSING|MITOCHONDRION	0.0193148287250184	0.26416045892865	1318	Protein that forms a complex with the Sit4p protein phosphatase; required for Sit4p function; member of a family of similar proteins including Sap4p, Sap155p, and Sap190p; SAP185 has a paralog, SAP190, that arose from the whole genome duplication	tRNA wobble uridine modification|G1/S transition of mitotic cell cycle	protein serine/threonine phosphatase activity	mitochondrion|cytoplasm
YGR051C_d	YGR051C	hom			0.0192974945312149	0.264804003895583	1319	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YGR051C is not an essential gene	Unknown	Unknown	Unknown
YPR062W	FCY1	hom	FT	NUCLEUS	0.0192673506817947	0.265336564506656	1320	Cytosine deaminase, zinc metalloenzyme that catalyzes the hydrolytic deamination of cytosine to uracil; of biomedical interest because it also catalyzes the deamination of 5-fluorocytosine (5FC) to form anticancer drug 5-fluorouracil (5FU)	cytosine metabolic process|pyrimidine-containing compound salvage|cytidine metabolic process	cytosine deaminase activity	nucleus|cytoplasm
YOL071W	EMI5	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0192119524509588	0.266713416920701	1321	Subunit of succinate dehydrogenase, which couples succinate oxidation to ubiquinone reduction; required for FAD cofactor attachment to Sdh1p; mutations in human ortholog PGL2 are associated with neuroendocrine tumors (paraganglioma)	protein-FAD linkage|cellular respiration|mitochondrial electron transport, succinate to ubiquinone|ascospore formation|tricarboxylic acid cycle|positive regulation of transcription from RNA polymerase II promoter	succinate dehydrogenase (ubiquinone) activity	mitochondrial respiratory chain complex II|mitochondrion|mitochondrial matrix
YOR066W	MSA1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS	0.0192042396132544	0.266905498579772	1322	Activator of G1-specific transcription factors, MBF and SBF; involved in regulation of the timing of G1-specific gene transcription and cell cycle initiation; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation	G1/S transition of mitotic cell cycle|regulation of transcription involved in G1 phase of mitotic cell cycle|regulation of cell size	molecular_function	nucleus|cytoplasm
YBL039W-B_p	YBL039W-B	hom			0.0191648286500782	0.267888479526531	1323	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YIL001W_p	YIL001W	hom			0.0191576941843809	0.268066691534198	1324	Putative protein of unknown function; contains a BTB/POZ domain which generally function in protein interactions; deletion slightly improved competitive fitness in rich media; GFP-tagged protein is localized to the cytoplasm	biological_process	molecular_function	cytoplasm
YOL021C	DIS3	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.0191003457562109	0.269573825718821	1325	Exosome core complex catalytic subunit; possesses both endonuclease and 3'-5' exonuclease activity; involved in 3'-5' RNA processing and degradation in both the nucleus and the cytoplasm; has similarity to E. coli RNase R and to human DIS3; protein abundance increases in response to DNA replication stress	nuclear mRNA surveillance|nuclear polyadenylation-dependent CUT catabolic process|nuclear polyadenylation-dependent tRNA catabolic process|nuclear polyadenylation-dependent rRNA catabolic process|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|nonfunctional rRNA decay|nuclear polyadenylation-dependent mRNA catabolic process|rRNA catabolic process|polyadenylation-dependent snoRNA 3'-end processing|nuclear-transcribed mRNA catabolic process, non-stop decay|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ncRNA 3'-end processing	3'-5'-exoribonuclease activity|endoribonuclease activity|tRNA binding	mitochondrion|nucleolus|nuclear exosome (RNase complex)|cytoplasmic exosome (RNase complex)
YLL018C	DPS1	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|NUCLEUS	0.0190783431325312	0.270269424042546	1326	Aspartyl-tRNA synthetase, primarily cytoplasmic; homodimeric enzyme that catalyzes the specific aspartylation of tRNA(Asp); class II aminoacyl tRNA synthetase; binding to its own mRNA may confer autoregulation	cytoplasmic translation|aspartyl-tRNA aminoacylation	RNA binding|aspartate-tRNA ligase activity	nucleus|cytoplasm
YOL055C	THI20	hom			0.0190680831160559	0.270670736006776	1327	Trifunctional enzyme of thiamine biosynthesis, degradation and salvage; has hydroxymethylpyrimidine (HMP) kinase, HMP-phosphate (HMP-P) kinase and thiaminase activities; member of a gene family with THI21 and THI22; HMP and HMP-P kinase activity redundant with Thi21p	thiamine biosynthetic process|thiamine catabolic process	phosphomethylpyrimidine kinase activity|thiaminase activity|hydroxymethylpyrimidine kinase activity	cytosol
YGL133W	ITC1	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS	0.0190662019987224	0.27035929521903	1328	Subunit of the ATP-dependent Isw2p-Itc1p chromatin remodeling complex, required for repression of a-specific genes, repression of early meiotic genes during mitotic growth, and repression of INO1; similar to mammalian Acf1p, the regulatory subunit of the mammalian ATP-utilizing chromatin assembly and modifying factor (ACF) complex	negative regulation of transcription from RNA polymerase II promoter by pheromones|chromatin remodeling|chromatin silencing at telomere	molecular_function	chromatin accessibility complex
YIR009W	MSL1	hom	FT	RNA PROCESSING|NUCLEUS	0.0190635346460523	0.270426334501857	1329	U2B component of U2 snRNP, involved in splicing, binds the U2 snRNA stem-loop IV in vitro but requires association of Lea1p for in vivo binding; does not contain the conserved C-terminal RNA binding domain found in other family members	mRNA splicing, via spliceosome	U2 snRNA binding	U2 snRNP|U2-type prespliceosome
YHR205W	SCH9	hom	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|RIBOSOME BIOGENESIS|PROTEIN PHOSPHORYLATION|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|CHROMOSOME	0.0189982262703052	0.272071301818028	1330	AGC family protein kinase; functional ortholog of mammalian S6 kinase; phosphorylated by Tor1p and required for TORC1-mediated regulation of ribosome biogenesis, translation initiation, and entry into G0 phase; involved in transactivation of osmostress-responsive genes; regulates G1 progression, cAPK activity and nitrogen activation of the FGM pathway; integrates nutrient signals and stress signals from sphingolipids to regulate lifespan	protein phosphorylation|age-dependent response to oxidative stress involved in chronological cell aging|replicative cell aging|regulation of protein localization|positive regulation of transcription from RNA polymerase III promoter|positive regulation of ribosomal protein gene transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase I promoter|regulation of transcription from RNA polymerase II promoter in response to oxidative stress|regulation of cell size|regulation of response to osmotic stress	protein serine/threonine kinase activity	chromatin|fungal-type vacuole membrane|nucleus|cytoplasm
YDR270W	CCC2	hom	FF|FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0189459587638685	0.27339272243457	1331	Cu(+2)-transporting P-type ATPase; required for export of copper from the cytosol into an extracytosolic compartment; has similarity to human proteins involved in Menkes and Wilsons diseases; protein abundance increases in response to DNA replication stress; affects TBSV model (+)RNA virus replication by regulating copper metabolism	cellular iron ion homeostasis|copper ion export|transmembrane transport	copper ion binding|cation-transporting ATPase activity	integral to membrane|trans-Golgi network transport vesicle membrane
YDR396W_d	YDR396W	het			0.0189314648478147	0.273975406346198	1332	Dubious open reading frame unlikely to encode a functional protein; extensively overlaps essential NCB2 gene encoding the beta subunit of the NC2 dimeric histone-fold complex	Unknown	Unknown	Unknown
YCR067C	SED4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|NUCLEOTIDE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0189306535466084	0.27406784563488	1333	Integral endoplasmic reticulum membrane protein that stimulates Sar1p GTPase activity; involved in COPII vesicle budding through disassociation of coat proteins from membranes onto liposomes; binds Sec16p; similar to Sec12p	positive regulation of GTPase activity|regulation of COPII vesicle coating	Sar GTPase activator activity	integral to endoplasmic reticulum membrane
YGL255W	ZRT1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0189169437308877	0.274487464379793	1334	High-affinity zinc transporter of the plasma membrane, responsible for the majority of zinc uptake; transcription is induced under low-zinc conditions by the Zap1p transcription factor	high-affinity zinc ion transport	high affinity zinc uptake transmembrane transporter activity	integral to membrane|integral to plasma membrane
YNR035C	ARC35	het	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.0189150838380813	0.274534660046282	1335	Subunit of the ARP2/3 complex, which is required for the motility and integrity of cortical actin patches; required for cortical localization of calmodulin	mitochondrion inheritance|receptor-mediated endocytosis|microtubule cytoskeleton organization|actin cytoskeleton organization	structural molecule activity	cytosol|Arp2/3 protein complex
YPR129W	SCD6	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION	0.018836954535425	0.276162646805195	1336	Repressor of translation initiation; binds eIF4G through its RGG domain and inhibits recruitment of the preinitiation complex; also contains an Lsm domain; may have a role in RNA processing; overproduction suppresses null mutation in clathrin heavy chain gene CHC1; forms cytoplasmic foci upon DNA replication stress	stress granule assembly|negative regulation of translational initiation|cytoplasmic mRNA processing body assembly	mRNA binding|RNA binding|eukaryotic initiation factor 4G binding	cytoplasmic mRNA processing body|cytoplasmic stress granule|cytoplasm
YPL104W	MSD1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0187993091707612	0.277123688161275	1337	Mitochondrial aspartyl-tRNA synthetase, required for acylation of aspartyl-tRNA; yeast and bacterial aspartyl-, asparaginyl-, and lysyl-tRNA synthetases contain regions with high sequence similarity, suggesting a common ancestral gene	mitochondrial aspartyl-tRNA aminoacylation	aspartate-tRNA ligase activity	mitochondrion
YLR376C	PSY3	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.0187658029128889	0.277980976689868	1338	Component of the Shu complex, which promotes error-free DNA repair; Shu complex mediates inhibition of Srs2p function; structural analysis reveals a similar DNA-binding region in both Psy3p and Csm2p and that both regions work together to form a single DNA binding site; deletion of PSY3 results in a mutator phenotype; deletion increases sensitivity to anticancer drugs oxaliplatin and cisplatin but not mitomycin C	recombinational repair|error-free translesion synthesis	molecular_function	nucleus|Shu complex|cytoplasm
YML104C	MDM1	hom	FT	MITOCHONDRION ORGANIZATION|CYTOSKELETON	0.0187317655011521	0.279069598785679	1339	Intermediate filament protein, required for nuclear and mitochondrial transmission to daughter buds; contains a Phox homology (PX) domain and specifically binds phosphatidylinositol 3-phosphate (PtdIns-3-P)	nuclear migration|mitochondrion inheritance|mitochondrion organization	structural constituent of cytoskeleton|phosphatidylinositol-3-phosphate binding	intermediate filament|integral to membrane|cytoplasm
YJL134W	LCB3	hom	FT	LIPID METABOLISM|SIGNALING|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0186428384834273	0.281502819648666	1340	Long-chain base-1-phosphate phosphatase; specific for dihydrosphingosine-1-phosphate, regulates ceramide and long-chain base phosphates levels, involved in incorporation of exogenous long chain bases in sphingolipids; LCB3 has a paralog, YSR3, that arose from the whole genome duplication	calcium-mediated signaling|sphingolipid biosynthetic process	sphingosine-1-phosphate phosphatase activity	integral to membrane|endoplasmic reticulum
YER039C	HVG1	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0185880149569948	0.282560022455991	1341	Protein of unknown function, has homology to Vrg4p	biological_process	molecular_function	integral to membrane
YJL089W	SIP4	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0185771571456902	0.282841319015461	1342	C6 zinc cluster transcriptional activator that binds to the carbon source-responsive element (CSRE) of gluconeogenic genes; involved in the positive regulation of gluconeogenesis; regulated by Snf1p protein kinase; localized to the nucleus	positive regulation of transcription from RNA polymerase II promoter by a nonfermentable carbon source|positive regulation of gluconeogenesis|positive regulation of gluconeogenesis by positive regulation of transcription from RNA polymerase II promoter|Unknown	RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus
YBR257W	POP4	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.018576031924159	0.28287048131009	1343	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs; binds to the RPR1 RNA subunit in RNase P	tRNA processing|intronic box C/D snoRNA processing|mRNA cleavage|rRNA processing	ribonuclease MRP activity|ribonuclease P activity	nucleolar ribonuclease P complex|ribonuclease MRP complex
YIL154C	IMP2'	hom	FF|FT	RESPONSE TO DNA DAMAGE|ION HOMEOSTASIS|CARBOHYDRATE METABOLISM|ION HOMEOSTASIS	0.0185564580380734	0.284099665497449	1344	Transcriptional activator involved in maintenance of ion homeostasis and protection against DNA damage caused by bleomycin and other oxidants, contains a C-terminal leucine-rich repeat	DNA repair|cellular carbohydrate metabolic process	transcription coactivator activity	cytoplasm
YDR058C	TGL2	hom	FT	PROTEIN LOCALIZATION|LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0185395597073197	0.283816832438727	1345	Triacylglycerol lipase that is localized to the mitochondria; has lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli	triglyceride catabolic process	triglyceride lipase activity	mitochondrion
YER007W	PAC2	hom	FT	CYTOSKELETON	0.0185313441567177	0.284102364506579	1346	Microtubule effector required for tubulin heterodimer formation, binds alpha-tubulin, required for normal microtubule function, null mutant exhibits cold-sensitive microtubules and sensitivity to benomyl	protein folding|tubulin complex assembly|tubulin complex biogenesis	alpha-tubulin binding	cellular_component
YOL009C	MDM12	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0185264608446145	0.284157233343602	1347	Mitochondrial outer membrane protein, required for transmission of mitochondria to daughter cells; component of the ERMES complex that links the ER to mitochondria; may influence import and assembly of outer membrane beta-barrel proteins	mitochondrion inheritance|mitochondrion organization|protein import into mitochondrial outer membrane|phospholipid transport	molecular_function	mitochondrial outer membrane|mitochondrion|ERMES complex
YOR253W	NAT5	hom	FT	RIBOSOME	0.0185131476221301	0.284503487757398	1348	Subunit of the N-terminal acetyltransferase NatA (Nat1p, Ard1p, Nat5p); N-terminally acetylates many proteins, which influences multiple processes such as the cell cycle, heat-shock resistance, mating, sporulation, and telomeric silencing	N-terminal protein amino acid acetylation	peptide alpha-N-acetyltransferase activity	NatA complex|cytosolic ribosome
YBL061C	SKT5	hom	FT	CELL WALL ORG/BIOGENESIS|CELL DIVISION|CARBOHYDRATE METABOLISM|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.0184625401269409	0.285822306529637	1349	Activator of Chs3p (chitin synthase III) during vegetative growth; recruits Chs3p to the bud neck via interaction with Bni4p; SKT5 has a paralog, SHC1, that arose from the whole genome duplication	fungal-type cell wall chitin biosynthetic process|response to osmotic stress|cytokinesis	enzyme activator activity	incipient cellular bud site|cellular bud neck septin ring|cellular bud neck
YAL001C	TFC3	het	FF|FT	PROTEIN LOCALIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.0184511096960412	0.286120751520548	1350	Largest of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauB domain of TFIIIC that binds DNA at the BoxB promoter sites of tRNA and similar genes; cooperates with Tfc6p in DNA binding	protein localization to chromatin|transcription from a RNA polymerase III hybrid type promoter|transcription from RNA polymerase III type 2 promoter|5S class rRNA transcription from RNA polymerase III type 1 promoter	RNA polymerase III type 1 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|RNA polymerase III type 2 promoter sequence-specific DNA binding|RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|DNA binding, bending	transcription factor TFIIIC complex|mitochondrion|nuclear condensin complex
YNL284C	MRPL10	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0184345203046101	0.286698532294795	1351	Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL10 and YmL18) on two-dimensional SDS gels	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YOR147W	MDM32	hom	FT	ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.0184206141514059	0.286918010087025	1352	Mitochondrial inner membrane protein with similarity to Mdm31p, required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MDM10, MDM12, and MDM34	mitochondrion inheritance|cellular ion homeostasis|mitochondrion organization	molecular_function	mitochondrion|mitochondrial inner membrane
YOR262W	GPN2	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CHROMOSOME SEGREGATION	0.0183802914024428	0.287974485176822	1353	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn3p; highly conserved across species and homologous to human gene GPN2/ATPBD1B; required for establishment of sister chromatid cohesion	establishment of mitotic sister chromatid cohesion	molecular_function	cytoplasm
YNL096C	RPS7B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|RIBOSOME	0.0183515360279752	0.28872948954954	1354	Protein component of the small (40S) ribosomal subunit; interacts with Kti11p; deletion causes hypersensitivity to zymocin; homologous to mammalian ribosomal protein S7, no bacterial homolog; RPS7B has a paralog, RPS7A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress	cytoplasmic translation|ribosome biogenesis	structural constituent of ribosome	small-subunit processome|cytosolic small ribosomal subunit
YBR300C_d	YBR300C	hom			0.0183425547538054	0.288965575945114	1355	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR301W; YBR300C is not an essential gene	Unknown	Unknown	Unknown
YKL180W	RPL17A	het	FT	TRANSLATION|RIBOSOME	0.0183350520807774	0.289162894713935	1356	Ribosomal 60S subunit protein L17A; copurifies with the Dam1 complex (aka DASH complex); homologous to mammalian ribosomal protein L17 and bacterial L22; RPL17A has a paralog, RPL17B, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit|cytoplasm
YGL035C	MIG1	hom	FT	TRANSCRIPTION FROM RNA POL II|CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|ENDOMEMBRANE SYSTEM|NUCLEUS	0.0182791751911674	0.290635299308436	1357	Transcription factor involved in glucose repression; sequence specific DNA binding protein containing two Cys2His2 zinc finger motifs; regulated by the SNF1 kinase and the GLC7 phosphatase; regulates filamentous growth along with Mig2p in response to glucose depletion	negative regulation of transcription from RNA polymerase II promoter by glucose|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription|RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding	nucleus|nuclear envelope lumen|cytoplasm
YJR117W	STE24	hom	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.018250828645905	0.291384179659772	1358	Highly conserved zinc metalloprotease that functions in two steps of a-factor maturation, C-terminal CAAX proteolysis and the first step of N-terminal proteolytic processing; contains multiple transmembrane spans	CAAX-box protein processing|peptide pheromone maturation	metalloendopeptidase activity	mitochondrial outer membrane|integral to endoplasmic reticulum membrane|integral to membrane|nuclear inner membrane
YDR222W_p	YDR222W	hom	FT	RESPONSE TO OXIDATIVE STRESS	0.0182432527012689	0.291584546052448	1359	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern	biological_process	molecular_function	cytoplasm
YML069W	POB3	het	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0182273232300138	0.292006145977007	1360	Subunit of the heterodimeric FACT complex (Spt16p-Pob3p); FACT associates with chromatin via interaction with Nhp6Ap and Nhp6Bp, and reorganizes nucleosomes to facilitate access to DNA by RNA and DNA polymerases; protein abundance increases in response to DNA replication stress	DNA replication-independent nucleosome organization|positive regulation of RNA polymerase II transcriptional preinitiation complex assembly|regulation of transcription by chromatin organization|DNA-dependent DNA replication	chromatin binding|nucleosome binding|histone binding	nuclear chromatin|FACT complex|replication fork protection complex|alpha DNA polymerase:primase complex
YPL155C	KIP2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|MITOCHONDRION|CYTOSKELETON	0.0182117911991002	0.29241762098675	1361	Kinesin-related motor protein involved in mitotic spindle positioning, stabilizes microtubules by targeting Bik1p to the plus end; Kip2p levels are controlled during the cell cycle	nuclear migration along microtubule|mitotic anaphase B|negative regulation of microtubule depolymerization	microtubule motor activity	mitochondrion|kinesin complex|cytoplasmic microtubule
YLR084C	RAX2	hom	FT	CELL CYCLE|CELL DIVISION|MITOCHONDRION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.0181874233886545	0.293136194839206	1362	N-glycosylated protein involved in the maintenance of bud site selection during bipolar budding; localization requires Rax1p; RAX2 mRNA stability is regulated by Mpt5p	cellular bud site selection	molecular_function	mitochondrion|cellular bud scar|cellular bud neck|membrane
YOR053W_d	YOR053W	hom			0.0181102554065134	0.295623449294228	1363	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene VHS3/YOR054C	Unknown	Unknown	Unknown
YHR191C	CTF8	hom	FT	CELL CYCLE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0181083039733495	0.295386015555243	1364	Subunit of a complex with Ctf18p that shares some subunits with Replication Factor C and is required for sister chromatid cohesion	maintenance of DNA trinucleotide repeats|mitotic sister chromatid cohesion	molecular_function	Ctf18 RFC-like complex
YJL079C	PRY1	hom	FT	ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0181068367197521	0.295280546154238	1365	Sterol binding protein involved in the export of acetylated sterols; secreted glycoprotein and member of the CAP protein superfamily (cysteine-rich secretory proteins (CRISP), antigen 5, and pathogenesis related 1 proteins); sterol export function is redundant with that of PRY2; may be involved in detoxification of hydrophobic compounds; PRY1 has a paralog, PRY2, that arose from the whole genome duplication	biological_process	molecular_function	nuclear envelope|extracellular region|endoplasmic reticulum|fungal-type vacuole
YJR076C	CDC11	het	FT	CELL CYCLE|CELL DIVISION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0179999628152134	0.298357599718411	1366	Component of the septin ring that is required for cytokinesis; septins are GTP-binding proteins that assemble into rod-like hetero-oligomers that can associate with other rods to form filaments; septin rings at the mother-bud neck act as scaffolds for recruiting cell division factors and as barriers to prevent diffusion of specific proteins between mother and daughter cells	maintenance of cell polarity|cell cycle cytokinesis|positive regulation of protein kinase activity	structural molecule activity|GTP binding|1-phosphatidylinositol binding	spindle microtubule|septin complex|prospore membrane|ascospore wall|mating projection base|meiotic spindle|cellular bud neck septin ring|septin filament array|cytoplasmic microtubule|mating projection tip
YDR019C	GCV1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0179905426106312	0.298321204574551	1367	T subunit of the mitochondrial glycine decarboxylase complex, required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of levels of 5,10-methylene-THF in the cytoplasm	glycine catabolic process|glycine metabolic process|one-carbon metabolic process	glycine dehydrogenase (decarboxylating) activity	mitochondrion|glycine cleavage complex
YIL116W	HIS5	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0179785300423197	0.298933390680238	1368	Histidinol-phosphate aminotransferase, catalyzes the seventh step in histidine biosynthesis; responsive to general control of amino acid biosynthesis; mutations cause histidine auxotrophy and sensitivity to Cu, Co, and Ni salts	histidine biosynthetic process	histidinol-phosphate transaminase activity	intracellular
YBR228W	SLX1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0179552342946833	0.299487681345393	1369	Subunit of a complex, with Slx4p, that hydrolyzes 5' branches from duplex DNA in response to stalled or converging replication forks; function overlaps with that of Sgs1p-Top3p	DNA-dependent DNA replication	5'-flap endonuclease activity	Slx1-Slx4 complex|nucleus
YPR157W_p	TDA6	hom	FT	PROTEIN LOCALIZATION	0.0179537763019825	0.299309897167904	1370	Putative protein of unknown function; induced by treatment with 8-methoxypsoralen and UVA irradiation; null mutant is sensitive to expression of the top1-T722A allele	biological_process	molecular_function	cellular_component
YGL158W	RCK1	hom	FT	CELL CYCLE|PROTEIN PHOSPHORYLATION	0.0179413679217993	0.299644066879063	1371	Protein kinase involved in the response to oxidative stress; identified as suppressor of S. pombe cell cycle checkpoint mutations; RCK1 has a paralog, RCK2, that arose from the whole genome duplication	protein phosphorylation|regulation of meiosis	protein serine/threonine kinase activity|protein kinase activity	cellular_component
YGL230C_p	YGL230C	hom			0.0179401675975622	0.299676405964432	1372	Putative protein of unknown function; non-essential gene	biological_process	molecular_function	cellular_component
YDR302W	GPI11	het	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0179395641007853	0.299692666228356	1373	ER membrane protein involved in a late step of glycosylphosphatidylinositol (GPI) anchor assembly; involved in the addition of phosphoethanolamine to the multiply mannosylated GPI intermediate; human PIG-Fp is a functional homolog	GPI anchor biosynthetic process	mannose-ethanolamine phosphotransferase activity	integral to membrane|endoplasmic reticulum|endoplasmic reticulum membrane
YPL181W	CTI6	hom	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0179219608311481	0.300239549169123	1374	Protein that relieves transcriptional repression by binding to the Cyc8p-Tup1p corepressor and recruiting the SAGA complex to the repressed promoter; contains a PHD finger domain	negative regulation of chromatin silencing at silent mating-type cassette|positive regulation of transcription, DNA-dependent|regulation of DNA-dependent DNA replication initiation|negative regulation of chromatin silencing at telomere|negative regulation of chromatin silencing at rDNA	methylated histone residue binding|transcription factor binding	Rpd3L-Expanded complex|nucleus|Rpd3L complex
YDR517W	GRH1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.017903405019956	0.30066798876636	1375	Acetylated cis-Golgi protein, involved in ER to Golgi transport; homolog of human GRASP65; forms a complex with the coiled-coil protein Bug1p; mutants are compromised for the fusion of ER-derived vesicles with Golgi membranes; protein abundance increases in response to DNA replication stress	protein secretion|ER to Golgi vesicle-mediated transport|Golgi organization	molecular_function	COPII vesicle coat|cis-Golgi network|cytoplasm
YPR011C_p	YPR011C	hom	FT	MITOCHONDRION	0.0178928438911221	0.301025593990857	1376	Putative transporter, member of the mitochondrial carrier family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	transport	transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YDL052C	SLC1	hom	FT	LIPID METABOLISM	0.0178828495210314	0.301223375782661	1377	1-acyl-sn-glycerol-3-phosphate acyltransferase, catalyzes the acylation of lysophosphatidic acid to form phosphatidic acid, a key intermediate in lipid metabolism; enzymatic activity detected in lipid particles and microsomes	glycerophospholipid biosynthetic process	1-acylglycerol-3-phosphate O-acyltransferase activity	lipid particle
YDR319C_p	YFT2	hom			0.0178761973398754	0.301403256590565	1378	Protein required for normal ER membrane biosynthesis; member of the highly conserved FIT family of proteins involved in triglyceride droplet biosynthesis and homologous to human FIT2; interacts with Sst2p and Hsp82p in high-throughput two-hybrid screens	biological_process	molecular_function	integral to membrane
YGL233W	SEC15	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.017807557952532	0.303263500133888	1379	Essential 113 kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis prior to SNARE-mediated fusion; interacts with and functions as a downstream effector of active, GTP-bound Sec4p, a Rab family GTPase	Golgi to plasma membrane transport|exocytosis|vesicle fusion|vesicle docking involved in exocytosis	Rab GTPase binding	incipient cellular bud site|cellular bud neck|mating projection tip|cellular bud tip|exocyst
YMR158C-A_p	YMR158C-A	hom			0.0178052233871861	0.303326904654047	1380	Putative protein of unknown function, may contain a lipid attachment site; YMR158C-A is not an essential gene	biological_process	molecular_function	cellular_component
YKL204W	EAP1	hom	FT	TRANSLATION	0.0177938808776014	0.303635081492313	1381	eIF4E-associated protein, competes with eIF4G for binding to eIF4E; accelerates mRNA degradation by promoting decapping, facilitated by interaction with eIF4E; essential for Puf5p mediated repression; associates with Puf5p and Dhh1p; inhibits cap-dependent translation; functions independently of eIF4E to maintain genetic stability; plays a role in cell growth, implicated in the TOR signaling cascade	negative regulation of translation	eukaryotic initiation factor 4E binding	mRNA cap binding complex|cytoplasmic stress granule
YLR354C	TAL1	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0177496017679277	0.304840138077383	1382	Transaldolase, enzyme in the non-oxidative pentose phosphate pathway; converts sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate to erythrose 4-phosphate and fructose 6-phosphate	pentose-phosphate shunt	sedoheptulose-7-phosphate:D-glyceraldehyde-3-phosphate glyceronetransferase activity	nucleus|cytoplasm
YPR190C	RPC82	het	FT	NUCLEUS	0.0177494994890724	0.304915301279733	1383	RNA polymerase III subunit C82	tRNA transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex
YCR076C	FUB1	hom			0.0177433254778852	0.305011203772753	1384	Putative protein of unknown function; interacts physically with multiple subunits of the 20S proteasome and genetically with genes encoding 20S core particle and 19S regulatory particle subunits; exhibits boundary activity which blocks the propagation of heterochromatic silencing; contains a PI31 proteasome regulator domain and sequence similarity with human PSMF1, a proteasome inhibitor; not an essential gene	biological_process	proteasome binding	cellular_component
YDR217C	RAD9	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0177276558546892	0.305438570732599	1385	DNA damage-dependent checkpoint protein; required for cell-cycle arrest in G1/S, intra-S, and G2/M; transmits checkpoint signal by activating Rad53p and Chk1p; hyperphosphorylated by Mec1p and Tel1p; multiple cyclin dependent kinase consensus sites and the C-terminal BRCT domain contribute to DNA damage checkpoint activation; potential Cdc28p substrate	DNA repair|mitotic cell cycle G1/S transition DNA damage checkpoint|regulation of cell cycle|intra-S DNA damage checkpoint|nucleotide-excision repair|DNA damage checkpoint|positive regulation of transcription from RNA polymerase II promoter	double-stranded DNA binding|histone binding	chromatin|nucleus
YGL145W	TIP20	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.017678147111933	0.306791459776003	1386	Peripheral membrane protein required for fusion of COPI vesicles with the ER; prohibits back-fusion of COPII vesicles with the ER; forms a tethering complex with Sec39p and Dsl1p that interacts with ER SNAREs Sec20p and Use1p	retrograde vesicle-mediated transport, Golgi to ER	molecular_function	Dsl1p complex|endoplasmic reticulum
YDR497C	ITR1	hom	FT	PLASMA MEMBRANE	0.017665880924978	0.307127261224362	1387	Myo-inositol transporter; has strong similarity to the minor myo-inositol transporter Itr2p, member of the sugar transporter superfamily; expression is repressed by inositol and choline via Opi1p and derepressed via Ino2p and Ino4p; relative distribution to the vacuole increases upon DNA replication stress	myo-inositol transport|transmembrane transport	myo-inositol transmembrane transporter activity	integral to membrane|plasma membrane|membrane
YDR488C	PAC11	hom	FT	CYTOSKELETON	0.0176642229062738	0.3071726701156	1388	Dynein intermediate chain, acts in the cytoplasmic dynein pathway, forms cortical cytoplasmic microtubule capture site with Num1p; null mutant is defective in nuclear migration, essential in the absence of CIN8	nuclear migration along microtubule|microtubule-based process	plus-end-directed microtubule motor activity|microtubule motor activity	cytoplasmic dynein complex|cytoplasmic microtubule
YKL025C	PAN3	hom	FT	RNA PROCESSING|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION	0.0176295964775413	0.308122014877069	1389	Essential subunit of the Pan2p-Pan3p poly(A)-ribonuclease complex, which acts to control poly(A) tail length and regulate the stoichiometry and activity of postreplication repair complexes	DNA repair|mRNA 3'-end processing|postreplication repair	poly(A)-specific ribonuclease activity	PAN complex|cytoplasm
YOR247W	SRL1	hom	FT	CELL WALL ORG/BIOGENESIS|SITE OF POLARIZED GROWTH	0.0176239964421462	0.308275731821435	1390	Mannoprotein that exhibits a tight association with the cell wall; required for cell wall stability in the absence of GPI-anchored mannoproteins; has a high serine-threonine content; expression is induced in cell wall mutants; SRL1 has a paralog, SVS1, that arose from the whole genome duplication	fungal-type cell wall organization|nucleobase-containing compound metabolic process	molecular_function	fungal-type cell wall|fungal-type vacuole|cytoplasm|cellular bud tip
YER136W	GDI1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT	0.0176065684639271	0.308754441678793	1391	GDP dissociation inhibitor, regulates vesicle traffic in secretory pathways by regulating the dissociation of GDP from the Sec4/Ypt/rab family of GTP binding proteins	vesicle-mediated transport	Rab GDP-dissociation inhibitor activity	cellular_component
YLR281C_p	YLR281C	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION	0.0175338173848507	0.310758063753258	1392	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR281C is not an essential gene	biological_process	molecular_function	mitochondrion
YNL229C	URE2	hom	FF|FT	PROTEIN LOCALIZATION	0.0175010311436874	0.311663819843002	1393	Nitrogen catabolite repression transcriptional regulator that acts by inhibition of GLN3 transcription in good nitrogen source; has glutathione peroxidase activity and can mutate to acquire GST activity; altered form creates [URE3] prion	regulation of nitrogen utilization|response to aluminum ion|protein urmylation|cytoplasmic sequestering of transcription factor	glutathione peroxidase activity|phosphoprotein binding|transcription corepressor activity	cytosol
YPL074W	YTA6	hom			0.0174916707853072	0.311922729004994	1394	Putative ATPase of the CDC48/PAS1/SEC18 (AAA) family; localized to the cortex of mother cells but not to daughter cells; relocalizes from cytoplasm to plasma membrane foci upon DNA replication stress	biological_process	ATPase activity	cell cortex
YKR101W	SIR1	hom	FT	CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0174678884457308	0.312581189942424	1395	Protein involved in repression of transcription at the silent mating-type loci HML and HMR; recruitment to silent chromatin requires interactions with Orc1p and with Sir4p, through a common Sir1p domain; binds to centromeric chromatin	establishment of chromatin silencing|chromatin silencing at silent mating-type cassette	chromatin binding|sequence-specific DNA binding	chromatin silencing complex
YFL041W-A_p	YFL041W-A	hom			0.0174588584854488	0.312831441732208	1396	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YNL248C	RPA49	hom	FT	NUCLEUS	0.0174557426085509	0.312917824178509	1397	RNA polymerase I subunit A49	transcription elongation from RNA polymerase I promoter|transcription of nuclear large rRNA transcript from RNA polymerase I promoter|regulation of cell size	molecular_function	DNA-directed RNA polymerase I complex
YNL047C	SLM2	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|SIGNALING|CYTOSKELETON ORGANIZATION|PLASMA MEMBRANE	0.0174293415607558	0.315248692471014	1398	Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm1p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; phosphorylated by the TORC2 complex; SLM2 has a paralog, SLM1, that arose from the whole genome duplication	eisosome assembly|TOR signaling cascade|regulation of cell growth|actin filament bundle assembly|endosomal transport|establishment or maintenance of actin cytoskeleton polarity|actin cytoskeleton organization	phosphatidylinositol binding	plasma membrane
YHR080C	YHR080C	hom	FT	MITOCHONDRION	0.0174195610160485	0.313994468675421	1399	Protein of unknown function; may interact with ribosomes, based on co-purification experiments; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YHR080C has a paralog, YSP2, that arose from the whole genome duplication	biological_process	molecular_function	mitochondrion|ribosome
YDR334W	SWR1	hom	FF|FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0174068879406514	0.314274290450176	1400	Swi2/Snf2-related ATPase that is the structural component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A	chromatin remodeling|histone exchange	structural molecule activity	Swr1 complex|nucleus
YMR129W	POM152	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CYTOSKELETON ORGANIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION|NUCLEAR PORE	0.0173945295387642	0.314618037266101	1401	Glycoprotein subunit of the transmembrane ring of the nuclear pore complex (NPC); contributes to nucleocytoplasmic transport, NPC biogenesis and spindle pole body duplication; homologous to human NUP210	nucleocytoplasmic transport|nuclear pore organization|protein import into nucleus|spindle pole body duplication associated with nuclear envelope	protein anchor|structural constituent of nuclear pore	mitochondrion|integral to membrane|nuclear pore transmembrane ring|nuclear envelope lumen|nuclear pore
YBR008C	FLR1	hom	FT	PLASMA MEMBRANE	0.0173856632718517	0.314864803101143	1402	Plasma membrane transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; involved in efflux of fluconazole, diazaborine, benomyl, methotrexate, and other drugs; expression induced in cells treated with the mycotoxin patulin; relocalizes from nucleus to plasma membrane upon DNA replication stress	drug transmembrane transport|transmembrane transport	fluconazole transporter activity|drug transmembrane transporter activity	integral to membrane|plasma membrane
YPL005W	AEP3	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0173754972660467	0.315510233748217	1403	Protein that may facilitate use of unformylated tRNA-Met in mitochondrial translation initiation; localized to the matrix face of the mitochondrial inner membrane; stabilizes the bicistronic AAP1-ATP6 mRNA	mRNA metabolic process|mitochondrial translational initiation	molecular_function	mitochondrion|mitochondrial inner membrane|cytoplasm|extrinsic to membrane
YGL213C	SKI8	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|NUCLEUS|CHROMOSOME	0.0173751926756351	0.315156384311745	1404	Ski complex component and WD-repeat protein, mediates 3'-5' RNA degradation by the cytoplasmic exosome; also required for meiotic double-strand break recombination; null mutants have superkiller phenotype	nuclear-transcribed mRNA catabolic process, exonucleolytic, 3'-5'|nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|protein complex assembly|nuclear-transcribed mRNA catabolic process, non-stop decay|protein-DNA complex assembly|reciprocal meiotic recombination	molecular_function	Ski complex|nuclear chromosome
YGL026C	TRP5	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0173731483092072	0.31521333574265	1405	Tryptophan synthase, catalyzes the last step of tryptophan biosynthesis; regulated by the general control system of amino acid biosynthesis	tryptophan biosynthetic process	tryptophan synthase activity	nucleus|cytoplasm
YOR018W	ROD1	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PLASMA MEMBRANE	0.0173334203534035	0.31632140864506	1406	Membrane protein, binds the ubiquitin ligase Rsp5p via its 2 PY motifs; overexpression confers resistance to the GST substrate o-dinitrobenzene, zinc, and calcium; proposed to regulate the endocytosis of plasma membrane proteins; protein abundance increases in response to DNA replication stress; ROD1 has a paralog, ROG3, that arose from the whole genome duplication	response to drug|ubiquitin-dependent endocytosis	ubiquitin protein ligase binding	plasma membrane
YER175W-A_p	YER175W-A	hom			0.0172808724278195	0.31779097048397	1407	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YCL001W-B_p	YCL001W-B	hom			0.0172453921606325	0.318785741354308	1408	Putative protein of unknown function; present in a region duplicated between chromosomes XIV and III; YCL001W-B has a paralog, DOM34, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YGR269W_d	YGR269W	hom			0.017211306794639	0.319743320136381	1409	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF HUA1/YGR268C	Unknown	Unknown	Unknown
YCL040W	GLK1	hom	FT	CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0171960729631461	0.320751880373895	1410	Glucokinase; catalyzes the phosphorylation of glucose at C6 in the first irreversible step of glucose metabolism; one of three glucose phosphorylating enzymes; expression regulated by non-fermentable carbon sources; GLK1 has a paralog, EMI2, that arose from the whole genome duplication	glucose import|mannose metabolic process|glycolysis|glucose metabolic process	glucokinase activity	cytosol|plasma membrane
YDR240C	SNU56	het	FT	RNA PROCESSING|NUCLEUS	0.0171480557077981	0.321525245157011	1411	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart; interacts with mRNA in commitment complex	mRNA splicing, via spliceosome	mRNA binding	commitment complex|U1 snRNP|U2-type prespliceosome
YJL217W	REE1	hom			0.0171381892263581	0.321803789331099	1412	Cytoplasmic protein involved in the regulation of enolase (ENO1); mRNA expression is induced by calcium shortage, copper deficiency (via Mac1p) and the presence of galactose (via Gal4p); mRNA expression is also regulated by the cell cycle	biological_process	molecular_function	cytoplasm
YKR006C	MRPL13	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.017080471238849	0.323436400171737	1413	Mitochondrial ribosomal protein of the large subunit, not essential for mitochondrial translation	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YDR181C	SAS4	hom	FT	CHROMATIN ORGANIZATION|PROTEOLYSIS|GENE SILENCING|NUCLEUS|CHROMOSOME|HISTONE ACETYLTRANSFERASE	0.0170720916016944	0.323673874332365	1414	Subunit of the SAS complex (Sas2p, Sas4p, Sas5p), which acetylates free histones and nucleosomes and regulates transcriptional silencing; required for the HAT activity of Sas2p	chromatin silencing at telomere	acetyltransferase activity|histone acetyltransferase activity	nuclear chromatin|SAS acetyltransferase complex|nuclear chromosome, telomeric region
YCL029C	BIK1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|NUCLEUS|SITE OF POLARIZED GROWTH|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0170706045078914	0.323933329537965	1415	Microtubule-associated protein, component of the interface between microtubules and kinetochore, involved in sister chromatid separation; essential in polyploid cells but not in haploid or diploid cells; ortholog of mammalian CLIP-170	karyogamy involved in conjugation with cellular fusion|mitotic anaphase B|negative regulation of microtubule polymerization|nuclear migration involved in conjugation with cellular fusion|mitotic spindle organization in nucleus|mitotic spindle elongation	microtubule binding|protein homodimerization activity	spindle microtubule|microtubule plus end|spindle pole body|cell cortex|condensed nuclear chromosome kinetochore|mating projection tip|kinetochore|spindle
YPL183C	RTT10	hom	FT	VESICLE-MEDIATED TRANSPORT	0.0170602260342996	0.324227628331504	1416	WD40 domain-containing protein involved in endosomal recycling; forms a complex with Rrt2p that functions in the retromer-mediated pathway for recycling internalized cell-surface proteins; evidence it interacts with Trm7p for 2'-O-methylation of N34 of substrate tRNAs; has a role in regulation of Ty1 transposition; human ortholog is WDR6	endocytic recycling	molecular_function	endosome|cytoplasm
YBR056W-A_p	YBR056W-A	hom			0.0170356806104723	0.324707059527847	1417	Protein of unknown function; mRNA identified as translated by ribosome profiling data; partially overlaps the dubious ORF YBR056C-B	biological_process	molecular_function	cellular_component
YOL075C_p	YOL075C	hom	FT	NUCLEOTIDE METABOLISM	0.016990681891973	0.325986888211244	1418	Putative ABC transporter	transport	ATPase activity, coupled to transmembrane movement of substances	integral to membrane|membrane
YLR243W	GPN3	het	FT	PROTEIN LOCALIZATION	0.0169578174709163	0.326923668246542	1419	Putative GTPase with a role in biogenesis of RNA pol II and polIII; may be involved in assembly of RNA polymerases II and III and in their transport into the nucleus; contains a Gly-Pro-Asn motif in the G domain; similar to Npa3p and Gpn2p	biological_process	signal sequence binding	cellular_component
YOR226C	ISU2	hom	FT	RNA PROCESSING|ION HOMEOSTASIS|ION HOMEOSTASIS|COFACTOR METABOLISM|MITOCHONDRION	0.016956121487288	0.32697205858676	1420	Protein required for synthesis of iron-sulfur proteins; localized to the mitochondrial matrix; performs a scaffolding function in mitochondria during Fe/S cluster assembly; involved in Fe-S cluster assembly for both mitochondrial and cytosolic proteins; isu1 isu2 double mutant is inviable; protein abundance increases in response to DNA replication stress; evolutionarily conserved	cellular iron ion homeostasis|iron-sulfur cluster assembly|tRNA wobble uridine modification	molecular_function	mitochondrial matrix
YOL112W	MSB4	hom	FT	SIGNALING|NUCLEOTIDE METABOLISM|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH	0.0169354344011808	0.327562683287032	1421	GTPase-activating protein of the Ras superfamily that acts primarily on Sec4p, localizes to the bud site and bud tip, has similarity to Msb3p; msb3 msb4 double mutation causes defects in secretion and actin organization	actin filament organization	Rab GTPase activator activity	incipient cellular bud site|polarisome|cellular bud tip
YML004C	GLO1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0169221507399139	0.327942301899511	1422	Monomeric glyoxalase I, catalyzes the detoxification of methylglyoxal (a by-product of glycolysis) via condensation with glutathione to produce S-D-lactoylglutathione; expression regulated by methylglyoxal levels and osmotic stress	methylglyoxal catabolic process to D-lactate|glutathione metabolic process	lactoylglutathione lyase activity	nucleus|cytoplasm
YMR122C_d	YMR122C	hom			0.0169204016887515	0.327992307287577	1423	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YPR127W	YPR127W	hom	FT	OXIDATION-REDUCTION PROCESS|NUCLEUS	0.0169079254015512	0.328349147875099	1424	Putative pyridoxine 4-dehydrogenase; differentially expressed during alcoholic fermentation; expression activated by transcription factor YRM1/YOR172W; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus	biological_process	molecular_function	nucleus|cytoplasm
YPL266W	DIM1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0169005842652803	0.328559232985943	1425	Essential 18S rRNA dimethylase (dimethyladenosine transferase), responsible for conserved m6(2)Am6(2)A dimethylation in 3'-terminal loop of 18S rRNA, part of 90S and 40S pre-particles in nucleolus, involved in pre-ribosomal RNA processing	rRNA modification|rRNA processing	rRNA (adenine-N6,N6-)-dimethyltransferase activity	nucleolus|90S preribosome
YKR072C	SIS2	hom	FF|FT	CELL CYCLE|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.0168650142935031	0.329868031986784	1426	Negative regulatory subunit of protein phosphatase 1 Ppz1p and also a subunit of the phosphopantothenoylcysteine decarboxylase (PPCDC; Cab3p, Sis2p, Vhs3p) complex, which catalyzes the third step of coenzyme A biosynthesis	regulation of mitotic cell cycle|response to salt stress|coenzyme A biosynthetic process	phosphopantothenoylcysteine decarboxylase activity|protein phosphatase inhibitor activity	phosphopantothenoylcysteine decarboxylase complex|nucleus|cytoplasm
YGL178W	MPT5	hom	FT	TRANSLATION	0.0168614273348855	0.329826055282358	1427	mRNA-binding protein of the PUF family; binds to the 3' UTR of specific mRNAs, including those involved in mating type switching, cell wall integrity, chronological lifespan, chromatin modification, and spindle pole body architecture; recruits the CCR4-NOT deadenylase complex to mRNAs along with Dhh1p and Dcp1p to promote deadenylation, decapping, and decay; also interacts with the Caf20p translational initiation repressor, affecting its mRNA target specificity	negative regulation of translation|negative regulation of translational initiation|Unknown	mRNA binding|protein binding, bridging	cytoplasm
YKR079C	TRZ1	het	FT	RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.0168487046062474	0.330408469322215	1428	tRNA 3'-end processing endonuclease tRNase Z; also localized to mitochondria and interacts genetically with Rex2 exonuclease; homolog of the human candidate prostate cancer susceptibility gene ELAC2	tRNA 3'-trailer cleavage, endonucleolytic	3'-tRNA processing endoribonuclease activity	mitochondrion|nucleus|cytoplasm
YNL298W	CLA4	hom	FF|FT	CELL CYCLE|SIGNALING|CELL DIVISION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0168391877055993	0.331189530258951	1429	Cdc42p-activated signal transducing kinase of the PAK (p21-activated kinase) family, along with Ste20p and Skm1p; involved in septin ring assembly, vacuole inheritance, cytokinesis, sterol uptake regulation; phosphorylates Cdc3p and Cdc10p	negative regulation of gene expression|vacuole inheritance|protein phosphorylation|budding cell apical bud growth|Rho protein signal transduction|regulation of exit from mitosis|establishment of cell polarity|sterol import|response to pheromone|cytokinesis	protein serine/threonine kinase activity|protein kinase activity	nucleus|cellular bud|fungal-type vacuole
YJL109C	UTP10	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.0168340986250213	0.330755467084207	1430	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA; mutant has increased aneuploidy tolerance	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|positive regulation of transcription from RNA polymerase I promoter|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	mitochondrion|90S preribosome|small-subunit processome|preribosome, small subunit precursor|integral to membrane|t-UTP complex|rDNA heterochromatin|nucleolus
YDL045W-A	MRP10	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0167363056721268	0.333645203520117	1431	Mitochondrial ribosomal protein of the small subunit; contains twin cysteine-x9-cysteine motifs	mitochondrial translation|mitochondrial respiratory chain complex assembly	structural constituent of ribosome	mitochondrial small ribosomal subunit
YDR179W-A_p	YDR179W-A	hom			0.0167231567314524	0.333663256265697	1432	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YHR202W_p	YHR202W	hom	FT	NUCLEOTIDE METABOLISM	0.0167191040005819	0.333780434505946	1433	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole, while HA-tagged protein is found in the soluble fraction, suggesting cytoplasmic localization	biological_process	molecular_function	cytosol|fungal-type vacuole
YOR077W	RTS2	het	FT	NUCLEUS	0.0167186802560121	0.333792687935332	1434	Basic zinc-finger protein, similar to human and mouse Kin17 proteins which are chromatin-associated proteins involved in UV response and DNA replication	biological_process	molecular_function	nucleus|cytoplasm
YGL086W	MAD1	hom	FT	CELL CYCLE|CELL DIVISION|ENDOMEMBRANE SYSTEM|NUCLEUS|CHROMOSOME|NUCLEAR PORE|KINETOCHORE	0.0166953890236728	0.334466646989255	1435	Coiled-coil protein involved in the spindle-assembly checkpoint; required for inhibition of karyopherin/importin Pse1p (aka Kap121p) upon spindle assembly checkpoint arrest; phosphorylated by Mps1p upon checkpoint activation which leads to inhibition of the activity of the anaphase promoting complex; forms a complex with Mad2p	nucleocytoplasmic transport|mitotic cell cycle spindle assembly checkpoint|mitotic cell cycle G2/M transition decatenation checkpoint	molecular_function	nucleus|nuclear pore|kinetochore
YPR027C_p	YPR027C	hom			0.0165791908799599	0.337842063172568	1436	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YKR034W	DAL80	hom	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0165640329611547	0.338283989727161	1437	Negative regulator of genes in multiple nitrogen degradation pathways; expression is regulated by nitrogen levels and by Gln3p; member of the GATA-binding family, forms homodimers and heterodimers with Gzf3p; DAL80 has a paralog, GZF3, that arose from the whole genome duplication	nitrogen catabolite repression of transcription|negative regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus
YDR246W	TRS23	het	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0165583095160284	0.338450952253543	1438	One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; involved in endoplasmic reticulum (ER) to Golgi membrane traffic; human homolog is TRAPPC4	chromosome organization|ER to Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	TRAPP complex
YLR255C_d	YLR255C	hom			0.0165103843030968	0.339851086153166	1439	Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR363W	ESC2	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|GENE SILENCING|NUCLEUS	0.0164992006687823	0.340178349129579	1440	Sumo-like domain protein; prevents accumulation of toxic intermediates during replication-associated recombinational repair; roles in silencing, lifespan, chromatid cohesion and the intra-S-phase DNA damage checkpoint; RENi family member	intra-S DNA damage checkpoint|double-strand break repair via homologous recombination|chromatin silencing at silent mating-type cassette|mitotic sister chromatid cohesion	molecular_function	nucleus
YHL025W	SNF6	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CARBOHYDRATE METABOLISM|NUCLEUS|RSC COMPLEX	0.0164786969874397	0.34077886569613	1441	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf5p; relocates to the cytosol under hypoxic conditions	sucrose catabolic process|nucleotide-excision repair|chromatin remodeling|positive regulation of transcription from RNA polymerase II promoter	molecular_function	SWI/SNF complex|nucleus
YGL109W_d	YGL109W	hom			0.0164573273316635	0.341405466944061	1442	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the uncharacterized gene YGL108C	Unknown	Unknown	Unknown
YDL043C	PRP11	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0164107138841597	0.342774822726418	1443	Subunit of the SF3a splicing factor complex, required for spliceosome assembly	spliceosomal complex assembly	RNA binding	U2 snRNP|U2-type prespliceosome
YJL160C_p	YJL160C	hom			0.0164094978945198	0.34281059156079	1444	Putative protein of unknown function; member of the PIR (proteins with internal repeats) family of cell wall proteins; non-essential gene that is required for sporulation; mRNA is weakly cell cycle regulated, peaking in mitosis; YJL160C has a paralog, PIR1, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YFR041C	ERJ5	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0164027734489309	0.34329746748488	1445	Type I membrane protein with a J domain is required to preserve the folding capacity of the endoplasmic reticulum; loss of the non-essential ERJ5 gene leads to a constitutively induced unfolded protein response	protein folding	molecular_function	endoplasmic reticulum
YBR285W_p	YBR285W	hom			0.0163829363339288	0.343592505666546	1446	Putative protein of unknown function; YBR285W is not an essential gene	biological_process	molecular_function	cellular_component
YBR156C	SLI15	hom	FT	CELL DIVISION|PROTEIN PHOSPHORYLATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON	0.0163826689846423	0.344178698565367	1447	Subunit of the conserved chromosomal passenger complex (CPC; Ipl1p-Sli15p-Bir1p-Nbl1p), which regulates kinetochore-microtubule attachments, activation of the spindle tension checkpoint, and mitotic spindle disassembly	chromosome segregation|protein phosphorylation|regulation of cytokinesis	protein kinase activator activity	spindle microtubule|spindle midzone|chromosome passenger complex|kinetochore microtubule
YLR284C	ECI1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0163823968425726	0.343752854727185	1448	Peroxisomal delta3,delta2-enoyl-CoA isomerase, hexameric protein that converts 3-hexenoyl-CoA to trans-2-hexenoyl-CoA, essential for the beta-oxidation of unsaturated fatty acids, oleate-induced	fatty acid beta-oxidation	dodecenoyl-CoA delta-isomerase activity	peroxisome
YLR261C_d	VPS63	hom	FF		0.0163207605015832	0.345427273601782	1449	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene YPT6; deletion causes a vacuolar protein sorting defect	Unknown	Unknown	Unknown
YOR162C	YRR1	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0162734219448878	0.346828381292152	1450	Zn2-Cys6 zinc-finger transcription factor; activates genes involved in multidrug resistance; paralog of Yrm1p, acting on an overlapping set of target genes; YRR1 has a paralog, PDR8, that arose from the whole genome duplication	regulation of transcription from RNA polymerase II promoter in response to oxidative stress|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|sequence-specific DNA binding RNA polymerase II transcription factor activity	nucleus
YHR185C	PFS1	hom	FT	CELL WALL ORG/BIOGENESIS|NUCLEUS|CYTOSKELETON	0.0162602086992775	0.347220106267939	1451	Sporulation protein required for prospore membrane formation at selected spindle poles, ensures functionality of all four spindle pole bodies during meiosis II; not required for meiotic recombination or meiotic chromosome segregation	ascospore wall assembly	molecular_function	cellular_component
YLR248W	RCK2	hom	FT	CELL CYCLE|SIGNALING|PROTEIN PHOSPHORYLATION|RESPONSE TO OXIDATIVE STRESS	0.0162538410610737	0.347408984165275	1452	Protein kinase involved in response to oxidative and osmotic stress; identified as suppressor of S. pombe cell cycle checkpoint mutations; similar to CaM (calmodulin) kinases; RCK2 has a paralog, RCK1, that arose from the whole genome duplication	cellular response to oxidative stress|protein phosphorylation|osmosensory signaling pathway|regulation of meiosis	protein serine/threonine kinase activity|protein kinase activity	cytoplasm
YNL130C	CPT1	hom	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION|GOLGI APPARATUS	0.016252143184854	0.347459357870621	1453	Cholinephosphotransferase; required for phosphatidylcholine biosynthesis and for inositol-dependent regulation of EPT1 transcription; CPT1 has a paralog, EPT1, that arose from the whole genome duplication	CDP-choline pathway	diacylglycerol cholinephosphotransferase activity	mitochondrial outer membrane|integral to membrane|Golgi apparatus
YDR200C	VPS64	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|SIGNALING|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.01622105624589	0.348382486445398	1454	Protein required for cytoplasm to vacuole targeting of proteins; forms a complex with Far3p and Far7p to Far11p involved in recovery from pheromone-induced cell cycle arrest; mutant has increased aneuploidy tolerance	re-entry into mitotic cell cycle after pheromone arrest|protein targeting to vacuole	molecular_function	endoplasmic reticulum membrane|cytoplasm
YLL047W_d	YLL047W	hom			0.0162106879952271	0.348690718441901	1455	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene RNP1	Unknown	Unknown	Unknown
YLL003W	SFI1	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.0161511051283183	0.350465380313321	1456	Centrin (Cdc31p)-binding protein required for spindle pole body (SPB) duplication, localizes to the half-bridge of the SPB, required for progression through G(2)-M transition, has similarity to Xenopus laevis XCAP-C	G2/M transition of mitotic cell cycle|spindle assembly|spindle pole body duplication associated with nuclear envelope	molecular_function	half bridge of spindle pole body
YNL318C	HXT14	hom	FT	MITOCHONDRION|PLASMA MEMBRANE	0.0161418582173379	0.350741309748919	1457	Protein with similarity to hexose transporter family members, expression is induced in low glucose and repressed in high glucose; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	hexose transport	galactose transmembrane transporter activity	mitochondrion|integral to membrane|plasma membrane
YMR261C	TPS3	hom	FT	CARBOHYDRATE METABOLISM	0.0161264232272609	0.351202199142338	1458	Regulatory subunit of trehalose-6-phosphate synthase/phosphatase; involved in synthesis of storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway; TPS3 has a paralog, TSL1, that arose from the whole genome duplication	trehalose biosynthetic process|response to stress	enzyme regulator activity|alpha,alpha-trehalose-phosphate synthase (UDP-forming) activity|trehalose-phosphatase activity	alpha,alpha-trehalose-phosphate synthase complex (UDP-forming)
YMR220W	ERG8	het	FT	LIPID METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.016119480434658	0.351409636220539	1459	Phosphomevalonate kinase, an essential cytosolic enzyme that acts in the biosynthesis of isoprenoids and sterols, including ergosterol, from mevalonate	organic acid phosphorylation|ergosterol biosynthetic process|isopentenyl diphosphate biosynthetic process, mevalonate pathway|farnesyl diphosphate biosynthetic process, mevalonate pathway	phosphomevalonate kinase activity	nucleus|cytoplasm
YBR269C_p	FMP21	hom	FT	MITOCHONDRION	0.0160776445109788	0.352661253799882	1460	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YDL024C	DIA3	hom			0.0160577906869443	0.353833118937573	1461	Protein of unknown function, involved in invasive and pseudohyphal growth	pseudohyphal growth|invasive growth in response to glucose limitation	acid phosphatase activity	fungal-type cell wall
YOR289W_p	YOR289W	hom	FT	NUCLEUS	0.0160359486870459	0.354632678612583	1462	Putative protein of unknown function; transcription induced by the unfolded protein response; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus	biological_process	molecular_function	nucleus|cytoplasm
YLR298C	YHC1	het	FT	RNA PROCESSING|NUCLEUS	0.0160330985691987	0.353997042983857	1463	Component of the U1 snRNP complex required for pre-mRNA splicing; putative ortholog of human U1C protein, which is involved in formation of a complex between U1 snRNP and the pre-mRNA 5' splice site	mRNA splicing, via spliceosome	mRNA binding	commitment complex|U1 snRNP|U2-type prespliceosome
YGL047W	ALG13	het	FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0160308519202449	0.354064497282619	1464	Catalytic component of UDP-GlcNAc transferase; required for the second step of dolichyl-linked oligosaccharide synthesis; anchored to the ER membrane via interaction with Alg14p; similar to bacterial and human glycosyltransferases; protein abundance increases in response to DNA replication stress	dolichol-linked oligosaccharide biosynthetic process	N-acetylglucosaminyldiphosphodolichol N-acetylglucosaminyltransferase activity	cytosol|UDP-N-acetylglucosamine transferase complex|extrinsic to endoplasmic reticulum membrane|endoplasmic reticulum|nucleus|cytoplasm
YNL191W	DUG3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0159887025398546	0.355331511782301	1465	Component of glutamine amidotransferase (GATase II); forms a complex with Dug2p to degrade glutathione (GSH) and other peptides containing a gamma-glu-X bond in an alternative pathway to GSH degradation by gamma-glutamyl transpeptidase (Ecm38p)	glutathione catabolic process	peptidase activity|omega peptidase activity|gamma-glutamyltransferase activity|carbon-nitrogen ligase activity, with glutamine as amido-N-donor	cytoplasm
YPL232W	SSO1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|PLASMA MEMBRANE	0.0159794453503767	0.355610166330364	1466	Plasma membrane t-SNARE involved in fusion of secretory vesicles at the plasma membrane and in vesicle fusion during sporulation; forms a complex with Sec9p that binds v-SNARE Snc2p; syntaxin homolog; functionally redundant with Sso2p	ascospore formation|ascospore-type prospore assembly|vesicle fusion	phosphatidic acid binding|phosphatidylinositol-3,4-bisphosphate binding|phosphatidylinositol-4,5-bisphosphate binding|phosphatidylinositol-3,5-bisphosphate binding|SNAP receptor activity	SNARE complex|fungal-type vacuole membrane|plasma membrane|prospore membrane
YLL060C	GTT2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0159518950850428	0.356440283367144	1467	Glutathione S-transferase capable of homodimerization; functional overlap with Gtt2p, Grx1p, and Grx2p; protein abundance increases in response to DNA replication stress	glutathione metabolic process	glutathione transferase activity	mitochondrion
YIR025W	MND2	hom	FT	CELL CYCLE|CELL DIVISION|PROTEOLYSIS|CHROMOSOME SEGREGATION|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0159411717252454	0.35676371869867	1468	Subunit of the anaphase-promoting complex (APC); necessary for maintaining sister chromatid cohesion in prophase I of meiosis by inhibiting premature ubiquitination and subsequent degradation of substrates by the APC(Ama1) ubiquitin ligase	anaphase-promoting complex-dependent proteasomal ubiquitin-dependent protein catabolic process|reciprocal meiotic recombination|regulation of mitotic metaphase/anaphase transition|protein ubiquitination|mitotic sister chromatid segregation	molecular_function	nucleus|anaphase-promoting complex
YJR152W	DAL5	hom	FT	PLASMA MEMBRANE	0.015899978394407	0.358295773569065	1469	Allantoate permease; ureidosuccinate permease; also transports dipeptides, though with lower affinity than for allantoate and ureidosuccinate; expression is constitutive but sensitive to nitrogen catabolite repression	dipeptide transport|allantoate transport	dipeptide transporter activity|allantoate transmembrane transporter activity	integral to membrane|plasma membrane
YLR412W	BER1	hom	FT	CYTOSKELETON	0.0158936778802458	0.358198437414976	1470	Protein involved in microtubule-related processes, N-acetylation; GFP-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YLR412W is not an essential gene; similar to Arabidopsis SRR1 gene	biological_process	molecular_function	cytoplasm
YPL196W	OXR1	hom	FT	RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.0158903542063189	0.35829897633256	1471	Protein of unknown function required for normal levels of resistance to oxidative damage, null mutants are sensitive to hydrogen peroxide; member of a conserved family of proteins found in eukaryotes	cellular response to oxidative stress	molecular_function	mitochondrion
YBR014C	GRX7	hom	FT	RESPONSE TO OXIDATIVE STRESS|GOLGI APPARATUS	0.0158739768566462	0.358794639303741	1472	Cis-golgi localized monothiol glutaredoxin; more similar in activity to dithiol than other monothiol glutaredoxins; involved in the oxidative stress response; does not bind metal ions; GRX7 has a paralog, GRX6, that arose from the whole genome duplication	cellular response to oxidative stress	glutathione-disulfide reductase activity|protein homodimerization activity	integral to membrane|Golgi apparatus|Golgi lumen|fungal-type vacuole|cis-Golgi network
YOL005C	RPB11	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0158693303262641	0.359007262554696	1473	RNA polymerase II subunit B12.5; part of central core; similar to Rpc19p and bacterial alpha subunit	termination of RNA polymerase II transcription|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|DNA-directed RNA polymerase activity	DNA-directed RNA polymerase II, core complex
YPR053C_d	YPR053C	hom			0.015790681998907	0.361322234835322	1474	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene NHP6A/YPR052C	Unknown	Unknown	Unknown
YDR309C	GIC2	hom	FT	CELL CYCLE|SIGNALING|CELL DIVISION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.0157736164007737	0.362272837272401	1475	Redundant rho-like GTPase Cdc42p effector; homolog of Gic1p; involved in initiation of budding and cellular polarization; interacts with Cdc42p via the Cdc42/Rac-interactive binding (CRIB) domain and with PI(4,5)P2 via a polybasic region	regulation of exit from mitosis|establishment of cell polarity|axial cellular bud site selection|Rho protein signal transduction	Rho GTPase binding|Rho GTPase activator activity|phosphatidylinositol-4,5-bisphosphate binding	incipient cellular bud site|actin cap|plasma membrane|mating projection tip|cellular bud tip
YJR064W	CCT5	het			0.0157662635653164	0.362280905606864	1476	Subunit of the cytosolic chaperonin Cct ring complex, related to Tcp1p, required for the assembly of actin and tubulins in vivo	protein folding	unfolded protein binding	chaperonin-containing T-complex
YFR024C-A	LSB3	hom	FT	MITOCHONDRION|SITE OF POLARIZED GROWTH	0.0157603298161049	0.362246044155606	1477	Protein containing a C-terminal SH3 domain; binds Las17p, which is a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization; protein abundance increases in response to DNA replication stress; LSB3 has a paralog, YSC84, that arose from the whole genome duplication	actin cortical patch localization	molecular_function	mitochondrion|cellular bud neck|cytoplasm
YML091C	RPM2	het	FT	TRANSCRIPTION FROM RNA POL II|RNA PROCESSING|TRANSLATION|MITOCHONDRION ORGANIZATION|NUCLEUS|MITOCHONDRION	0.0157581190645633	0.362313389073278	1478	Protein subunit of mitochondrial RNase P, has roles in nuclear transcription, cytoplasmic and mitochondrial RNA processing, and mitochondrial translation; distributed to mitochondria, cytoplasmic processing bodies, and the nucleus	cytoplasmic translation|tRNA 5'-leader removal|mRNA processing|mitochondrion organization|RNA processing|positive regulation of transcription from RNA polymerase II promoter	ribonuclease P activity	mitochondrion|nucleus|mitochondrial matrix|cytoplasmic mRNA processing body|mitochondrial ribonuclease P complex
YKL167C	MRP49	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0157235537922345	0.363367351330679	1479	Mitochondrial ribosomal protein of the large subunit, not essential for mitochondrial translation	mitochondrial translation	structural constituent of ribosome	mitochondrion|mitochondrial large ribosomal subunit
YOL101C	IZH4	hom	FT	LIPID METABOLISM|ION HOMEOSTASIS|ION HOMEOSTASIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0157078309947643	0.363847403788389	1480	Membrane protein involved in zinc ion homeostasis; member of the four-protein IZH family; expression induced by fatty acids and altered zinc levels; deletion reduces sensitivity to excess zinc; possible role in sterol metabolism; protein increases in abundance and relocalizes from nucleus to ER upon DNA replication stress	cellular zinc ion homeostasis|cellular lipid metabolic process	metal ion binding	integral to membrane|membrane
YGL135W	RPL1B	hom	FT	TRANSLATION|RIBOSOME	0.0156799804084196	0.364698717539565	1481	Ribosomal 60S subunit protein L1B; N-terminally acetylated; homologous to mammalian ribosomal protein L10A and bacterial L1; RPL1B has a paralog, RPL1A, that arose from the whole genome duplication; rpl1a rpl1b double null mutation is lethal	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YBR180W	DTR1	hom	FT	CELL WALL ORG/BIOGENESIS	0.0156782951001156	0.364750272539064	1482	Putative dityrosine transporter of the major facilitator superfamily; member of the 12-spanner drug:H(+) antiporter DHA1 family; required for spore wall synthesis; expressed during sporulation	ascospore wall assembly|amine transport|transmembrane transport	amine transmembrane transporter activity	integral to membrane|prospore membrane
YOL066C	RIB2	het	FT	RNA PROCESSING	0.0156648628824661	0.365376674023925	1483	Bifunctional enzyme with DRAP deaminase and tRNA:pseudouridine synthase activity; the deaminase catalyzes the third step in riboflavin biosynthesis and the synthase catalyzes formation of pseudouridine at position 32 in cytoplasmic tRNAs	riboflavin biosynthetic process|tRNA pseudouridine synthesis	pseudouridine synthase activity|2,5-diamino-6-ribitylamino-4(3H)-pyrimidinone 5'-phosphate deaminase activity	cytoplasm
YML054C	CYB2	hom	FT	KETONE METABOLISM|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.0156592636782153	0.365332775614455	1484	Cytochrome b2 (L-lactate cytochrome-c oxidoreductase), component of the mitochondrial intermembrane space, required for lactate utilization; expression is repressed by glucose and anaerobic conditions	lactate metabolic process	L-lactate dehydrogenase (cytochrome) activity	mitochondrion|mitochondrial intermembrane space
YCR084C	TUP1	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|LIPID METABOLISM|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0156525523823977	0.36553832958298	1485	General repressor of transcription, forms complex with Cyc8p, involved in the establishment of repressive chromatin structure through interactions with histones H3 and H4, appears to enhance expression of some genes	nucleosome positioning|regulation of transcription from RNA polymerase II promoter in response to osmotic stress|histone exchange|negative regulation of mating-type specific transcription from RNA polymerase II promoter|negative regulation of transcription from RNA polymerase II promoter by glucose|negative regulation of dipeptide transport by negative regulation of transcription from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter in response to hypoxia|negative regulation of transcription from RNA polymerase II promoter during mitosis|Unknown	ubiquitin binding|histone deacetylase binding|histone binding|phosphatidylinositol-3,5-bisphosphate binding|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription|mediator complex binding	nucleus|transcriptional repressor complex
YAR031W	PRM9	hom	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.015626381113855	0.366555833388635	1486	Pheromone-regulated protein with 3 predicted transmembrane segments and an FF sequence, a motif involved in COPII binding; member of DUP240 gene family	vesicle organization	molecular_function	integral to membrane|endoplasmic reticulum|plasma membrane
YDR127W	ARO1	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0156246417976174	0.367760076866135	1487	Pentafunctional arom protein, catalyzes steps 2 through 6 in the biosynthesis of chorismate, which is a precursor to aromatic amino acids	aromatic amino acid family biosynthetic process	shikimate kinase activity|shikimate 3-dehydrogenase (NADP+) activity|3-phosphoshikimate 1-carboxyvinyltransferase activity|3-dehydroquinate dehydratase activity|3-dehydroquinate synthase activity	cytoplasm
YOR271C_p	FSF1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION	0.0156170551643495	0.366841956063618	1488	Putative protein, predicted to be an alpha-isopropylmalate carrier; belongs to the sideroblastic-associated protein family; non-tagged protein is detected in purified mitochondria; likely to play a role in iron homeostasis	biological_process	molecular_function	mitochondrion|integral to membrane
YJR125C	ENT3	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS|CYTOSKELETON	0.0156129674854975	0.366752205817076	1489	Protein containing an N-terminal epsin-like domain involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p	late endosome to vacuole transport via multivesicular body sorting pathway|early endosome to Golgi transport|actin filament organization|endocytosis|actin cortical patch assembly|Golgi to endosome transport	protein binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding	clathrin vesicle coat|actin cortical patch
YPR031W	NTO1	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.0155842742348082	0.367633656730755	1490	Subunit of the NuA3 histone acetyltransferase complex that acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3	histone acetylation	histone acetyltransferase activity|methylated histone residue binding	nucleus|NuA3 histone acetyltransferase complex|cytoplasm
YMR314W	PRE5	het	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION	0.0155746194468056	0.368289153192149	1491	Alpha 6 subunit of the 20S proteasome; protein abundance increases in response to DNA replication stress	proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	molecular_function	mitochondrion|proteasome core complex, alpha-subunit complex|proteasome storage granule|nucleus|nuclear outer membrane-endoplasmic reticulum membrane network
YDR182W-A_p	YDR182W-A	hom			0.0155726352239556	0.367991580520297	1492	Putative protein of unknown function; identified by fungal homology and RT-PCR	biological_process	molecular_function	cellular_component
YHR181W	SVP26	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0155663158260962	0.368186005958941	1493	Integral membrane protein of the early Golgi apparatus and endoplasmic reticulum, involved in COP II vesicle transport; may also function to promote retention of proteins in the early Golgi compartment	protein retention in Golgi apparatus|fungal-type cell wall organization|protein glycosylation|ER to Golgi vesicle-mediated transport	COPII adaptor activity	integral to endoplasmic reticulum membrane|integral to membrane|endoplasmic reticulum|integral to Golgi membrane|ER to Golgi transport vesicle
YPL072W	UBP16	hom	FT	PROTEOLYSIS|MITOCHONDRION	0.0155494298417628	0.368705841263492	1494	Deubiquitinating enzyme anchored to the outer mitochondrial membrane, probably not important for general mitochondrial functioning, but may perform a more specialized function at mitochondria	protein deubiquitination	ubiquitin-specific protease activity	mitochondrial outer membrane|cytoplasm
YOR304C-A_p	YOR304C-A	hom	FT	SITE OF POLARIZED GROWTH	0.0155405758508905	0.369265320269129	1495	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck	biological_process	molecular_function	cellular bud|mating projection tip|cellular bud neck|cytoplasm
YDR465C	RMT2	hom	FT	NUCLEUS	0.0155355272155975	0.369995233148146	1496	Arginine N5 methyltransferase; methylates ribosomal protein Rpl12 (L12) on Arg67; relative distribution to the nucleus increases upon DNA replication stress	peptidyl-arginine methylation	protein-arginine N5-methyltransferase activity	nucleus|cytoplasm
YPL260W	YPL260W	hom	FT	NUCLEUS	0.0155204692906245	0.369670088912168	1497	Putative substrate of cAMP-dependent protein kinase (PKA); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YPL260W is not an essential gene; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	nucleus|cytoplasm
YPL120W	VPS30	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|MEMBRANE ORGANIZATION|PROTEOLYSIS|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS|PEROXISOME ORGANIZATION	0.0155092021631488	0.370017713114511	1498	Subunit of phosphatidylinositol (PtdIns) 3-kinase complexes I and II; Complex I is essential in autophagy and Complex II is required for vacuolar protein sorting; required for overflow degradation of misfolded proteins when ERAD is saturated; ortholog of the higher eukaryotic gene Beclin 1	phosphatidylinositol biosynthetic process|piecemeal microautophagy of nucleus|ER-associated protein catabolic process|peroxisome degradation|retrograde transport, endosome to Golgi|macroautophagy|CVT pathway|late endosome to vacuole transport	1-phosphatidylinositol-3-kinase activity	phosphatidylinositol 3-kinase complex I|phosphatidylinositol 3-kinase complex II|extrinsic to membrane|cytoplasm
YLR431C	ATG23	hom	FT	PROTEIN LOCALIZATION|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS	0.015427648608932	0.37246838145256	1499	Peripheral membrane protein required for the cytoplasm-to-vacuole targeting (Cvt) pathway and efficient macroautophagy; cycles between the phagophore assembly site (PAS) and non-PAS locations; forms a complex with Atg9p and Atg27p	protein localization to pre-autophagosomal structure|positive regulation of macroautophagy|CVT pathway	molecular_function	pre-autophagosomal structure|extrinsic to membrane
YPL137C	GIP3	hom	FT	CHROMOSOME SEGREGATION|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0153419502164151	0.375130313668892	1500	Cytoplasmic protein that regulates protein phosphatase 1 Glc7p; overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; may interact with ribosomes, based on co-purification experiments; GIP3 has a paralog, HER1, that arose from the whole genome duplication	chromosome segregation|regulation of phosphoprotein phosphatase activity	protein phosphatase type 1 regulator activity|protein phosphatase 1 binding	mitochondrion|ribosome|endoplasmic reticulum|cytoplasm
YNL056W	OCA2	hom			0.0153178810100519	0.375880050905141	1501	Putative protein with similarity to predicted tyrosine phosphatases Oca1p and Siw14p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL056W is not an essential gene	biological_process	molecular_function	cytoplasm
YOL125W	TRM13	hom	FT	RNA PROCESSING|NUCLEUS	0.0152856373926077	0.376885862741011	1502	2'-O-methyltransferase responsible for modification of tRNA at position 4; C-terminal domain has similarity to Rossmann-fold (RFM) superfamily of RNA methyltransferases	tRNA methylation	tRNA methyltransferase activity	nucleus|cytoplasm
YLR172C	DPH5	hom			0.0152228526815394	0.37906321917517	1503	Methyltransferase required for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); not essential for viability; GFP-Dph5p fusion protein localizes to the cytoplasm	peptidyl-diphthamide biosynthetic process from peptidyl-histidine	diphthine synthase activity	cytoplasm
YKL080W	VMA5	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0151628364438315	0.380731702876897	1504	Subunit C of the eight-subunit V1 peripheral membrane domain of vacuolar H+-ATPase (V-ATPase), an electrogenic proton pump found throughout the endomembrane system; required for the V1 domain to assemble onto the vacuolar membrane	vacuolar acidification	proton-transporting ATPase activity, rotational mechanism	fungal-type vacuole membrane|vacuolar proton-transporting V-type ATPase, V1 domain|integral to membrane
YMR319C	FET4	hom	FF|FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0151617777545348	0.381264302187225	1505	Low-affinity Fe(II) transporter of the plasma membrane	intracellular copper ion transport|zinc ion transport|low-affinity iron ion transport|copper ion import	copper ion transmembrane transporter activity|iron ion transmembrane transporter activity	integral to membrane|plasma membrane|integral to plasma membrane
YLR338W_d	OPI9	hom	FF		0.0151561255907866	0.380942563147386	1506	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF VRP1/YLR337C	Unknown	Unknown	Unknown
YHR016C	YSC84	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.0151069420797391	0.382632587064738	1507	Actin-binding protein; involved in bundling of actin filaments and endocytosis of actin cortical patches; activity stimulated by Las17p; contains SH3 domain similar to Rvs167p; YSC84 has a paralog, LSB3, that arose from the whole genome duplication	endocytosis|actin filament organization|actin filament bundle assembly|actin cortical patch localization|actin cytoskeleton organization	actin filament binding	actin cortical patch
YKR057W	RPS21A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0150991476329713	0.382949422668425	1508	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21A has a paralog, RPS21B, that arose from the whole genome duplication	cytoplasmic translation|endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	cytosolic small ribosomal subunit
YBR099C_d	YBR099C	hom			0.015082595929349	0.383257615297463	1509	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified gene MMS4	Unknown	Unknown	Unknown
YBR072W	HSP26	hom	FT	NUCLEUS	0.0150775932279537	0.383415435685368	1510	Small heat shock protein (sHSP) with chaperone activity; forms hollow, sphere-shaped oligomers that suppress unfolded proteins aggregation; oligomer activation requires heat-induced conformational change; also has mRNA binding activity	protein folding|response to stress	unfolded protein binding|mRNA binding	nucleus|cytoplasm
YNL051W	COG5	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0150758592031907	0.384111461007162	1511	Component of the conserved oligomeric Golgi complex (Cog1p through Cog8p), a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments	intra-Golgi vesicle-mediated transport|CVT pathway	molecular_function	Golgi transport complex
YPL057C	SUR1	hom	FT	LIPID METABOLISM	0.0150509328346336	0.384257162706126	1512	Mannosylinositol phosphorylceramide (MIPC) synthase catalytic subunit; forms a complex with regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Csh1p; SUR1 has a paralog, CSH1, that arose from the whole genome duplication	glycosphingolipid biosynthetic process|mannosyl-inositol phosphorylceramide metabolic process|sphingolipid biosynthetic process	mannosyltransferase activity|transferase activity, transferring glycosyl groups	integral to membrane|intracellular
YMR240C	CUS1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0150003339184788	0.385857785962213	1513	Protein required for assembly of U2 snRNP into the spliceosome, forms a complex with Hsh49p and Hsh155p	spliceosomal complex assembly|mRNA splicing, via spliceosome	molecular_function	U2 snRNP|U2-type prespliceosome
YNL307C	MCK1	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|CHROMOSOME SEGREGATION	0.0149812037539246	0.386463999765035	1514	Protein serine/threonine/tyrosine (dual-specificity) kinase; involved in control of chromosome segregation and in regulating entry into meiosis; interacts with Clb2p and Mih1p; inhibits Clb2p-Cdk1 activity; related to mammalian glycogen synthase kinases of the GSK-3 family	meiosis|double-strand break repair via nonhomologous end joining|ascospore formation|protein phosphorylation|response to stress|mitotic sister chromatid segregation	protein serine/threonine/tyrosine kinase activity|protein serine/threonine kinase activity|protein kinase activity	cellular_component
YPL152W	RRD2	hom	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION	0.0149701163420878	0.386815613428516	1515	Peptidyl-prolyl cis/trans-isomerase; also activates the phosphotyrosyl phosphatase activity of protein phosphatase 2A (PP2A); regulates G1 phase progression, the osmoresponse, microtubule dynamics; subunit of the Tap42p-Pph21p-Rrd2p complex; protein abundance increases in response to DNA replication stress	mitotic spindle organization in nucleus|response to osmotic stress	peptidyl-prolyl cis-trans isomerase activity|protein phosphatase type 2A regulator activity	protein phosphatase type 2A complex
YGL069C_d	YGL069C	het			0.0149152466094757	0.38855856019457	1516	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 92% of ORF overlaps the uncharacterized ORF YGL068W; deletion in cyr1 mutant results in loss of stress resistance	Unknown	Unknown	Unknown
YNL196C_p	SLZ1	hom			0.0148708396510754	0.390043586786626	1517	Sporulation-specific protein with a leucine zipper motif	biological_process	molecular_function	cellular_component
YNR049C	MSO1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.0148622011052613	0.390602916171702	1518	Probable component of the secretory vesicle docking complex; acts at a late step in secretion; shows genetic and physical interactions with Sec1p; required for prospore membrane formation during sporulation; relocalizes from bud neck to nucleus upon DNA replication stress	cellular membrane fusion|ascospore-type prospore membrane assembly|vesicle docking involved in exocytosis	molecular_function	SNARE complex|cellular bud membrane|plasma membrane|prospore membrane|cellular bud neck|cellular bud tip
YMR233W	TRI1	hom	FT	NUCLEUS	0.0148552097238161	0.390471109358312	1519	Non-essential sumoylated protein of unknown function; similar to components of human SWI/SNF complex including SMRD3; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm, nucleus and nucleolus; TRI1 has a paralog, UAF30, that arose from the whole genome duplication	biological_process	molecular_function	nucleolus|nucleus|cytoplasm
YDR367W	KEI1	het	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0148235117446766	0.391554068223741	1520	Component of inositol phosphorylceramide (IPC) synthase; forms a complex with Aur1p and regulates its activity; required for IPC synthase complex localization to the Golgi; post-translationally processed by Kex2p; KEI1 is an essential gene	inositolphosphoceramide metabolic process	inositol phosphoceramide synthase regulator activity	integral to membrane|Golgi apparatus|integral to Golgi membrane|inositol phosphoceramide synthase complex|cytoplasm
YGR029W	ERV1	het	FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.0148116321163691	0.391862902736552	1521	Flavin-linked sulfhydryl oxidase of the mitochondrial intermembrane space (IMS), oxidizes Mia40p as part of a disulfide relay system that promotes IMS retention of imported proteins; ortholog of human hepatopoietin (ALR)	cellular response to oxidative stress|cellular iron ion homeostasis|protein import into mitochondrial intermembrane space	thiol oxidase activity|flavin-linked sulfhydryl oxidase activity	mitochondrion|mitochondrial intermembrane space
YDR113C	PDS1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|RESPONSE TO DNA DAMAGE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|CYTOSKELETON	0.0147970287130827	0.392613470120927	1522	Securin, inhibits anaphase by binding separin Esp1p; blocks cyclin destruction and mitotic exit, essential for meiotic progression and mitotic cell cycle arrest; localization is cell-cycle dependent and regulated by Cdc28p phosphorylation	protein localization|recombinational repair|meiosis I|mitotic sister chromatid segregation	enzyme binding	nucleus|cytoplasm|spindle
YHR062C	RPP1	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0147954719806803	0.394727329849084	1523	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs	tRNA processing|intronic box C/D snoRNA processing|mRNA cleavage|rRNA processing	ribonuclease MRP activity|ribonuclease P activity	nucleolar ribonuclease P complex|ribonuclease MRP complex
YAL025C	MAK16	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0147877069045034	0.392628310288771	1524	Essential nuclear protein, constituent of 66S pre-ribosomal particles; required for maturation of 25S and 5.8S rRNAs; required for maintenance of M1 satellite double-stranded RNA of the L-A virus	maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal large subunit biogenesis|maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	nucleolus|preribosome, large subunit precursor
YHR092C	HXT4	hom	FT	PLASMA MEMBRANE	0.0147429578166393	0.394062338038224	1525	High-affinity glucose transporter; member of the major facilitator superfamily, expression is induced by low levels of glucose and repressed by high levels of glucose; HXT4 has a paralog, HXT7, that arose from the whole genome duplication	hexose transport	pentose transmembrane transporter activity|mannose transmembrane transporter activity|glucose transmembrane transporter activity|fructose transmembrane transporter activity	integral to membrane|plasma membrane
YOR336W	KRE5	het	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|ENDOPLASMIC RETICULUM	0.0147141417928966	0.394987450284724	1526	Protein required for beta-1,6 glucan biosynthesis; mutations result in aberrant morphology and severe growth defects	(1->6)-beta-D-glucan biosynthetic process	UDP-glucose:glycoprotein glucosyltransferase activity	endoplasmic reticulum
YNL059C	ARP5	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.0147141411520975	0.394987470871579	1527	Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes	nucleosome mobilization|chromatin remodeling	ATP-dependent 3'-5' DNA helicase activity	nucleus|Ino80 complex
YGL134W	PCL10	hom	FT	CELL CYCLE|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0147022621027233	0.39536921871844	1528	Pho85p cyclin; recruits, activates, and targets Pho85p cyclin-dependent protein kinase to its substrate	negative regulation of glycogen biosynthetic process|regulation of cyclin-dependent protein kinase activity	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex
YNL099C	OCA1	hom	FF|FT	RESPONSE TO OXIDATIVE STRESS	0.0146951798212298	0.39559692255186	1529	Putative protein tyrosine phosphatase, required for cell cycle arrest in response to oxidative damage of DNA	cellular response to oxidative stress	protein tyrosine phosphatase activity	cytoplasm
YER110C	KAP123	hom	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0146849165389412	0.396280706647074	1530	Karyopherin beta, mediates nuclear import of ribosomal proteins prior to assembly into ribosomes and import of histones H3 and H4; localizes to the nuclear pore, nucleus, and cytoplasm; exhibits genetic interactions with RAI1	NLS-bearing substrate import into nucleus|Unknown|protein import into nucleus|ribosomal protein import into nucleus	protein transporter activity|nuclear localization sequence binding	integral to membrane|nucleus|nuclear pore|cytoplasm
YJL120W_d	YJL120W	hom	FF		0.0146266547291314	0.397804174256498	1531	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL121C/RPE1; deletion confers sensitivity to GSAO	Unknown	Unknown	Unknown
YPR094W	RDS3	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0146153988808891	0.398167442881628	1532	Component of the SF3b subcomplex of the U2 snRNP, zinc cluster protein involved in pre-mRNA splicing and cycloheximide resistance	spliceosomal complex assembly|response to xenobiotic stimulus|mRNA splicing, via spliceosome	molecular_function	U2 snRNP
YOR051C	ETT1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|NUCLEUS	0.0146056422693585	0.398482487063348	1533	Nuclear protein that inhibits replication of Brome mosaic virus in S. cerevisiae, which is a model system for studying replication of positive-strand RNA viruses in their natural hosts; deletion increases stop codon readthrough	translational termination	molecular_function	nucleus
YBL048W_d	RRT1	hom			0.0145983642925288	0.398788171458677	1534	Identified in a screen for mutants with increased levels of rDNA transcription; dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR299W	ECM38	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.014593526316593	0.399015085454347	1535	Gamma-glutamyltranspeptidase, major glutathione-degrading enzyme; involved in detoxification of electrophilic xenobiotics; expression induced mainly by nitrogen starvation	xenobiotic metabolic process|glutathione catabolic process	gamma-glutamyltransferase activity	fungal-type vacuole
YLR168C	UPS2	hom	FT	LIPID METABOLISM|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0145869590051296	0.399086194443382	1536	Mitochondrial protein involved in phospholipid metabolism; localizes to the intermembrane space; has a role in regulation of phospholipid metabolism by inhibiting conversion of phosphatidylethanolamine to phosphatidylcholine; null mutant has defects in mitochondrial morphology; similar to Ups1p, Ups3p and to human PRELI	cristae formation|Unknown|phosphatidylethanolamine metabolic process|cardiolipin metabolic process	molecular_function	extrinsic to mitochondrial inner membrane|mitochondrion|mitochondrial intermembrane space
YPL030W	TRM44	hom	FT	RNA PROCESSING	0.0145526341011349	0.400267273237246	1537	tRNA(Ser) Um(44) 2'-O-methyltransferase; involved in maintaining levels of the tRNA-Ser species tS(CGA) and tS(UGA); conserved among metazoans and fungi but there does not appear to be a homolog in plants; TRM44 is a non-essential gene	tRNA methylation	tRNA (uracil) methyltransferase activity	cytoplasm
YNL246W	VPS75	hom	FT	PROTEIN LOCALIZATION|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0145322008646003	0.40085874664046	1538	NAP family histone chaperone; binds to histones and Rtt109p, stimulating histone acetyltransferase activity; possesses nucleosome assembly activity in vitro; proposed role in vacuolar protein sorting and in double-strand break repair; protein abundance increases in response to DNA replication stress	double-strand break repair via nonhomologous end joining|nucleosome assembly|positive regulation of histone acetylation	histone binding|acetyltransferase activator activity	chromatin|nucleus
YDR284C	DPP1	hom	FT	LIPID METABOLISM|SIGNALING	0.0145148159258111	0.40142249407361	1539	Diacylglycerol pyrophosphate (DGPP) phosphatase, zinc-regulated vacuolar membrane-associated lipid phosphatase, dephosphorylates DGPP to phosphatidate (PA) and Pi, then PA to diacylglycerol; involved in lipid signaling and cell metabolism	phospholipid metabolic process|signal transduction	diacylglycerol diphosphate phosphatase activity|phosphatidate phosphatase activity	fungal-type vacuole membrane|integral to membrane
YJL136C	RPS21B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0145023395908521	0.401827361547702	1540	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S21, no bacterial homolog; RPS21B has a paralog, RPS21A, that arose from the whole genome duplication	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|cytoplasmic translation|endonucleolytic cleavage to generate mature 3'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	cytosolic small ribosomal subunit
YPL056C_p	LCL1	hom	FT	PLASMA MEMBRANE	0.0145011906468198	0.401935098670994	1541	Putative protein of unknown function; deletion mutant is fluconazole resistant and has long chronological lifespan	biological_process	molecular_function	cellular_component
YBR219C_p	YBR219C	hom			0.0144926961391631	0.402140467332645	1542	Putative protein of unknown function; YBR219C is not an essential gene	biological_process	molecular_function	integral to membrane
YPL153C	RAD53	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEOTIDE METABOLISM|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0144564546745432	0.403318470569194	1543	Protein kinase, required for cell-cycle arrest in response to DNA damage; activated by trans autophosphorylation when interacting with hyperphosphorylated Rad9p; also interacts with ARS1 and plays a role in initiation of DNA replication	DNA repair|protein localization|protein phosphorylation|nucleobase-containing compound metabolic process|DNA damage checkpoint|DNA replication initiation|deoxyribonucleoside triphosphate biosynthetic process	protein serine/threonine/tyrosine kinase activity|DNA replication origin binding|protein kinase activity	nucleus
YDR534C	FIT1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0144486628157995	0.403572009026637	1544	Mannoprotein that is incorporated into the cell wall via a glycosylphosphatidylinositol (GPI) anchor, involved in the retention of siderophore-iron in the cell wall	siderophore transport	molecular_function	fungal-type cell wall
YGL165C_d	YGL165C	hom			0.0144474813983755	0.403610459368809	1545	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CUP2/YGL166W	Unknown	Unknown	Unknown
YIR023W	DAL81	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|AMINO ACID METABOLISM|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.0144352435900054	0.404008879337213	1546	Positive regulator of genes in multiple nitrogen degradation pathways; contains DNA binding domain but does not appear to bind the dodecanucleotide sequence present in the promoter region of many genes involved in allantoin catabolism	nitrogen utilization|nitrogen catabolite activation of transcription from RNA polymerase II promoter|gamma-aminobutyric acid catabolic process|urea catabolic process	RNA polymerase II transcription coactivator activity involved in preinitiation complex assembly|RNA polymerase II core promoter proximal region sequence-specific DNA binding|RNA polymerase II transcription factor binding transcription factor activity involved in positive regulation of transcription|RNA polymerase II transcription factor recruiting transcription factor activity	nucleus
YLR193C	UPS1	hom	FT	LIPID METABOLISM|MITOCHONDRION	0.0144178650296882	0.404575068230752	1547	Phosphatidic acid transfer protein; plays a role in phospholipid metabolism by transporting phosphatidic acid from the outer to the inner mitochondrial membrane; localizes to the mitochondrial intermembrane space; null mutant has altered cardiolipin and phosphatidic acid levels; ortholog of human PRELI	Unknown|cardiolipin metabolic process	molecular_function	mitochondrion|extrinsic to mitochondrial inner membrane|mitochondrial intermembrane space
YFR007W	YFH7	hom			0.0143987878973673	0.405478408336219	1548	Putative kinase with similarity to the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of P-loop kinases	phosphorylation	ATPase activity|kinase activity	cellular_component
YDR428C	BNA7	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM	0.0143456748590887	0.407142759758122	1549	Formylkynurenine formamidase, involved in the de novo biosynthesis of NAD from tryptophan via kynurenine	NAD biosynthetic process	arylformamidase activity	cellular_component
YOL136C	PFK27	hom	FT	CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0143257394297227	0.407654589078805	1550	6-phosphofructo-2-kinase, catalyzes synthesis of fructose-2,6-bisphosphate; inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate, expression induced by glucose and sucrose, transcriptional regulation involves protein kinase A	regulation of glycolysis|fructose 2,6-bisphosphate metabolic process	6-phosphofructo-2-kinase activity	cytoplasm
YOR054C	VHS3	hom	FT	CELL CYCLE|ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS|COFACTOR METABOLISM	0.0142871387513406	0.408849280829853	1551	Negative regulatory subunit of protein phosphatase 1 Ppz1p and also a subunit of the phosphopantothenoylcysteine decarboxylase (PPCDC; Cab3p, Sis2p, Vhs3p) complex, which catalyzes the third step of coenzyme A biosynthesis	coenzyme A biosynthetic process|cellular monovalent inorganic cation homeostasis	phosphopantothenoylcysteine decarboxylase activity|protein phosphatase inhibitor activity	phosphopantothenoylcysteine decarboxylase complex
YDR014W	RAD61	hom	FT	CELL CYCLE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0142709202118684	0.40938142743616	1552	Subunit of a complex (Scc3p, Pds5p, Rad61p) that inhibits sister chromatid cohesion; inhibited by Eco1p-acetylated cohesin subunits Smc3p and Mcd1p; related to the human Wapl protein that controls the association of cohesin with chromatin	mitotic sister chromatid cohesion	molecular_function	nuclear cohesin complex
YLR355C	ILV5	het	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0142704174663828	0.409397929599919	1553	Bifunctional acetohydroxyacid reductoisomerase and mtDNA binding protein; involved in branched-chain amino acid biosynthesis and maintenance of wild-type mitochondrial DNA; found in mitochondrial nucleoids	mitochondrial genome maintenance|branched-chain amino acid biosynthetic process	double-stranded DNA binding|ketol-acid reductoisomerase activity	mitochondrial nucleoid|mitochondrion
YDR384C	ATO3	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|MITOCHONDRION|PLASMA MEMBRANE	0.0142672989361329	0.409921093420243	1554	Plasma membrane protein, regulation pattern suggests a possible role in export of ammonia from the cell; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family of putative transporters	ammonium transport|nitrogen utilization|transmembrane transport	ammonium transmembrane transporter activity	mitochondrion|integral to membrane|plasma membrane
YLR173W_p	YLR173W	hom			0.0142281410274421	0.410787029896766	1555	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YLR359W	ADE13	het	FT	NUCLEOTIDE METABOLISM	0.014212891648288	0.411288773015917	1556	Adenylosuccinate lyase, catalyzes two steps in the 'de novo' purine nucleotide biosynthetic pathway; expression is repressed by adenine and activated by Bas1p and Pho2p; mutations in human ortholog ADSL cause adenylosuccinase deficiency	purine nucleotide biosynthetic process|'de novo' IMP biosynthetic process	N6-(1,2-dicarboxyethyl)AMP AMP-lyase (fumarate-forming) activity	cellular_component
YKL207W	EMC3	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0142112208600009	0.411343768266187	1557	Member of conserved ER transmembrane complex; required for efficient folding of proteins in the ER; required for respiratory growth; null mutant displays induction of the unfolded protein response; homologous to worm Y62E10A.10/EMC-3, fly CG6750, human TMEM111	protein folding in endoplasmic reticulum	molecular_function	ER membrane protein complex|integral to membrane
YFR054C_d	YFR054C	hom			0.014194554656076	0.411892587640566	1558	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YHL017W_p	YHL017W	hom	FT	GOLGI APPARATUS	0.0141838001034987	0.412246966228849	1559	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein co-localizes with clathrin-coated vesicles; YHL017W has a paralog, PTM1, that arose from the whole genome duplication	biological_process	molecular_function	integral to membrane|clathrin-coated vesicle
YDL026W_d	YDL026W	hom			0.0141778474448705	0.412653080937731	1560	Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YIL054W_p	YIL054W	hom			0.0141432230135497	0.413585668118801	1561	Protein of unknown function; expressed at both mRNA and protein levels	biological_process	molecular_function	cellular_component
YDL235C	YPD1	het	FT	SIGNALING|NUCLEUS	0.0141294332003922	0.414041200699178	1562	Phosphorelay intermediate protein, phosphorylated by the plasma membrane sensor Sln1p in response to osmotic stress and then in turn phosphorylates the response regulators Ssk1p in the cytosol and Skn7p in the nucleus	osmosensory signaling pathway via two-component system	protein histidine kinase binding|transferase activity, transferring phosphorus-containing groups	nucleus|cytoplasm
YNL095C_p	YNL095C	hom			0.0141079537296515	0.414751344146092	1563	Putative protein of unknown function; predicted to contain a transmembrane domain; not an essential gene; YNL095C has a paralog, ECM3, that arose from the whole genome duplication	biological_process	molecular_function	integral to membrane
YPL218W	SAR1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|NUCLEOTIDE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0140823206853949	0.415599752256516	1564	GTPase, GTP-binding protein of the ARF family, component of COPII coat of vesicles; required for transport vesicle formation during ER to Golgi protein transport	regulation of COPII vesicle coating	GTPase activity	COPII vesicle coat
YER012W	PRE1	het	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0140685648774369	0.416055467127586	1565	Beta 4 subunit of the 20S proteasome; localizes to the nucleus throughout the cell cycle	proteasomal ubiquitin-dependent protein catabolic process|proteasomal ubiquitin-independent protein catabolic process	endopeptidase activator activity	proteasome storage granule|nucleus|endoplasmic reticulum membrane|proteasome core complex, beta-subunit complex
YBR223C	TDP1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.0140142071161503	0.41785916268928	1566	Tyrosyl-DNA phosphodiesterase I; hydrolyzes 3' and 5'-phosphotyrosyl bonds; involved in the repair of DNA lesions created by topoisomerase I and topoisomerase II; mutations in human homolog result in the neurodegenerative disease SCANI	DNA repair	3'-tyrosyl-DNA phosphodiesterase activity|5'-tyrosyl-DNA phosphodiesterase activity	nucleus
YMR242W-A_p	YMR242W-A	hom			0.0140043160816836	0.418187860738883	1567	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YKR105C_p	VBA5	hom			0.0139970951178674	0.418427923296897	1568	Plasma membrane protein of the Major Facilitator Superfamily (MFS); involved in amino acid uptake and drug sensitivity; similar to Vba3p	biological_process	molecular_function	integral to membrane
YGL244W	RTF1	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|GENE SILENCING|NUCLEUS|CHROMOSOME|RNA POL II, HOLOENZYME	0.0139684899699873	0.41937970438262	1569	Subunit of RNAPII-associated chromatin remodeling Paf1 complex; regulates gene expression by directing cotranscriptional histone modification, influences transcription and chromatin structure through several independent functional domains; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay	mRNA 3'-end processing|snoRNA transcription from an RNA polymerase II promoter|regulation of chromatin silencing at telomere|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription from RNA polymerase II promoter|regulation of histone H3-K4 methylation|regulation of transcription-coupled nucleotide-excision repair|negative regulation of transcription from RNA polymerase II promoter|recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex|global genome nucleotide-excision repair|snoRNA 3'-end processing|Unknown|transcription elongation from RNA polymerase II promoter	RNA binding|RNA polymerase II transcription factor binding transcription factor activity	nucleus|transcriptionally active chromatin|Cdc73/Paf1 complex
YNL291C	MID1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.0139440238698048	0.420473084326317	1570	N-glycosylated integral membrane protein of the ER membrane and plasma membrane, functions as a stretch-activated Ca2+-permeable cation channel required for Ca2+ influx stimulated by pheromone; interacts with Cch1p; forms an oligomer	calcium ion transport	stretch-activated, cation-selective, calcium channel activity|calcium channel activity	endoplasmic reticulum|plasma membrane
YOR135C_d	IRC14	hom			0.0139429374367195	0.420230990683013	1571	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR136W; null mutant displays increased levels of spontaneous Rad52 foci	Unknown	Unknown	Unknown
YIL055C_p	YIL055C	hom			0.013917361769521	0.421084062872695	1572	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YBR211C	AME1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0138932674461632	0.42195811566164	1573	Essential kinetochore protein associated with microtubules and SPBs; component of the kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p); involved in spindle checkpoint maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-U and fission yeast Mis17; relative distribution to the nucleus increases upon DNA replication stress	attachment of spindle microtubules to kinetochore|protein localization to kinetochore	molecular_function	COMA complex|spindle pole body|kinetochore
YAL048C	GEM1	hom	FT	SIGNALING|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0138236336075509	0.424219020909997	1574	Outer mitochondrial membrane GTPase, subunit of the ERMES complex; potential regulatory subunit of the ERMES complex that links the ER to mitochondria and may promote inter-organellar calcium and phospholipid exchange as well as coordinating mitochondrial DNA replication and growth; cells lacking Gem1p contain collapsed, globular, or grape-like mitochondria; ortholog of metazoan Miro GTPases	mitochondrion inheritance|regulation of mitochondrion organization|phospholipid homeostasis	GTPase activity|calcium ion binding	mitochondrial outer membrane|ERMES complex|mitochondrion
YOR360C	PDE2	hom	FT	SIGNALING|NUCLEUS	0.013799639725214	0.425023740023961	1575	High-affinity cyclic AMP phosphodiesterase, component of the cAMP-dependent protein kinase signaling system, protects the cell from extracellular cAMP, contains readthrough motif surrounding termination codon	cAMP-mediated signaling	3',5'-cyclic-AMP phosphodiesterase activity	nucleus|cytoplasm
YOL077C	BRX1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0137952043231927	0.42517259435787	1576	Nucleolar protein, constituent of 66S pre-ribosomal particles; depletion leads to defects in rRNA processing and a block in the assembly of large ribosomal subunits; possesses a sigma(70)-like RNA-binding motif	ribosomal large subunit assembly	5S rRNA binding|rRNA primary transcript binding	nucleolus|preribosome, large subunit precursor
YFR021W	ATG18	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|RESPONSE TO NUTRIENT LEVELS|PEROXISOME ORGANIZATION|VACUOLAR PROTEIN PROCESSING	0.0137852047816137	0.425508295656201	1577	Phosphoinositide binding protein; required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; binds both phosphatidylinositol (3,5)-bisphosphate and phosphatidylinositol 3-phosphate; WD-40 repeat protein; relocalizes from vacuole to cytoplasm upon DNA replication stress; has 4 mammalian homologs WIPI1, WIPI2, WIPI3 and WIPI4/WDR45; mutations in human WDR45 cause static encephalopathy of childhood with neurodegeneration in adulthood	piecemeal microautophagy of nucleus|peroxisome degradation|vacuolar protein processing|macroautophagy|late endosome to vacuole transport|CVT pathway	ubiquitin binding|phosphatidylinositol binding	cytosol|endosome|fungal-type vacuole membrane|PAS complex|pre-autophagosomal structure
YLR416C_d	YLR416C	hom			0.0137046087745396	0.428219680111116	1578	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGL080W	FMP37	hom	FT	MITOCHONDRION	0.01370107212118	0.428338888766869	1579	Highly conserved subunit of the mitochondrial pyruvate carrier; a mitochondrial inner membrane complex comprised of Fmp37p/Mpc1p and either Mpc2p or Fmp43p/Mpc3p mediates mitochondrial pyruvate uptake; null mutant displays slow growth that is complemented by expression of human or mouse ortholog; mutation in human ortholog is associated with lactic acidosis and hyperpyruvatemia	mitochondrial pyruvate transport	pyruvate transmembrane transporter activity	mitochondrion|integral to mitochondrial inner membrane
YOR013W_d	IRC11	hom			0.0136823067700483	0.429179004807744	1580	Dubious opening reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YOR012C; null mutant displays increased levels of spontaneous Rad52 foci	Unknown	Unknown	Unknown
YLL020C_d	YLL020C	hom			0.0136706698382469	0.429364442973796	1581	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KNS1	Unknown	Unknown	Unknown
YAL018C_p	YAL018C	hom			0.0136512973935872	0.430087689624101	1582	Putative protein of unknown function	biological_process	molecular_function	integral to membrane
YBR271W	EFM2	hom			0.0136360712799681	0.430533282719187	1583	S-adenosylmethionine-dependent methyltransferase; methylates translation elongation factors EF2 (Eft1p and Eft2p) and EF3A (Yef3p); belongs to the seven beta-strand family; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; predicted to be involved in ribosome biogenesis	peptidyl-lysine methylation	S-adenosylmethionine-dependent methyltransferase activity|protein-lysine N-methyltransferase activity	cytoplasm
YJL083W	TAX4	hom	FT	LIPID METABOLISM|SIGNALING|CELL WALL ORG/BIOGENESIS|RESPONSE TO NUTRIENT LEVELS	0.0135934534710818	0.431975569956319	1584	EH domain-containing protein; involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS; TAX4 has a paralog, IRS4, that arose from the whole genome duplication	autophagy|fungal-type cell wall organization|inositol lipid-mediated signaling|CVT pathway|cellular response to starvation	molecular_function	pre-autophagosomal structure
YLR107W	REX3	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.0135890210818902	0.432194629527981	1585	RNA exonuclease; required for maturation of the RNA component of RNase MRP; functions redundantly with Rnh70p and Rex2p in processing of U5 snRNA and RNase P RNA; member of RNase D family of exonucleases	U5 snRNA 3'-end processing|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ncRNA 3'-end processing	3'-5'-exoribonuclease activity|3'-5' exonuclease activity	nucleus|cytoplasm
YML062C	MFT1	hom	FT	TRANSCRIPTION FROM RNA POL II|RNA LOCALIZATION|NUCLEUS	0.0135859722624698	0.432849656980143	1586	Subunit of the THO complex, which is a nuclear complex comprised of Hpr1p, Mft1p, Rlr1p, and Thp2p, that is involved in transcription elongation and mitotic recombination; involved in telomere maintenance	mRNA export from nucleus|DNA recombination|transcription elongation from RNA polymerase II promoter	protein complex scaffold|nucleic acid binding	THO complex part of transcription export complex|nucleoplasmic THO complex
YML021C	UNG1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|MITOCHONDRION	0.0135680125113648	0.43283788404946	1587	Uracil-DNA glycosylase, required for repair of uracil in DNA formed by spontaneous cytosine deamination, not required for strand-specific mismatch repair, cell-cycle regulated, expressed in late G1, localizes to mitochondria and nucleus	DNA repair	uracil DNA N-glycosylase activity	mitochondrion|nucleus
YMR173W-A_d	YMR173W-A	hom			0.0135629853155964	0.433283880457433	1588	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene DDR48/YML173W	Unknown	Unknown	Unknown
YOR235W_d	IRC13	hom			0.0135516321134604	0.433393619545662	1589	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; null mutant displays increased levels of spontaneous Rad52 foci	Unknown	Unknown	Unknown
YGR173W	RBG2	hom	FT	TRANSLATION	0.0134943092134207	0.435341650078868	1590	Protein with a role in translation; forms a complex with Gir2p; has similarity to mammalian developmentally regulated GTP-binding protein	cytoplasmic translation	GTP binding	cytoplasm
YKL096W-A	CWP2	hom	FT	ION HOMEOSTASIS|CELL WALL ORG/BIOGENESIS|ION HOMEOSTASIS	0.0134907391772505	0.435463139080521	1591	Covalently linked cell wall mannoprotein, major constituent of the cell wall; plays a role in stabilizing the cell wall; involved in low pH resistance; precursor is GPI-anchored	fungal-type cell wall organization|regulation of pH	structural constituent of cell wall	fungal-type cell wall
YMR219W	ESC1	hom	FT	GENE SILENCING|NUCLEUS	0.0134861730362935	0.43561855420547	1592	Protein localized to the nuclear periphery, involved in telomeric silencing; interacts with PAD4-domain of Sir4p	chromatin silencing at telomere	molecular_function	nuclear periphery
YML087C	AIM33	hom	FT	OXIDATION-REDUCTION PROCESS	0.0134561780714312	0.436640270344464	1593	Putative protein of unknown function, highly conserved across species; homolog of human CYB5R4; null mutant displays reduced frequency of mitochondrial genome loss; AIM33 has a paralog, PGA3, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YJL084C	ALY2	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION	0.0133943403771417	0.438956565681302	1594	Alpha arrestin that controls nutrient-mediated intracellular sorting of permease Gap1p; interacts with AP-1 subunit Apl4p; phosphorylated by Npr1p and also by cyclin-CDK complex Pcl7p-Pho85p; promotes endocytosis of plasma membrane proteins; ALY2 has a paralog, ALY1, that arose from the whole genome duplication	Unknown|regulation of intracellular transport|ubiquitin-dependent endocytosis	protein binding, bridging|ubiquitin protein ligase binding	late endosome|cytoplasm|early endosome
YML066C	SMA2	hom	FT	MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|ENDOPLASMIC RETICULUM	0.0133891318339487	0.438929043768322	1595	Meiosis-specific prospore membrane protein; required to produce bending force necessary for proper assembly of the prospore membrane during sporulation	ascospore wall assembly|spore membrane bending pathway	molecular_function	integral to membrane|prospore membrane|cytoplasm
YFR013W	IOC3	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS	0.013388482996758	0.438951226883719	1596	Subunit of the Isw1a complex; Isw1a has nucleosome-stimulated ATPase activity and represses transcription initiation by specific positioning of a promoter proximal dinucleosome; IOC3 has a paralog, ESC8, that arose from the whole genome duplication	chromatin remodeling	nucleosome binding|ATPase activity|DNA binding	ISW1 complex
YMR237W	BCH1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|GOLGI APPARATUS	0.0133720651694198	0.439512750703511	1597	Member of the ChAPs family (Chs5p-Arf1p-binding proteins); members include Bch1p, Bch2p, Bud7p, and Chs6p; ChAPs family proteins form the exomer complex with Chs5p to mediate export of specific cargo proteins from the Golgi to the plasma membrane; may interact with ribosomes; protein abundance increases and forms cytoplasmic foci in response to DNA replication stress; BCH1 has a paralog, BUD7, that arose from the whole genome duplication	Golgi to plasma membrane transport|fungal-type cell wall chitin biosynthetic process	molecular_function	ribosome|clathrin-coated vesicle|exomer complex
YOR130C	ORT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0133678176425665	0.440000523785967	1598	Ornithine transporter of the mitochondrial inner membrane, exports ornithine from mitochondria as part of arginine biosynthesis; human ortholog is associated with hyperammonaemia-hyperornithinaemia-homocitrullinuria (HHH) syndrome	arginine biosynthetic process|mitochondrial ornithine transport	L-ornithine transmembrane transporter activity	mitochondrial envelope|integral to membrane
YOR353C	SOG2	het	FT	CELL CYCLE|SIGNALING|CELL DIVISION|SITE OF POLARIZED GROWTH	0.0133392681381046	0.440635710629017	1599	Key component of the RAM signaling network, required for proper cell morphogenesis and cell separation after mitosis	signal transduction|cytokinetic cell separation|budding cell apical bud growth	molecular_function	incipient cellular bud site|cellular bud|mating projection tip|cytoplasm
YOL039W	RPP2A	hom	FT	TRANSLATION|RIBOSOME	0.0133190610072698	0.441396766504041	1600	Ribosomal protein P2 alpha, a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosome; regulates the accumulation of P1 (Rpp1Ap and Rpp1Bp) in the cytoplasm	translational elongation|cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YER023W	PRO3	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS	0.013311330027427	0.441593598138295	1601	Delta 1-pyrroline-5-carboxylate reductase, catalyzes the last step in proline biosynthesis	proline biosynthetic process	pyrroline-5-carboxylate reductase activity	cytoplasm
YDL210W	UGA4	hom			0.0133109275744721	0.441607405363726	1602	Permease that serves as a gamma-aminobutyrate (GABA) transport protein involved in the utilization of GABA as a nitrogen source; catalyzes the transport of putrescine and delta-aminolevulinic acid (ALA); localized to the vacuolar membrane	gamma-aminobutyric acid transport|putrescine transport|transmembrane transport	putrescine transmembrane transporter activity|gamma-aminobutyric acid:hydrogen symporter activity	fungal-type vacuole membrane|integral to membrane
YFR032C-A	RPL29	hom	FT	TRANSLATION|RIBOSOME	0.0132919722922756	0.442257996869772	1603	Ribosomal 60S subunit protein L29; not essential for translation, but required for proper joining of large and small ribosomal subunits and for normal translation rate; homologous to mammalian ribosomal protein L29, no bacterial homolog	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit|cytoplasm
YML081W	TDA9	hom	FT	NUCLEUS	0.0132198734892379	0.444737605467912	1604	DNA-binding protein, putative transcription factor; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; null mutant is sensitive to expression of the top1-T722A allele; not an essential gene; TDA9 has a paralog, RSF2, that arose from the whole genome duplication	biological_process	sequence-specific DNA binding	nucleus
YML071C	COG8	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0132035958152017	0.445298519037167	1605	Component of the conserved oligomeric Golgi complex (Cog1p through Cog8p), a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments	intra-Golgi vesicle-mediated transport|CVT pathway	molecular_function	Golgi transport complex
YKL056C	TMA19	hom	FT	TRANSLATION|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION|CYTOSKELETON	0.0131870126134774	0.445870375083768	1606	Protein that associates with ribosomes; homolog of translationally controlled tumor protein; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and relocates to the mitochondrial outer surface upon oxidative stress	cytoplasmic translation|cellular response to oxidative stress	molecular_function	cytosol|mitochondrion|ribosome|cytoplasm
YDR255C	RMD5	hom	FT	KETONE METABOLISM|CELL CYCLE|CARBOHYDRATE METABOLISM|PROTEOLYSIS	0.0131732097380022	0.446346672898923	1607	Component of GID Complex that confers ubiquitin ligase (U3) activity; necessary for polyubiquitination and degradation of the gluconeogenic enzyme fructose-1,6-bisphosphatase; forms dimer with Fyv10p that is then recruited to GID Complex by Gid8p; also required for sporulation; conserved protein that has a degenerate RING finger domain	negative regulation of gluconeogenesis|proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity	cytosol|GID complex
YDL105W	NSE4	het	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0131290741070653	0.448143486413204	1608	Component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair	DNA repair	molecular_function	Smc5-Smc6 complex|nucleus
YDL118W_d	YDL118W	hom	FF|FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0131239828240857	0.448047708756512	1609	Dubious open reading frame, unlikely to encode a protein; overlaps almost completely with YDL119C; mutations that would affect both YDL118W and YDL119C confer defective telomere maintenance and are synthetically sick or lethal with alpha-synuclein	biological_process	molecular_function	cellular_component
YGL012W	ERG4	hom	FF|FT	LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|ENDOPLASMIC RETICULUM	0.0131213478758547	0.448138863059639	1610	C-24(28) sterol reductase, catalyzes the final step in ergosterol biosynthesis; mutants are viable, but lack ergosterol	ergosterol biosynthetic process	delta24(24-1) sterol reductase activity	integral to membrane|endoplasmic reticulum
YFL063W_d	YFL063W	hom			0.0131199673921181	0.448458421492354	1611	Dubious open reading frame, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGR010W	NMA2	hom	FT	NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.0131124136932606	0.448719744312936	1612	Nicotinic acid mononucleotide adenylyltransferase; catalyzes the transfer of the adenylyl moiety of ATP to nicotinamide mononucleotide to form NAD; involved in de novo and salvage synthesis of NAD(+); NMA2 has a paralog, NMA1, that arose from the whole genome duplication	NAD biosynthetic process	nicotinamide-nucleotide adenylyltransferase activity	nucleus
YPL119C	DBP1	hom	FT	TRANSLATION	0.0130900271217899	0.449223190110592	1613	Putative ATP-dependent RNA helicase of the DEAD-box protein family; mutants show reduced stability of the 40S ribosomal subunit scanning through 5' untranslated regions of mRNAs; protein abundance increases in response to DNA replication stress	translational initiation	RNA helicase activity	cytoplasm
YGR042W	YGR042W	hom	FT	NUCLEUS	0.0130710928249182	0.450490346635401	1614	Protein of unknown function; involved in maintenance of proper telomere length; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; forms nuclear foci upon DNA replication stress	biological_process	molecular_function	nucleus|cytoplasm
YLR206W	ENT2	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.0130698184373509	0.449923605273568	1615	Epsin-like protein required for endocytosis and actin patch assembly and functionally redundant with Ent1p; contains clathrin-binding motif at C-terminus	actin filament organization|endocytosis|actin cortical patch assembly	clathrin binding	mating projection tip|actin cortical patch
YBR246W	RRT2	hom	FT	VESICLE-MEDIATED TRANSPORT	0.0130603225577071	0.45032073073141	1616	Protein required for last step of diphthamide biosynthesis; deletion leads to resistance to sordarin and accumulation of diphthine; WD40 domain-containing protein involved in endosomal recycling; forms a complex with Rtt10p that functions in the retromer-mediated pathway for recycling internalized cell-surface proteins; non-essential gene identified in a screen for mutants with increased levels of rDNA transcription	peptidyl-diphthamide biosynthetic process from peptidyl-histidine|endocytic recycling	molecular_function	endosome|cytoplasm
YMR221C_p	YMR221C	hom	FT	MITOCHONDRION	0.0130458567539884	0.450754897190154	1617	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; physical interaction with Atg27p suggests a possible role in autophagy	biological_process	molecular_function	mitochondrion|integral to membrane|fungal-type vacuole
YIL162W	SUC2	hom	FT	CARBOHYDRATE METABOLISM|MITOCHONDRION	0.0130355144017663	0.451113968153175	1618	Invertase, sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively	sucrose catabolic process	beta-fructofuranosidase activity	mitochondrion|extracellular region|cytoplasm
YDR292C	SRP101	het	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0129715403920978	0.4533386424333	1619	Signal recognition particle (SRP) receptor alpha subunit; contain GTPase domains; involved in SRP-dependent protein targeting; interacts with the beta subunit, Srp102p	SRP-dependent cotranslational protein targeting to membrane|protein targeting to ER	GTP binding|signal recognition particle binding	endoplasmic reticulum membrane|signal recognition particle receptor complex
YAL038W	CDC19	het	FT	KETONE METABOLISM|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.0129266621464008	0.455375713881534	1620	Pyruvate kinase; functions as a homotetramer in glycolysis to convert phosphoenolpyruvate to pyruvate, the input for aerobic (TCA cycle) or anaerobic (glucose fermentation) respiration; regulated via allosteric activation by fructose bisphosphate; CDC19 has a paralog, PYK2, that arose from the whole genome duplication	pyruvate metabolic process|glycolysis	pyruvate kinase activity	cytosol|plasma membrane
YEL029C	BUD16	hom	FT	CELL CYCLE|CELL DIVISION|COFACTOR METABOLISM|NUCLEUS	0.0129212991252647	0.45515757279176	1621	Putative pyridoxal kinase, a key enzyme involved in pyridoxal 5'-phosphate synthesis, the active form of vitamin B6; required for genome integrity; involved in bud-site selection; similarity to yeast BUD17 and human pyridoxal kinase (PDXK)	pyridoxal phosphate biosynthetic process|cellular bud site selection	pyridoxal kinase activity	cytoplasm
YGL034C_d	YGL034C	hom			0.0129192911545429	0.455160173999272	1622	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YNL266W_d	YNL266W	hom			0.0129135390789112	0.455360956313666	1623	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF IST1/YNL265C	Unknown	Unknown	Unknown
YBR189W	RPS9B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|NUCLEUS|RIBOSOME	0.0128881516881306	0.456247725317487	1624	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S9 and bacterial S4; RPS9B has a paralog, RPS9A, that arose from the whole genome duplication	positive regulation of translational fidelity|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	small-subunit processome|cytosolic small ribosomal subunit|90S preribosome
YHR189W	PTH1	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0128527596971928	0.457822313914668	1625	One of two (see also PTH2) mitochondrially-localized peptidyl-tRNA hydrolases; dispensable for respiratory growth on rich medium, but required for respiratory growth on minimal medium	mitochondrial translation	aminoacyl-tRNA hydrolase activity	mitochondrion
YLL034C	RIX7	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.0128284396733865	0.458337257880689	1626	Putative ATPase of the AAA family, required for export of pre-ribosomal large subunits from the nucleus; distributed between the nucleolus, nucleoplasm, and nuclear periphery depending on growth conditions	ribosomal large subunit biogenesis|ribosomal large subunit export from nucleus	ATPase activity	nucleolus|nucleus|preribosome, large subunit precursor
YJL190C	RPS22A	hom	FT	TRANSLATION|RIBOSOME	0.0128214717134258	0.458581440246927	1627	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S15A and bacterial S8; RPS22A has a paralog, RPS22B, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic small ribosomal subunit
YMR232W	FUS2	hom	FT	SIGNALING|NUCLEUS|MITOCHONDRION|SITE OF POLARIZED GROWTH	0.0127939847827293	0.459545391787623	1628	Cytoplasmic protein localized to the shmoo tip; required for the alignment of parental nuclei before nuclear fusion during mating	karyogamy involved in conjugation with cellular fusion|regulation of termination of mating projection growth|cytogamy	molecular_function	mitochondrion|nucleus|mating projection tip|cytoplasm
YNL333W	SNZ2	hom	FT	COFACTOR METABOLISM	0.0127935272444896	0.459561446992484	1629	Member of a stationary phase-induced gene family; transcription of SNZ2 is induced prior to diauxic shift, and also in the absence of thiamin in a Thi2p-dependent manner; forms a coregulated gene pair with SNO2; interacts with Thi11p	pyridoxine metabolic process|thiamine biosynthetic process	protein binding	cellular_component
YIL141W_d	YIL141W	hom			0.0127895288683398	0.459701765013719	1630	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR115W	YDR115W	hom	FT	TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0127720868338789	0.460314151776778	1631	Putative mitochondrial ribosomal protein of the large subunit; similar to E. coli L34 ribosomal protein; required for respiratory growth, as are most mitochondrial ribosomal proteins; protein increases in abundance and relocalizes to the plasma membrane upon DNA replication stress	mitochondrial translation	structural constituent of ribosome	mitochondrial large ribosomal subunit
YMR142C	RPL13B	hom	FT	TRANSLATION|RIBOSOME	0.0127185001616832	0.462198421058912	1632	Ribosomal 60S subunit protein L13B; not essential for viability; homologous to mammalian ribosomal protein L13, no bacterial homolog; RPL13B has a paralog, RPL13A, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YOR371C	GPB1	hom	FT	SIGNALING|PROTEOLYSIS|PLASMA MEMBRANE	0.0127011399114115	0.462809781376858	1633	Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; promotes ubiquitin-dependent proteolysis of Ira2p; regulated by G-alpha protein Gpa2p; GPB1 has a paralog, GPB2, that arose from the whole genome duplication	positive regulation of Ras protein signal transduction|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|negative regulation of phosphorylation|signal transduction|glucose mediated signaling pathway|pseudohyphal growth|invasive growth in response to glucose limitation|negative regulation of Ras protein signal transduction|protein polyubiquitination	cAMP-dependent protein kinase inhibitor activity|signal transducer activity|GTPase activating protein binding	plasma membrane|cytoplasm
YOR071C	NRT1	hom	FT	PLASMA MEMBRANE	0.0126605361245372	0.464241446877562	1634	High-affinity nicotinamide riboside transporter; also transports thiamine with low affinity; shares sequence similarity with Thi7p and Thi72p; proposed to be involved in 5-fluorocytosine sensitivity	thiamine transport|nicotinamide riboside transport	nicotinamide riboside transporter activity	integral to membrane|plasma membrane
YCL037C	SRO9	hom	FT	TRANSLATION	0.012646771141087	0.464727350717685	1635	Cytoplasmic RNA-binding protein; associates with translating ribosomes; involved in heme regulation of Hap1p as a component of the HMC complex, also involved in the organization of actin filaments; contains a La motif; SRO9 has a paralog, SLF1, that arose from the whole genome duplication	cytoplasmic translation	RNA binding	polysome
YMR079W	SEC14	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0126458822241898	0.464758739196658	1636	Phosphatidylinositol/phosphatidylcholine transfer protein; involved in regulating PtdIns, PtdCho, and ceramide metabolism, products of which regulate intracellular transport and UPR; has a role in localization of lipid raft proteins; functionally homologous to mammalian PITPs	Golgi vesicle budding|phosphatidylinositol metabolic process|Golgi to plasma membrane protein transport|Golgi to vacuole transport|ascospore formation|Unknown|phospholipid transport	phosphatidylinositol transporter activity|phosphatidylcholine transporter activity	cytosol|Golgi apparatus|Golgi membrane|cytoplasm
YHL043W	ECM34	hom	FT	CELL WALL ORG/BIOGENESIS	0.0126449194366258	0.464792737446996	1637	Putative protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins	fungal-type cell wall organization	molecular_function	cellular_component
YFR031C	SMC2	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.0126440768356722	0.464889308873329	1638	Subunit of the condensin complex; essential SMC chromosomal ATPase family member that forms a complex with Smc4p to form the active ATPase; Smc2p/Smc4p complex binds DNA; required for clustering of tRNA genes at the nucleolus	mitotic chromosome condensation|mitotic sister chromatid segregation|tRNA gene clustering	double-stranded DNA binding|ATPase activity|AT DNA binding|DNA secondary structure binding	mitochondrion|nuclear condensin complex
YDR424C	DYN2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|NUCLEUS|CYTOSKELETON	0.0126226417131125	0.465579801312369	1639	Cytoplasmic light chain dynein, microtubule motor protein; proposed to be involved in the assembly of the nuclear pore complex	microtubule-based process|actin filament-based process|nuclear pore complex assembly	molecular_function	cytoplasmic dynein complex|cytoplasmic microtubule|peroxisome|nuclear pore
YCR005C	CIT2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0126110052588593	0.466258236514692	1640	Citrate synthase; catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate, peroxisomal isozyme involved in glyoxylate cycle; expression is controlled by Rtg1p and Rtg2p transcription factors; CIT2 has a paralog, CIT1, that arose from the whole genome duplication	glyoxylate cycle|glutamate biosynthetic process|citrate metabolic process	citrate (Si)-synthase activity	mitochondrion|peroxisome
YGL105W	ARC1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.0125762370529817	0.467221635481405	1641	Protein that binds tRNA and methionyl- and glutamyl-tRNA synthetases (Mes1p and Gus1p), delivering tRNA to them, stimulating catalysis, and ensuring their localization to the cytoplasm; also binds quadruplex nucleic acids; protein abundance increases in response to DNA replication stress	positive regulation of ligase activity|tRNA aminoacylation for protein translation	enzyme activator activity|tRNA binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-3-phosphate binding	methionyl glutamyl tRNA synthetase complex|cytoplasm
YJR059W	PTK2	hom	FF|FT	CELL CYCLE|ION HOMEOSTASIS|PROTEIN PHOSPHORYLATION|ION HOMEOSTASIS|NUCLEUS|PLASMA MEMBRANE	0.0125733860360592	0.467322611276188	1642	Putative serine/threonine protein kinase involved in regulation of ion transport across plasma membrane; enhances spermine uptake	protein phosphorylation|cellular ion homeostasis|polyamine transport|G1/S transition of mitotic cell cycle|regulation of cell size	protein kinase activity	nucleus|plasma membrane|cytoplasm
YML017W	PSP2	hom			0.012561815012136	0.467732551739209	1643	Asn rich cytoplasmic protein that contains RGG motifs; high-copy suppressor of group II intron-splicing defects of a mutation in MRS2 and of a conditional mutation in POL1 (DNA polymerase alpha); possible role in mitochondrial mRNA splicing	biological_process	molecular_function	cytoplasm
YOR218C_d	YOR218C	het			0.012558735586706	0.467841683763536	1644	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene RFC1/YOR217W	Unknown	Unknown	Unknown
YDR243C	PRP28	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.0125384135916078	0.468828533036682	1645	RNA helicase in the DEAD-box family, involved in RNA isomerization at the 5' splice site	cis assembly of pre-catalytic spliceosome	ATP-dependent RNA helicase activity	spliceosomal complex|U5 snRNP
YGR233C	PHO81	hom	FT	LIPID METABOLISM|NUCLEUS	0.0125117829481569	0.469507387844167	1646	Cyclin-dependent kinase (CDK) inhibitor; regulates Pho80p-Pho85p and Pcl7p-Pho85p cyclin-CDK complexes in response to phosphate levels; inhibitory activity for Pho80p-Pho85p requires myo-D-inositol heptakisphosphate (IP7) generated by Vip1p; relative distribution to the nucleus increases upon DNA replication stress	phosphate-containing compound metabolic process	cyclin-dependent protein kinase inhibitor activity	nucleus|cytoplasm
YKL012W	PRP40	het	FT	RNA PROCESSING|NUCLEUS	0.0125015359536165	0.469871348072547	1647	U1 snRNP protein involved in splicing, interacts with the branchpoint-binding protein during the formation of the second commitment complex	mRNA splicing, via spliceosome	RNA binding	U1 snRNP|nucleus|U2-type prespliceosome
YHR113W	APE4	hom	FT	PROTEOLYSIS	0.0124934620401394	0.470158232956218	1648	Cytoplasmic aspartyl aminopeptidase that may also function in the vacuole; CVT pathway cargo protein; cleaves unblocked N-terminal acidic amino acids from peptide substrates; forms a 12-subunit homo-oligomer; M18 metalloprotease family	proteolysis	aminopeptidase activity	fungal-type vacuole lumen|ribosome|cytoplasm
YGR013W	SNU71	het	FT	RNA PROCESSING|NUCLEUS	0.0124923874838457	0.470196421726036	1649	Component of U1 snRNP required for mRNA splicing via spliceosome; yeast specific, no metazoan counterpart	mRNA splicing, via spliceosome	RNA binding	U1 snRNP|U2-type prespliceosome
YMR144W_p	YMR144W	hom	FT	NUCLEUS	0.0124896569971889	0.47029346848459	1650	Putative protein of unknown function; localized to the nucleus; YMR144W is not an essential gene	biological_process	molecular_function	nucleus
YGR162W	TIF4631	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|MITOCHONDRION|RIBOSOME	0.012479487789866	0.470654998971154	1651	Translation initiation factor eIF4G; subunit of the mRNA cap-binding protein complex (eIF4F) that also contains eIF4E (Cdc33p); interacts with Pab1p and with eIF4A (Tif1p); also has a role in biogenesis of the large ribosomal subunit; TIF4631 has a paralog, TIF4632, that arose from the whole genome duplication	translational initiation|ribosomal large subunit biogenesis|stress granule assembly	translation initiation factor activity	mitochondrion|ribosome|eukaryotic translation initiation factor 4F complex|cytoplasmic stress granule
YCR065W	HCM1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|MITOCHONDRION ORGANIZATION|CYTOSKELETON ORGANIZATION|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|CHROMOSOME	0.0124354530182486	0.472288559670365	1652	Forkhead transcription factor that drives S-phase specific expression of genes involved in chromosome segregation, spindle dynamics, and budding; suppressor of calmodulin mutants with specific SPB assembly defects; telomere maintenance role	positive regulation of transcription involved in S-phase of mitotic cell cycle|cellular response to oxidative stress|mitochondrion organization|spindle pole body organization|positive regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding	nuclear chromatin|nucleus|cytoplasm
YOL137W	BSC6	hom	FT	GOLGI APPARATUS	0.0124111038558421	0.473090128344899	1653	Protein of unknown function containing 8 putative transmembrane seqments; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression	biological_process	molecular_function	COPI-coated vesicle|integral to membrane|clathrin-coated vesicle
YMR017W	SPO20	hom	FT	PLASMA MEMBRANE	0.0124043494822723	0.473331024831435	1654	Meiosis-specific subunit of the t-SNARE complex, required for prospore membrane formation during sporulation; similar to but not functionally redundant with Sec9p; SNAP-25 homolog	ascospore-type prospore assembly	SNAP receptor activity	SNARE complex|prospore membrane
YGR227W	DIE2	hom	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0123563181884728	0.475046017049477	1655	Dolichyl-phosphoglucose-dependent alpha-1,2 glucosyltransferase of the ER, functions in the pathway that synthesizes the dolichol-linked oligosaccharide precursor for N-linked protein glycosylation, has a role in regulation of ITR1 and INO1	dolichol-linked oligosaccharide biosynthetic process|protein N-linked glycosylation	dolichyl-phosphate-glucose-glycolipid alpha-glucosyltransferase activity	integral to membrane|endoplasmic reticulum membrane
YDR004W	RAD57	hom	FF|FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0123491372269067	0.475302711108352	1656	Protein that stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad55p	DNA recombinase assembly|telomere maintenance via recombination|heteroduplex formation|meiotic DNA recombinase assembly|double-strand break repair via single-strand annealing	DNA-dependent ATPase activity|protein heterodimerization activity	nucleus|Rhp55-Rhp57 complex
YKL040C	NFU1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|COFACTOR METABOLISM|MITOCHONDRION	0.0123437459444213	0.475495480433882	1657	Protein involved in iron metabolism in mitochondria; similar to NifU, which is a protein required for the maturation of the Fe/S clusters of nitrogenase in nitrogen-fixing bacteria	cellular iron ion homeostasis|iron-sulfur cluster assembly|intracellular sequestering of iron ion	molecular_function	mitochondrion|mitochondrial matrix
YPL095C	EEB1	hom	FT	KETONE METABOLISM|LIPID METABOLISM	0.0123322148124452	0.475907928510641	1658	Acyl-coenzymeA:ethanol O-acyltransferase; responsible for the major part of medium-chain fatty acid ethyl ester biosynthesis during fermentation; possesses short-chain esterase activity; may be involved in lipid metabolism and detoxification; EEB1 has a paralog, EHT1, that arose from the whole genome duplication	medium-chain fatty acid catabolic process|medium-chain fatty acid biosynthetic process	short-chain carboxylesterase activity|alcohol O-octanoyltransferase activity	cellular_component
YML086C	ALO1	hom	FT	OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.012331261505693	0.475942035368988	1659	D-Arabinono-1,4-lactone oxidase, catalyzes the final step in biosynthesis of dehydro-D-arabinono-1,4-lactone, which is protective against oxidative stress	cellular response to oxidative stress|dehydro-D-arabinono-1,4-lactone biosynthetic process	D-arabinono-1,4-lactone oxidase activity	mitochondrial outer membrane|mitochondrion|integral to mitochondrial outer membrane
YDR447C	RPS17B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0122950839370666	0.477237364937134	1660	Ribosomal protein 51 (rp51) of the small (40s) subunit; homologous to mammalian ribosomal protein S17, no bacterial homolog; RPS17B has a paralog, RPS17A, that arose from the whole genome duplication; protein abundance increases in response to DNA replication stress	cytoplasmic translation|ribosomal small subunit assembly	structural constituent of ribosome	cytosolic small ribosomal subunit
YCR052W	RSC6	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|NUCLEUS|RSC COMPLEX	0.0122818245765245	0.478042185274029	1661	Component of the RSC chromatin remodeling complex; essential for mitotic growth; homolog of SWI/SNF subunit Swp73p	nucleosome positioning|ATP-dependent chromatin remodeling|G2/M transition of mitotic cell cycle|G1 phase of mitotic cell cycle|nucleosome disassembly|positive regulation of transcription elongation from RNA polymerase II promoter	DNA translocase activity	RSC complex
YER048W-A	ISD11	het	FT	COFACTOR METABOLISM|MITOCHONDRION	0.0122731562987916	0.478023416716095	1662	Cysteine desulfurase (Nfs1p) activator; essential for the formation of the persulfide intermediate at the desulfurase active site during pyridoxal phosphate-dependent desulfuration of cysteine; required for mitochondrial iron-sulfur cluster biosynthesis	iron-sulfur cluster assembly	enzyme activator activity	extrinsic to mitochondrial inner membrane|mitochondrion|mitochondrial matrix
YOR141C	ARP8	hom	FT	CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME|CYTOSKELETON	0.0122690262148118	0.478171549185139	1663	Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes; has mRNA binding activity	mitotic recombination|response to DNA damage stimulus|chromatin remodeling	mRNA binding|ATP-dependent 3'-5' DNA helicase activity	nucleus|Ino80 complex
YER129W	SAK1	hom	FT	CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION	0.0122664352656226	0.478330337973537	1664	Upstream serine/threonine kinase for the SNF1 complex; partially redundant with Elm1p and Tos3p; members of this family have functional orthology with LKB1, a mammalian kinase associated with Peutz-Jeghers cancer-susceptibility syndrome	protein phosphorylation|glucose metabolic process|DNA-dependent DNA replication	protein serine/threonine kinase activity|protein kinase activity	cytoplasm
YMR316W	DIA1	hom			0.0122383553657427	0.479272395520518	1665	Protein of unknown function, involved in invasive and pseudohyphal growth; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern	pseudohyphal growth|invasive growth in response to glucose limitation	molecular_function	cytoplasm
YML015C	TAF11	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.0121987355630989	0.480762149563665	1666	TFIID subunit (40 kDa), involved in RNA polymerase II transcription initiation, similar to histone H3 with atypical histone fold motif of Spt3-like transcription factors	RNA polymerase II transcriptional preinitiation complex assembly|transcription from RNA polymerase II promoter	chromatin binding|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	transcription factor TFIID complex
YDL169C	UGX2	hom			0.0121656468934176	0.481887582512899	1667	Protein of unknown function, transcript accumulates in response to any combination of stress conditions	biological_process	molecular_function	cellular_component
YKR073C_d	YKR073C	hom			0.012165278397286	0.481900856355488	1668	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YPL231W	FAS2	het	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.0121644610108104	0.481930300683176	1669	Alpha subunit of fatty acid synthetase, which catalyzes the synthesis of long-chain saturated fatty acids; contains the acyl-carrier protein domain and beta-ketoacyl reductase, beta-ketoacyl synthase and self-pantetheinylation activities	fatty acid biosynthetic process	holo-[acyl-carrier-protein] synthase activity|3-oxoacyl-[acyl-carrier-protein] synthase activity|fatty acid synthase activity|3-oxoacyl-[acyl-carrier-protein] reductase (NADPH) activity	cytosol|fatty acid synthase complex|mitochondrion|cytoplasm
YNL216W	RAP1	het	FT	PROTEIN LOCALIZATION|TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0121427329128263	0.482713360148922	1670	Essential DNA-binding transcription regulator that binds at many loci; involved in either transcription activation or repression, chromatin silencing, and telomere length maintenance; conserved protein with an N-terminal BRCT domain, a central region with homology to the Myb DNA binding domain, and a C-terminal Rap1-specific protein-interaction domain (RCT domain)	negative regulation of chromatin silencing|establishment of protein localization to chromatin|establishment of chromatin silencing at telomere|regulation of transcription by chromatin organization|protection from non-homologous end joining at telomere|negative regulation of transcription from RNA polymerase II promoter|telomere maintenance via telomere lengthening|telomere maintenance|regulation of glycolysis by positive regulation of transcription from RNA polymerase II promoter|establishment of protein localization to telomere|positive regulation of transcription from RNA polymerase II promoter|chromatin silencing at silent mating-type cassette|chromatin silencing at telomere	core promoter proximal region sequence-specific DNA binding|DNA binding, bending|sequence-specific DNA binding|TFIID-class transcription factor binding|TBP-class protein binding RNA polymerase II transcription factor activity|telomeric DNA binding|RNA polymerase II transcription factor binding transcription factor activity|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity|G-quadruplex DNA binding|nucleosomal DNA binding	nuclear chromosome|nuclear nucleosome|nuclear chromosome, telomeric region|nuclear telomere cap complex
YOR348C	PUT4	hom	FT	PLASMA MEMBRANE	0.0121412930082292	0.482765277307581	1671	Proline permease, required for high-affinity transport of proline; also transports the toxic proline analog azetidine-2-carboxylate (AzC); PUT4 transcription is repressed in ammonia-grown cells	neutral amino acid transport|proline transport|gamma-aminobutyric acid transport	neutral amino acid transmembrane transporter activity|L-proline transmembrane transporter activity	integral to membrane|plasma membrane
YDR318W	MCM21	hom	FT	CELL CYCLE|CELL DIVISION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0121399839129654	0.482812480640059	1672	Component of the kinetochore sub-complex COMA; COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) bridges kinetochore subunits in contact with centromeric DNA with subunits bound to microtubules during kinetochore assembly; involved in minichromosome maintenance; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-O and fission yeast mal2	chromosome segregation|establishment of mitotic sister chromatid cohesion	molecular_function	COMA complex|condensed nuclear chromosome kinetochore
YKL148C	SDH1	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0121228020541291	0.483432256027976	1673	Flavoprotein subunit of succinate dehydrogenase; couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; FAD binding to Sdh1p is required for the assembly of the succinate dehydrogenase subunits	cellular respiration|mitochondrial electron transport, succinate to ubiquinone|tricarboxylic acid cycle	succinate dehydrogenase (ubiquinone) activity|flavin adenine dinucleotide binding	mitochondrial respiratory chain complex II|mitochondrion|mitochondrial membrane
YDR369C	XRS2	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.012096886505348	0.484367884633462	1674	Protein required for DNA repair; component of the Mre11 complex, which is involved in double strand breaks, meiotic recombination, telomere maintenance, and checkpoint signaling	double-strand break repair via nonhomologous end joining|meiotic DNA double-strand break formation|base-excision repair|telomere maintenance|sporulation resulting in formation of a cellular spore|double-strand break repair via break-induced replication	single-stranded telomeric DNA binding|protein binding, bridging|DNA binding|double-stranded telomeric DNA binding|telomeric DNA binding|G-quadruplex DNA binding	nucleus|Mre11 complex
YDL016C_d	YDL016C	het			0.0120922025405774	0.484537094368102	1675	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CDC7/YDL153C, the catalytic subunit of a complex that regulates DNA replication	Unknown	Unknown	Unknown
YPR158W	CUR1	hom	FT	NUCLEUS	0.0120714108915807	0.485288585792977	1676	Sorting factor, central regulator of spatial protein quality control; physically and functionally interacts with chaperones to promote sorting and deposition of misfolded proteins into cytosolic compartments; involved in destabilization of [URE3] prions; CUR1 has a paralog, BTN2, that arose from the whole genome duplication	cellular response to stress|protein localization to nucleus	chaperone binding	nucleus
YJL106W	IME2	hom	FT	CELL CYCLE|PROTEIN PHOSPHORYLATION|NUCLEUS	0.0120681396089986	0.485602844880132	1677	Serine/threonine protein kinase involved in activation of meiosis, associates with Ime1p and mediates its stability, activates Ndt80p; IME2 expression is positively regulated by Ime1p	protein phosphorylation|regulation of meiosis	protein kinase activity	nucleus
YOR318C_d	YOR318C	hom			0.012054641472316	0.485960426853089	1678	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo	Unknown	Unknown	Unknown
YLR207W	HRD3	hom	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|UBIQUITIN LIGASE COMPLEX	0.0120452108184723	0.486236456317878	1679	Resident protein of the ER membrane that plays a central role in ER-associated protein degradation (ERAD), forms HRD complex with Hrd1p and ERAD determinants that engages in lumen to cytosol communication and coordination of ERAD events	ER-associated protein catabolic process	ubiquitin-protein ligase activity	Hrd1p ubiquitin ligase ERAD-M complex|luminal surveillance complex|Hrd1p ubiquitin ligase ERAD-L complex|endoplasmic reticulum membrane
YDR413C_d	YDR413C	het			0.0120178110389637	0.487359147004157	1680	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the essential uncharacterized ORF YDR412W that is implicated in rRNA processing	Unknown	Unknown	Unknown
YOR342C	YOR342C	hom	FT	NUCLEUS	0.012014009570081	0.487366564342771	1681	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOR342C has a paralog, YAL037W, that arose from the whole genome duplication	biological_process	molecular_function	nucleus|cytoplasm
YDL055C	PSA1	het	FT	CELL CYCLE|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM	0.0120119622746098	0.487440766831264	1682	GDP-mannose pyrophosphorylase (mannose-1-phosphate guanyltransferase), synthesizes GDP-mannose from GTP and mannose-1-phosphate in cell wall biosynthesis; required for normal cell wall structure	protein glycosylation|cell wall mannoprotein biosynthetic process|GDP-mannose biosynthetic process	mannose-1-phosphate guanylyltransferase activity	cytoplasm
YDL168W	SFA1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.0119761679530791	0.488804135377131	1683	Bifunctional alcohol dehydrogenase and formaldehyde dehydrogenase; formaldehyde dehydrogenase activity is glutathione-dependent; functions in formaldehyde detoxification and formation of long chain and complex alcohols, regulated by Hog1p-Sko1p; protein abundance increases in response to DNA replication stress	furaldehyde metabolic process|formaldehyde catabolic process|amino acid catabolic process to alcohol via Ehrlich pathway	S-(hydroxymethyl)glutathione dehydrogenase activity|hydroxymethylfurfural reductase (NADH) activity|alcohol dehydrogenase (NAD) activity	mitochondrion|cytoplasm
YKL108W	SLD2	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.0119586890945463	0.489373749595064	1684	Single-stranded DNA origin-binding and annealing protein; required for the initiation of DNA replication; phosphorylated in S phase by cyclin-dependent kinases (Cdks), promoting origin binding, DNA replication and Dpb11p complex formation; component of the preloading complex; unphosphorylated or CDK-phosphorylated Sld2p binds to the MCM2-7 complex;required for the S phase checkpoint; relative distribution to the nucleus increases upon DNA replication stress	DNA replication preinitiation complex assembly|DNA strand renaturation|DNA replication initiation|double-strand break repair via break-induced replication|mitotic cell cycle DNA replication checkpoint	DNA replication origin binding|single-stranded DNA binding	DNA replication preinitiation complex
YJL047C	RTT101	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0119302436645103	0.490472479346519	1685	Cullin subunit of a Roc1p-dependent E3 ubiquitin ligase complex with a role in anaphase progression; implicated in Mms22-dependent DNA repair; involved with Mms1p in nonfunctional rRNA decay; modified by the ubiquitin-like protein, Rub1p	replication fork processing|negative regulation of transposition, RNA-mediated|regulation of mitosis|nonfunctional rRNA decay|ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity	Cul8-RING ubiquitin ligase complex|nucleus|cytoplasm
YDR311W	TFB1	het	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|RNA POL II, HOLOENZYME	0.0119264224554653	0.490546526733743	1686	Subunit of TFIIH and nucleotide excision repair factor 3 complexes, required for nucleotide excision repair, target for transcriptional activators	phosphorylation of RNA polymerase II C-terminal domain|transcription from RNA polymerase I promoter|nucleotide-excision repair|transcription from RNA polymerase II promoter	core RNA polymerase binding transcription factor activity|phosphatidylinositol-3-phosphate binding|phosphatidylinositol-5-phosphate binding	core TFIIH complex|holo TFIIH complex|nucleotide-excision repair factor 3 complex
YNL027W	CRZ1	hom	FT	TRANSCRIPTION FROM RNA POL II|SIGNALING|ION HOMEOSTASIS|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|ION HOMEOSTASIS|NUCLEUS	0.0119136757848174	0.491010238512832	1687	Transcription factor, activates transcription of stress response genes; nuclear localization is positively regulated by calcineurin-mediated dephosphorylation; rapidly localizes to the nucleus under blue light stress	regulation of potassium ion concentration by positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter in response to calcium ion|positive regulation of sodium ion transport by positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter in response to increased salt|cell wall chitin biosynthetic process|positive regulation of transcription from RNA polymerase II promoter in response to alkalinity|positive regulation of transcription from RNA polymerase II promoter by pheromones|ion homeostasis|Unknown|positive regulation of transcription from RNA polymerase II promoter	core promoter proximal region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus|cytoplasm
YML077W	BET5	het	FT	VESICLE-MEDIATED TRANSPORT|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0118673077335574	0.492699047943776	1688	Component of the TRAPP (transport protein particle) complex, which plays an essential role in the vesicular transport from endoplasmic reticulum to Golgi	ER to Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	TRAPP complex
YMR216C	SKY1	hom	FF|FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|ION HOMEOSTASIS|PROTEIN PHOSPHORYLATION|ION HOMEOSTASIS	0.0118481814899949	0.493396566321382	1689	SR protein kinase (SRPK) involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1	cellular cation homeostasis|cellular ion homeostasis|response to drug|protein phosphorylation|positive regulation of protein import into nucleus|regulation of cell size|mRNA splice site selection	protein serine/threonine kinase activity|protein kinase activity	cytoplasm
YOL103W	ITR2	hom	FT	PLASMA MEMBRANE	0.0118420057605371	0.493686567685159	1690	Myo-inositol transporter with strong similarity to the major myo-inositol transporter Itr1p, member of the sugar transporter superfamily; expressed constitutively	myo-inositol transport	myo-inositol transmembrane transporter activity	integral to membrane|plasma membrane|membrane
YNL041C	COG6	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0118401565665435	0.493883406811824	1691	Component of the conserved oligomeric Golgi complex (Cog1p through Cog8p), a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments	intra-Golgi vesicle-mediated transport|CVT pathway	molecular_function	Golgi transport complex
YGR140W	CBF2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0118391797643938	0.493725034683859	1692	Essential kinetochore protein; component of the CBF3 multisubunit complex that binds to the CDEIII region of the centromere; Cbf2p also binds to the CDEII region possibly forming a different multimeric complex, ubiquitinated in vivo; relative distribution to the spindle pole body decreases upon DNA replication stress	chromosome segregation|septin ring assembly|mitotic spindle elongation	DNA binding, bending|centromeric DNA binding	spindle midzone|condensed nuclear chromosome kinetochore|CBF3 complex|condensed nuclear chromosome, centromeric region|spindle
YOR048C	RAT1	het	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.0118313965579777	0.494203078586056	1693	Nuclear 5' to 3' single-stranded RNA exonuclease, involved in RNA metabolism, including rRNA and snRNA processing as well as poly (A+) dependent and independent mRNA transcription termination	termination of RNA polymerase II transcription, exosome-dependent|nuclear mRNA surveillance|termination of RNA polymerase II transcription, poly(A)-coupled|rRNA processing|RNA processing	5'-3' exoribonuclease activity	mitochondrion|nucleus
YOR191W	ULS1	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|MITOCHONDRION	0.0118265923851092	0.494184537820951	1694	Protein involved in proteolytic control of sumoylated substrates; contains RING finger domain; interacts with SUMO (Smt3p); member of the SWI/SNF family of DNA-dependent ATPases; plays a role in antagonizing silencing during mating-type switching; relocalizes from nucleus to cytoplasm upon DNA replication stress	chromatin assembly or disassembly|mating type switching	SUMO binding|DNA-dependent ATPase activity	mitochondrion|nucleolus|nucleus
YPR073C	LTP1	hom	FT	NUCLEUS	0.0118242768923117	0.494269089936113	1695	Protein phosphotyrosine phosphatase of unknown cellular role; activated by adenine	protein dephosphorylation	protein tyrosine phosphatase activity	nucleus|cytoplasm
YLR166C	SEC10	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL DIVISION|SITE OF POLARIZED GROWTH	0.0118191118526673	0.494457723451064	1696	Essential 100kDa subunit of the exocyst complex; the exocyst mediates polarized targeting and tethering of post-Golgi secretory vesicles to active sites of exocytosis at the plasma membrane prior to SNARE-mediated fusion	exocytosis|establishment of cell polarity|Golgi to plasma membrane transport|vesicle fusion|vesicle docking involved in exocytosis	molecular_function	mating projection tip|exocyst
YPR049C	ATG11	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|PEROXISOME ORGANIZATION	0.0118092538275337	0.494817857265357	1697	Adapter protein for pexophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; directs receptor-bound cargo to the phagophore assembly site (PAS) for packaging into vesicles; required for recruiting other proteins to the (PAS)	piecemeal microautophagy of nucleus|mitochondrion degradation|peroxisome degradation|protein localization to pre-autophagosomal structure|CVT pathway	protein complex scaffold	pre-autophagosomal structure|extrinsic to membrane
YKR106W	GEX2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0118029068998651	0.495049797640003	1698	Proton:glutathione antiporter localized to the vacuolar and plasma membranes; expressed at a very low level; almost identical to paralog Gex1p; potential role in resistance to oxidative stress and modulation of the PKA pathway	glutathione transmembrane transport	solute:hydrogen antiporter activity	integral to membrane|plasma membrane|vacuolar membrane
YGR003W	CUL3	hom	FT	PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0118000300647675	0.495219489475065	1699	Ubiquitin-protein ligase, forms a complex with Elc1p that polyubiquitylates monoubiquitylated RNA polymerase II to trigger its proteolysis; cullin family member with similarity to Cdc53p and human CUL3	protein ubiquitination involved in ubiquitin-dependent protein catabolic process|ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity	nucleus|Cul3-RING ubiquitin ligase complex|cytoplasm
YPL166W	ATG29	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|RESPONSE TO NUTRIENT LEVELS	0.0117730116261066	0.496272003186194	1700	Autophagy-specific protein; required for recruiting other ATG proteins to the pre-autophagosomal structure (PAS); interacts with Atg17p and localizas to the PAS in a manner interdependent with Atg17p and Cis1p; not conserved; relocalizes from nucleus to cytoplasmic foci upon DNA replication stress	mitochondrion degradation|piecemeal microautophagy of nucleus|macroautophagy	molecular_function	pre-autophagosomal structure|cytoplasm
YFR042W	KEG1	het	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0117520130564917	0.496911745761451	1701	Integral membrane protein of the ER; physically interacts with Kre6p; has a role in the synthesis of beta-1,6-glucan in the cell wall; required for cell viability	chromosome organization|(1->6)-beta-D-glucan biosynthetic process	molecular_function	integral to endoplasmic reticulum membrane|integral to membrane
YBR073W	RDH54	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS	0.0117490282521146	0.497021060330036	1702	DNA-dependent ATPase; stimulates strand exchange by modifying the topology of double-stranded DNA; involved in recombinational repair of DNA double-strand breaks during mitosis and meiosis; proposed to be involved in crossover interference; interacts with Dmc1p; stimulates Dmc1p and Rad51p	DNA geometric change|heteroduplex formation|meiotic sister chromatid segregation|reciprocal meiotic recombination|double-strand break repair via break-induced replication	DNA-dependent ATPase activity|DNA translocase activity	nucleus
YFR022W	ROG3	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION	0.0117267683640849	0.498158477441408	1703	Protein that binds the ubiquitin ligase Rsp5p via its 2 PY motifs; mutation suppresses the temperature sensitivity of an mck1 rim11 double mutant; proposed to regulate the endocytosis of plasma membrane proteins; ROG3 has a paralog, ROD1, that arose from the whole genome duplication	ubiquitin-dependent endocytosis	ubiquitin protein ligase binding	cellular_component
YDL128W	VCX1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.011697987437089	0.498892344077937	1704	Vacuolar membrane antiporter with Ca2+/H+ and K+/H+ exchange activity, involved in control of cytosolic Ca2+ and K+ concentrations; has similarity to sodium/calcium exchangers, including the bovine Na+/Ca2+,K+ antiporter	manganese ion transport|cellular calcium ion homeostasis|calcium ion transport|transmembrane transport	potassium:hydrogen antiporter activity|calcium:hydrogen antiporter activity	fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YPL068C_p	YPL068C	hom	FT	NUCLEUS	0.0116922937426057	0.499101320923632	1705	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and is induced in response to the DNA-damaging agent MMS	biological_process	molecular_function	nucleus
YER088C	DOT6	hom	FT	TRANSCRIPTION FROM RNA POL II|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0116804999828738	0.49953433755628	1706	Protein involved in rRNA and ribosome biogenesis; binds polymerase A and C motif; subunit of the RPD3L histone deacetylase complex; has chromatin specific SANT domain; involved in telomeric gene silencing and filamentation; DOT6 has a paralog, TOD6, that arose from the whole genome duplication; relative distribution to the nucleus increases upon DNA replication stress	chromatin silencing at rDNA|filamentous growth|regulation of transcription from RNA polymerase II promoter|unidimensional cell growth|chromatin silencing at telomere	sequence-specific DNA binding	Rpd3L-Expanded complex|nucleus|Rpd3L complex|cytoplasm
YLR204W	QRI5	hom	FF|FT	RNA PROCESSING|MITOCHONDRION	0.0116753984028731	0.499721707608244	1707	Mitochondrial inner membrane protein, required for accumulation of spliced COX1 mRNA; may have an additional role in translation of COX1 mRNA	mRNA processing	molecular_function	mitochondrion|integral to mitochondrial inner membrane
YGL251C	HFM1	hom	FT	CELL CYCLE|NUCLEUS	0.0116678667550976	0.499998396969977	1708	Meiosis specific DNA helicase involved in the conversion of double-stranded breaks to later recombination intermediates and in crossover control; catalyzes the unwinding of Holliday junctions; has ssDNA and dsDNA stimulated ATPase activity	meiosis|synapsis|DNA unwinding involved in replication|reciprocal meiotic recombination	DNA helicase activity	nucleus
YOL158C	ENB1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0116591974178994	0.500316982076215	1709	Endosomal ferric enterobactin transporter, expressed under conditions of iron deprivation; member of the major facilitator superfamily; expression is regulated by Rcs1p and affected by chloroquine treatment	ferric-enterobactin transport	ferric-enterobactin transmembrane transporter activity	integral to membrane|cellular bud membrane|plasma membrane
YIL083C	CAB2	het	FT	NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|NUCLEUS	0.011657977834197	0.500361808576556	1710	Probable phosphopantothenoylcysteine synthetase (PPCS), which catalyzes the second step of coenzyme A biosynthesis from pantothenate; null mutant lethality is complemented by E. coli coaBC (encoding a bifunctional enzyme with PPCS activity)	coenzyme A biosynthetic process	phosphopantothenate--cysteine ligase activity	nucleus|cytoplasm
YJL147C_p	YJL147C	hom	FT	MITOCHONDRION	0.0116205343934119	0.501739099293562	1711	Mitochondrial protein of unknown function; homozygous diploid deletion strain has a sporulation defect characterized by elevated dityrosine in the soluble fraction; expression induced by calcium shortage; YJL147W is a non-essential gene	biological_process	molecular_function	mitochondrion
YOL133W	HRT1	het	FT	CELL CYCLE|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0116144250100438	0.501964012343893	1712	RING finger containing subunit of Skp1-Cullin-F-box ubiquitin protein ligases (SCF); required for Gic2p, Far1p, Sic1p and Cln2p degradation; may tether Cdc34p (a ubiquitin conjugating enzyme or E2) and Cdc53p (a cullin) subunits of SCF	G2/M transition of mitotic cell cycle|SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|G1/S transition of mitotic cell cycle	ubiquitin-protein ligase activity	SCF ubiquitin ligase complex|nucleus|cytoplasm
YNL085W	MKT1	hom	FT	RESPONSE TO DNA DAMAGE|TRANSLATION	0.0116075114139085	0.502218596279924	1713	Protein that forms a complex with Pbp1p; complex may mediate posttranscriptional regulation of HO; involved in propagation of M2 dsRNA satellite of L-A virus; allelic variation affects mitochondrial genome stability, drug resistance, and more; forms cytoplasmic foci upon DNA replication stress	positive regulation of translation|interspecies interaction between organisms|response to DNA damage stimulus	nuclease activity	polysome|cytoplasm
YDL160C-A	MHF2	hom	FT	RESPONSE TO DNA DAMAGE	0.0116072999452943	0.502226384404885	1714	Component of the heterotetrameric MHF histone-fold complex; in humans the MMF complex interacts with both DNA and Mph1p ortholog FANCM to stabilize and remodel blocked replication forks and repair damaged DNA; mhf2 srs2 double mutants are MMS hypersensitive; orthologous to human centromere constitutive-associated network (CCAN) subunit CENP-X, also known as MHF2	response to DNA damage stimulus	molecular_function	cellular_component
YEL052W	AFG1	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|RESPONSE TO OXIDATIVE STRESS|PEROXISOME ORGANIZATION|MITOCHONDRION	0.0116029193923693	0.502387729059769	1715	Conserved protein that may act as a chaperone in the degradation of misfolded or unassembled cytochrome c oxidase subunits; localized to matrix face of the mitochondrial inner membrane; member of the AAA family but lacks a protease domain	protein import into peroxisome matrix|cellular response to oxidative stress|misfolded or incompletely synthesized protein catabolic process	molecular_function	mitochondrion|mitochondrial inner membrane
YKL096C-B_p	YKL096C-B	hom			0.0115865648710462	0.50299034130095	1716	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YJR142W_p	YJR142W	hom			0.0115787620170725	0.503277986193733	1717	Putative protein of unknown function; GST fusion protein is a Dbf2p-Mob1p phosphorylation target in a proteome chip analysis; synthetic lethal with PH085 deletion; plays a role in restricting Ty1 transposition; nudix hydrolase family member	biological_process	molecular_function	cellular_component
YGR118W	RPS23A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.0115679388693422	0.503677115116325	1718	Ribosomal protein 28 (rp28) of the small (40S) ribosomal subunit, required for translational accuracy; homologous to mammalian ribosomal protein S23 and bacterial S12; RPS23A has a paralog, RPS23B, that arose from the whole genome duplication; deletion of both RPS23A and RPS23B is lethal	maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|regulation of translational fidelity	structural constituent of ribosome	cytosolic small ribosomal subunit
YDR180W	SCC2	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0115245681446465	0.505341902308102	1719	Subunit of cohesin loading factor (Scc2p-Scc4p), a complex required for loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during DSB repair via histone H2AX; evolutionarily-conserved adherin	double-strand break repair|establishment of protein localization to chromatin|protein localization to chromatin|2-micrometer plasmid partitioning|mitotic chromosome condensation|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery|establishment of mitotic sister chromatid cohesion|rDNA condensation|tRNA gene clustering	molecular_function	nuclear chromatin|2-micrometer circle DNA|SMC loading complex
YDL150W	RPC53	het	FF|FT	NUCLEUS	0.0115188172558817	0.505490686861643	1720	RNA polymerase III subunit C53	tRNA transcription from RNA polymerase III promoter	DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex
YJL043W_p	YJL043W	hom	FT	MITOCHONDRION	0.0114949254643614	0.506374013413188	1721	Putative protein of unknown function; YJL043W is a non-essential gene	biological_process	molecular_function	mitochondrion|cytoplasm
YBR289W	SNF5	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|NUCLEUS|CHROMOSOME|RSC COMPLEX	0.0114867428898722	0.506676725723035	1722	Subunit of the SWI/SNF chromatin remodeling complex; involved in transcriptional regulation; functions interdependently in transcriptional activation with Snf2p and Snf6p; relocates to the cytosol under hypoxic conditions	sucrose catabolic process|double-strand break repair via homologous recombination|chromatin remodeling|carbon catabolite activation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter	RNA polymerase II activating transcription factor binding	SWI/SNF complex|nucleus
YDR466W	PKH3	hom	FF|FT	SIGNALING|CELL WALL ORG/BIOGENESIS|PROTEIN PHOSPHORYLATION	0.0114519096768831	0.507966434974511	1723	Protein kinase with similarity to mammalian phosphoinositide-dependent kinase 1 (PDK1) and yeast Pkh1p and Pkh2p, two redundant upstream activators of Pkc1p; identified as a multicopy suppressor of a pkh1 pkh2 double mutant	MAPK cascade involved in cell wall biogenesis|protein phosphorylation	protein kinase activity	cellular_component
YDR271C_d	YDR271C	hom			0.0114371261548801	0.508514318906808	1724	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CCC2/YDR270W	Unknown	Unknown	Unknown
YBR018C	GAL7	hom	FT	CARBOHYDRATE METABOLISM	0.0114025162771006	0.50979818662721	1725	Galactose-1-phosphate uridyl transferase, synthesizes glucose-1-phosphate and UDP-galactose from UDP-D-glucose and alpha-D-galactose-1-phosphate in the second step of galactose catabolism	galactose catabolic process via UDP-galactose	UDP-glucose:hexose-1-phosphate uridylyltransferase activity	cytoplasm
YGL074C_d	YGL074C	het			0.0113941333301885	0.510109410402478	1726	Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential HSF1 gene encoding heat shock transcription factor	Unknown	Unknown	Unknown
YKR003W	OSH6	hom	FT	VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|MEMBRANE ORGANIZATION|ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.0113929638561942	0.510152835978148	1727	Member of an oxysterol-binding protein family; overlapping, redundant functions in sterol metabolism and which collectively perform a function essential for viability; GFP-fusion protein localizes to the cell periphery; overexpression extends lifespan by promoting vacuolar fusion	sterol homeostasis|maintenance of cell polarity|endocytosis|sterol transport|exocytosis|sterol metabolic process	phosphatidic acid binding|lipid binding|phosphatidylinositol-3,4-bisphosphate binding|oxysterol binding|phosphatidylinositol-3,5-bisphosphate binding|phosphatidylinositol-5-phosphate binding|phosphatidylinositol-4-phosphate binding	cortical endoplasmic reticulum|extrinsic to membrane|cytoplasm
YPL025C_d	YPL025C	hom			0.0113774211653207	0.510730159541713	1728	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR461W	PAU4	hom			0.0113716056566473	0.510946260698441	1729	Member of the seripauperin multigene family encoded mainly in subtelomeric regions; active during alcoholic fermentation, regulated by anaerobiosis, negatively regulated by oxygen, repressed by heme	biological_process	molecular_function	cellular_component
YDL088C	ASM4	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|CELL DIVISION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.011363776929033	0.511237247376215	1730	FG-nucleoporin component of central core of nuclear pore complex (NPC); contributes directly to nucleocytoplasmic transport; induces membrane tubulation, which may contribute to nuclear pore assembly; ASM4 has a paralog, NUP53, that arose from the whole genome duplication	nuclear pore organization|mRNA export from nucleus in response to heat stress|mitotic cell cycle spindle assembly checkpoint	nucleocytoplasmic transporter activity|phospholipid binding|single-stranded DNA binding	nuclear pore central transport channel|integral to membrane|nuclear pore
YGL243W	TAD1	hom	FT	RNA PROCESSING|NUCLEUS	0.0113389031091882	0.512162358389164	1731	tRNA-specific adenosine deaminase, deaminates adenosine-37 to inosine in tRNA-Ala	tRNA modification	tRNA-specific adenosine-37 deaminase activity	nucleus
YOL123W	HRP1	het	FT	RNA PROCESSING|NUCLEUS	0.0113377324068461	0.512205920829348	1732	Subunit of cleavage factor I, a five-subunit complex required for the cleavage and polyadenylation of pre-mRNA 3' ends; RRM-containing heteronuclear RNA binding protein and hnRNPA/B family member that binds to poly (A) signal sequences	mRNA cleavage|mRNA polyadenylation	mRNA binding|RNA binding	mRNA cleavage factor complex|nucleus|cytoplasmic stress granule|cytoplasm
YPL096W	PNG1	hom	FT	RESPONSE TO DNA DAMAGE|PROTEOLYSIS|NUCLEUS|MITOCHONDRION	0.0113374240067484	0.512217396878065	1733	Conserved peptide N-glycanase required for deglycosylation of misfolded glycoproteins during proteasome-dependent degradation; localizes to the cytoplasm and nucleus; activity is enhanced by interaction with Rad23p	misfolded or incompletely synthesized protein catabolic process|protein deglycosylation	peptide-N4-(N-acetyl-beta-glucosaminyl)asparagine amidase activity	cytosol|mitochondrion|nucleus
YML041C	VPS71	hom	FF|FT	PROTEIN LOCALIZATION|CHROMATIN ORGANIZATION|VACUOLAR TRANSPORT|NUCLEUS|CHROMOSOME	0.0113231236589383	0.513254743449907	1734	Nucleosome-binding component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for vacuolar protein sorting	chromatin remodeling|protein targeting to vacuole|histone exchange	nucleosome binding	Swr1 complex|nucleus
YNL170W_d	YNL170W	hom			0.0113160189776391	0.513014238785555	1735	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR144C	MKC7	hom	FT	CELL WALL ORG/BIOGENESIS|PROTEOLYSIS|PLASMA MEMBRANE	0.0112838380248653	0.514213448018155	1736	GPI-anchored aspartyl protease, member of the yapsin family of proteases involved in cell wall growth and maintenance; shares functions with Yap3p and Kex2p	proteolysis|fungal-type cell wall organization	aspartic-type endopeptidase activity	fungal-type cell wall
YNL326C	PFA3	hom	FT	MEMBRANE ORGANIZATION	0.0112379766723967	0.515924965976019	1737	Palmitoyltransferase for Vac8p, required for vacuolar membrane fusion; contains an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain; autoacylates; required for vacuolar integrity under stress conditions	vacuole fusion, non-autophagic|protein palmitoylation	palmitoyltransferase activity	fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YGL058W	RAD6	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|PROTEOLYSIS|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0112295775585761	0.51623873554339	1738	Ubiquitin-conjugating enzyme (E2), involved in postreplication repair (as a heterodimer with Rad18p), DSBR and checkpoint control (as a heterodimer with Bre1p), ubiquitin-mediated N-end rule protein degradation (as a heterodimer with Ubr1p	protein ubiquitination involved in ubiquitin-dependent protein catabolic process|histone monoubiquitination|protein monoubiquitination|error-free translesion synthesis|error-prone translesion synthesis|transcription from RNA polymerase II promoter|mitotic cell cycle G1/S transition DNA damage checkpoint|regulation of dipeptide transport|meiotic DNA double-strand break formation|ubiquitin-dependent protein catabolic process via the N-end rule pathway|double-strand break repair via homologous recombination|protein polyubiquitination|error-free postreplication DNA repair|chromatin silencing at telomere	ubiquitin-protein ligase activity	nuclear chromatin|proteasome complex|nucleus|cytoplasm
YJL051W	IRC8	hom			0.0111909390865993	0.517934162264059	1739	Bud tip localized protein of unknown function; mRNA is targeted to the bud by a She2p dependent transport system; mRNA is cell cycle regulated via Fkh2p, peaking in G2/M phase; null mutant displays increased levels of spontaneous Rad52p foc	mitotic recombination	molecular_function	integral to membrane|cellular bud
YPR039W_d	YPR039W	hom			0.0111723265543703	0.518380119384611	1740	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified non essential genes ERV2/YPR037C and TIP41/YPR040W	Unknown	Unknown	Unknown
YHR207C	SET5	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.011169844690838	0.518473053269604	1741	Methyltransferase involved in methylation of histone H4 Lys5, -8, -12; S-adenosylmethionine-dependent; zinc-finger protein, contains one canonical and two unusual fingers in unusual arrangements; deletion enhances replication of positive-strand RNA virus	histone lysine methylation	S-adenosylmethionine-dependent methyltransferase activity	nuclear chromatin|nucleus|cytoplasm
YIR043C	YIR043C	hom			0.0111503230397697	0.519204345461038	1742	Possible pseudogene in strain S288C; YIR043C and the adjacent ORF, YIR044C, together may encode a non-functional member of the conserved, often subtelomerically-encoded Cos protein family	biological_process	molecular_function	cellular_component
YPL251W_d	YPL251W	het			0.0111428798691213	0.519483310981656	1743	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; partially overlaps 5' end of the verified, essential gene YAH1/YPL252C	Unknown	Unknown	Unknown
YOL163W_p	YOL163W	hom			0.0110864505476298	0.521600759985116	1744	Putative protein of unknown function; member of the Dal5p subfamily of the major facilitator family	transmembrane transport	transmembrane transporter activity	integral to membrane|membrane
YDR157W_d	YDR157W	hom			0.0110339848833776	0.523573451144818	1745	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR159W	SAC3	hom	FF|FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|CELL CYCLE|RNA PROCESSING|RIBOSOME BIOGENESIS|RESPONSE TO DNA DAMAGE|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.0110230536392616	0.52448215239591	1746	Nuclear pore-associated protein; required for biogenesis of the small ribosomal subunit; component of TREX-2 complex (Sac3p-Thp1p-Sus1p-Cdc31p) involved in transcription elongation and mRNA export from the nucleus; involved in post-transcriptional tethering of active genes to the nuclear periphery and to non-nascent mRNP; similar to the human germinal center-associated nuclear protein (GANP)	ribosomal small subunit biogenesis|actin filament-based process|mRNA export from nucleus|mRNA 3'-end processing|mitosis|protein export from nucleus|transcription-coupled nucleotide-excision repair|nuclear retention of pre-mRNA at the site of transcription|posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery	protein binding	transcription export complex 2|nuclear pore
YHR154W	RTT107	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.0110137926847149	0.524333689134032	1747	Protein implicated in Mms22-dependent DNA repair during S phase; involved in recruiting the SMC5/6 complex to double-strand breaks; DNA damage induces phosphorylation by Mec1p at one or more SQ/TQ motifs; interacts with Mms22p and Slx4p; has four BRCT domains; has a role in regulation of Ty1 transposition; relative distribution to nuclear foci increases upon DNA replication stress	negative regulation of transposition, RNA-mediated|double-strand break repair	molecular_function	Cul8-RING ubiquitin ligase complex|nucleus
YIL005W	EPS1	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0109909153197498	0.525195706497165	1748	ER protein with chaperone and co-chaperone activity, involved in retention of resident ER proteins; has a role in recognizing proteins targeted for ER-associated degradation (ERAD), member of the protein disulfide isomerase family	protein retention in ER lumen|ER-associated protein catabolic process	unfolded protein binding|protein disulfide isomerase activity|chaperone binding	endoplasmic reticulum membrane
YPL105C	SYH1	hom	FT	PROTEIN LOCALIZATION|MITOCHONDRION	0.0109046731961919	0.528451807664947	1749	Protein of unknown function that influences nuclear pore distribution; co-purifies with ribosomes; contains a GYF domain, which bind proline-rich sequences; deletion extends chronological lifespan; SYH1 has a paralog, SMY2, that arose from the whole genome duplication	nuclear pore distribution	molecular_function	mitochondrion|ribosome|cytoplasmic mRNA processing body|extrinsic to membrane|cytoplasm
YPL007C	TFC8	het	FT	NUCLEUS	0.0109003111679977	0.528616770150375	1750	One of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; linker between TauB and TauA domains; human homolog is TFIIIC-90	transcription from a RNA polymerase III hybrid type promoter|transcription from RNA polymerase III type 2 promoter|5S class rRNA transcription from RNA polymerase III type 1 promoter|transcription from RNA polymerase III promoter	RNA polymerase III type 1 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding|RNA polymerase III type 2 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|RNA polymerase III type 1 promoter sequence-specific DNA binding TFIIIB recruiting transcription factor activity|DNA binding, bending	transcription factor TFIIIC complex
YML117W	NAB6	hom			0.0108926272590054	0.529339343354684	1751	Putative RNA-binding protein that associates with mRNAs encoding cell wall proteins in high-throughput studies; deletion mutants display increased sensitivity to some cell wall disrupting agents; expression negatively regulated by cAMP	biological_process	molecular_function	cytoplasm
YLL062C	MHT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.0108883382682092	0.529069694008029	1752	S-methylmethionine-homocysteine methyltransferase, functions along with Sam4p in the conversion of S-adenosylmethionine (AdoMet) to methionine to control the methionine/AdoMet ratio	sulfur amino acid metabolic process	homocysteine S-methyltransferase activity	cytoplasm
YMR320W_d	YMR320W	hom			0.0108791568503373	0.529417152309509	1753	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR320C	SWA2	hom	FF|FT	VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|NUCLEOTIDE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0108716305564101	0.529702061175909	1754	Auxilin-like protein involved in vesicular transport; clathrin-binding protein required for uncoating of clathrin-coated vesicles	positive regulation of ATPase activity|endoplasmic reticulum inheritance|clathrin coat disassembly	ubiquitin binding|clathrin binding	endoplasmic reticulum membrane
YCR037C	PHO87	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0108634350516046	0.530012391686525	1755	Low-affinity inorganic phosphate (Pi) transporter; involved in activation of PHO pathway; expression is independent of Pi concentration and Pho4p activity; contains 12 membrane-spanning segments; PHO87 has a paralog, PHO90, that arose from the whole genome duplication	phosphate ion transport|transmembrane transport	inorganic phosphate transmembrane transporter activity	integral to membrane|membrane
YOL018C	TLG2	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|LIPID METABOLISM|MEMBRANE ORGANIZATION|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.0108536320512163	0.531431482214028	1756	Syntaxin-like t-SNARE that forms a complex with Tlg1p and Vti1p and mediates fusion of endosome-derived vesicles with the late Golgi; binds Vps45p, which prevents Tlg2p degradation and also facilitates t-SNARE complex formation; homologous to mammalian SNARE protein syntaxin 16 (Sx16)	inositolphosphoceramide metabolic process|Golgi to vacuole transport|endocytosis|mannosyl-inositol phosphorylceramide metabolic process|protein exit from endoplasmic reticulum|vesicle fusion|CVT pathway	SNAP receptor activity	SNARE complex|trans-Golgi network|integral to endosome membrane
YDR477W	SNF1	hom	FT	KETONE METABOLISM|SIGNALING|TRANSLATION|CARBOHYDRATE METABOLISM|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION	0.0108486404201296	0.530572838035919	1757	AMP-activated serine/threonine protein kinase; found in a complex containing Snf4p and members of the Sip1p/Sip2p/Gal83p family; required for transcription of glucose-repressed genes, thermotolerance, sporulation, and peroxisome biogenesis; involved in regulation of the nucleocytoplasmic shuttling of Hxk2p; regulates filamentous growth in response to starvation	negative regulation of translation|protein phosphorylation|replicative cell aging|signal transduction|biofilm formation|positive regulation of gluconeogenesis|pseudohyphal growth|cell adhesion|regulation of carbohydrate metabolic process|invasive growth in response to glucose limitation|cellular response to nitrogen starvation	AMP-activated protein kinase activity|protein kinase activity	mitochondrion|AMP-activated protein kinase complex|nucleus|nuclear envelope lumen|fungal-type vacuole|cytoplasm
YLR428C_d	YLR428C	hom			0.0108405600552821	0.530879063219479	1758	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CRN1	Unknown	Unknown	Unknown
YFL040W_p	YFL040W	hom			0.0108364148636961	0.532082948749254	1759	Putative transporter, member of the sugar porter family; YFL040W is not an essential gene	transmembrane transport	substrate-specific transmembrane transporter activity	integral to membrane|membrane
YGR282C	BGL2	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM	0.0108176845610078	0.531746471840617	1760	Endo-beta-1,3-glucanase, major protein of the cell wall, involved in cell wall maintenance	fungal-type cell wall organization	1,3-beta-glucanosyltransferase activity|glucan endo-1,3-beta-D-glucosidase activity	fungal-type cell wall
YIL109C	SEC24	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0108092862611759	0.532187872365126	1761	Component of the Sec23p-Sec24p heterodimer of the COPII vesicle coat, required for cargo selection during vesicle formation in ER to Golgi transport; homologous to Sfb2p and Sfb3p	cargo loading into COPII-coated vesicle	signal sequence binding	COPII vesicle coat
YIR001C	SGN1	hom			0.0107966009384612	0.532546570293045	1762	Cytoplasmic RNA-binding protein, contains an RNA recognition motif (RRM); may have a role in mRNA translation, as suggested by genetic interactions with genes encoding proteins involved in translational initiation	mRNA metabolic process	poly(A) RNA binding	cytoplasm
YKL049C	CSE4	het	FT	CELL CYCLE|CHROMATIN ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.0107943336425267	0.532632647739124	1763	Centromere protein that resembles histone H3; required for proper kinetochore function; homolog of human CENP-A; levels are regulated by E3 ubiquitin ligase Psh1p; Cse4p marks a subset of open chromatin; associated with promoters, accessible chromatin and RNA polymerase II-bound regions	2-micrometer plasmid partitioning|mitotic sister chromatid segregation	sequence-specific DNA binding|centromeric DNA binding	extrachromosomal circular DNA|nuclear nucleosome|condensed nuclear chromosome, centromeric region|centromere-specific nucleosome|kinetochore
YKR022C	NTR2	het	FT	RNA PROCESSING|NUCLEUS|ENDOPLASMIC RETICULUM	0.0107926609008366	0.532941514016912	1764	Essential protein that forms a dimer with Ntr1p; also forms a trimer, with Ntr2p and the DExD/H-box RNA helicase Prp43p, that is involved in spliceosome disassembly	spliceosomal complex disassembly|mRNA splicing, via spliceosome	molecular_function	endoplasmic reticulum|U2-type post-mRNA release spliceosomal complex|nucleus|spliceosomal complex|cytoplasm
YBR063C_p	YBR063C	hom			0.0107867214796831	0.532921693481158	1765	Putative protein of unknown function; YBR063C is not an essential gene	biological_process	molecular_function	cellular_component
YPL239W	YAR1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RESPONSE TO OXIDATIVE STRESS	0.0107672396422681	0.533661810412374	1766	Ankyrin-repeat containing, nucleocytoplasmic shuttling chaperone; prevents aggregation of Rps3p in the cytoplasm, associates with free Rps3p in the cytoplasm and delivers it to the 90S in the nucleus; required for 40S ribosomal subunit export, biogenesis and adaptation to osmotic and oxidative stress; expression repressed by heat shock	ribosomal small subunit biogenesis|cellular response to oxidative stress|response to osmotic stress	molecular_function	cytoplasm
YNR027W	BUD17	hom	FT	CELL CYCLE|CELL DIVISION|COFACTOR METABOLISM|NUCLEUS	0.0107629072715389	0.533826468136138	1767	Putative pyridoxal kinase, a key enzyme in vitamin B6 metabolism; involved in bud-site selection; diploid mutants display a random rather than a bipolar budding pattern; similarity to yeast BUD16 and human pyridoxal kinase (PDXK)	pyridoxal phosphate biosynthetic process|cellular bud site selection	pyridoxal kinase activity	nucleus|cytoplasm
YMR155W_p	YMR155W	hom			0.0107617720847601	0.533869616716106	1768	Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen	biological_process	molecular_function	integral to membrane
YKL011C	CCE1	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.0107479874998748	0.534393710850885	1769	Mitochondrial cruciform cutting endonuclease, cleaves Holliday junctions formed during recombination of mitochondrial DNA	mitochondrial genome maintenance	endodeoxyribonuclease activity	mitochondrial inner membrane
YDR153C	ENT5	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM	0.0107396844789389	0.534709519459504	1770	Protein containing an N-terminal epsin-like domain involved in clathrin recruitment and traffic between the Golgi and endosomes; associates with the clathrin adaptor Gga2p, clathrin adaptor complex AP-1, and clathrin	late endosome to vacuole transport via multivesicular body sorting pathway|early endosome to Golgi transport|Golgi to endosome transport	clathrin binding|phosphatidylinositol-3,5-bisphosphate binding	endosome|clathrin vesicle coat|cytoplasm
YCL008C	STP22	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS|VACUOLAR TRANSPORT|PLASMA MEMBRANE	0.0107381764589676	0.534766887678561	1771	Component of the ESCRT-I complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome; homologous to the mouse and human Tsg101 tumor susceptibility gene; mutants exhibit a Class E Vps phenotype	protein targeting to membrane|ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway|late endosome to vacuole transport|protein targeting to vacuole	ubiquitin binding	endosome|ESCRT I complex|internal side of plasma membrane
YOR095C	RKI1	het	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.0107225125203804	0.535362959985921	1772	Ribose-5-phosphate ketol-isomerase, catalyzes the interconversion of ribose 5-phosphate and ribulose 5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis	pyridoxine biosynthetic process|pentose-phosphate shunt	ribose-5-phosphate isomerase activity	nucleus|cytoplasm
YLR045C	STU2	het	FT	CELL CYCLE|CYTOSKELETON ORGANIZATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.0106893356586263	0.536626569698985	1773	Microtubule-associated protein (MAP) of the XMAP215/Dis1 family; regulates microtubule dynamics during spindle orientation and metaphase chromosome alignment; interacts with spindle pole body component Spc72p	microtubule nucleation|mitotic spindle organization in nucleus	microtubule binding|structural constituent of cytoskeleton	cell cortex|spindle microtubule|condensed nuclear chromosome kinetochore|spindle pole body|kinetochore
YGL221C	NIF3	hom	FT	MITOCHONDRION	0.0106816328732548	0.536920160632555	1774	Protein of unknown function, similar to Listeria monocytogenes major sigma factor (rpoD gene product); the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion|cytoplasm
YCL028W	RNQ1	hom	FT	NUCLEUS	0.0106745829616265	0.537188938077806	1775	[PIN(+)] prion, an infectious protein conformation that is generally an ordered protein aggregate	biological_process	molecular_function	cytosol
YGR291C_d	YGR291C	hom			0.0106716664021289	0.537300151490304	1776	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YCL004W	PGS1	het	FT	LIPID METABOLISM|MITOCHONDRION	0.0106531688814338	0.538005762804948	1777	Phosphatidylglycerolphosphate synthase, catalyzes the synthesis of phosphatidylglycerolphosphate from CDP-diacylglycerol and sn-glycerol 3-phosphate in the first committed and rate-limiting step of cardiolipin biosynthesis	cardiolipin biosynthetic process	CDP-diacylglycerol-glycerol-3-phosphate 3-phosphatidyltransferase activity	mitochondrion
YLR098C	CHA4	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0106447171761587	0.538328318461911	1778	DNA binding transcriptional activator, mediates serine/threonine activation of the catabolic L-serine (L-threonine) deaminase (CHA1); Zinc-finger protein with Zn[2]-Cys[6] fungal-type binuclear cluster domain	positive regulation of transcription, DNA-dependent|cellular amino acid catabolic process	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YOR029W_d	YOR029W	hom			0.0106406819063697	0.538482356976202	1779	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YCL048W	SPS22	hom	FT	CELL WALL ORG/BIOGENESIS|PLASMA MEMBRANE	0.0106291160873484	0.538923981848683	1780	Protein of unknown function; SPS22 has a paralog, SPS2, that arose from the whole genome duplication; redundant with Sps2p for the organization of the beta-glucan layer of the spore wall	ascospore wall assembly|fungal-type cell wall organization	molecular_function	plasma membrane
YBL096C_d	YBL096C	hom			0.0106093849419756	0.539677807078147	1781	Non-essential protein of unknown function	Unknown	Unknown	Unknown
YER019C-A	SBH2	hom	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0106093660248336	0.539982029420112	1782	Ssh1p-Sss1p-Sbh2p complex component, involved in protein translocation into the endoplasmic reticulum; homologous to Sbh1p	SRP-dependent cotranslational protein targeting to membrane	ARF guanyl-nucleotide exchange factor activity	Ssh1 translocon complex
YDL154W	MSH5	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME	0.0105902179598747	0.540410583449563	1783	Protein of the MutS family, forms a dimer with Msh4p that facilitates crossovers between homologs during meiosis; msh5-Y823H mutation confers tolerance to DNA alkylating agents; homologs present in C. elegans and humans	reciprocal meiotic recombination	molecular_function	nucleus
YIL136W	OM45	hom	FT	MITOCHONDRION	0.0105723431088233	0.541094408024207	1784	Mitochondrial outer membrane protein of unknown function; major constituent of the outer membrane, located on the outer (cytosolic) face; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	mitochondrial outer membrane|mitochondrion|integral to mitochondrial outer membrane
YPL016W	SWI1	het	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|NUCLEUS|RSC COMPLEX	0.0105541977774193	0.541789021815807	1785	Subunit of the SWI/SNF chromatin remodeling complex; regulates transcription by remodeling chromatin; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; can form the prion [SWI+]; human homolog ARID1A is a candidate tumor suppressor gene in breast cancer	cellular alcohol catabolic process|ATP-dependent chromatin remodeling|positive regulation of mating type switching|sucrose catabolic process|carbon catabolite activation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter in response to amino acid starvation|positive regulation of transcription from RNA polymerase II promoter|DNA-dependent DNA replication	RNA polymerase II activating transcription factor binding	SWI/SNF complex|nucleus
YOR354C	MSC6	hom	FT	CELL CYCLE|MITOCHONDRION	0.0105134335482522	0.543411450437263	1786	Protein of unknown function; mutant is defective in directing meiotic recombination events to homologous chromatids; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	reciprocal meiotic recombination	molecular_function	mitochondrion
YHR017W	YSC83	hom	FT	MITOCHONDRION	0.0105057563735598	0.543826506710663	1787	Non-essential mitochondrial protein of unknown function; mRNA induced during meiosis, peaking between mid to late prophase of meiosis I; similar to S. douglasii YSD83	biological_process	molecular_function	mitochondrial outer membrane|mitochondrion
YEL065W	SIT1	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS	0.0104743041049754	0.544852678471319	1788	Ferrioxamine B transporter, member of the ARN family of transporters that specifically recognize siderophore-iron chelates; transcription is induced during iron deprivation and diauxic shift; potentially phosphorylated by Cdc28p	cellular iron ion homeostasis|siderophore transport|transmembrane transport	siderophore uptake transmembrane transporter activity	endosome|integral to membrane|cytoplasmic membrane-bounded vesicle
YGR137W_d	YGR137W	hom			0.0104699961927944	0.545078289004857	1789	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YBR183W	YPC1	hom	FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.0104609740842808	0.545364676354099	1790	Alkaline ceramidase; also has reverse (CoA-independent) ceramide synthase activity; catalyzes both breakdown and synthesis of phytoceramide; overexpression confers fumonisin B1 resistance; YPC1 has a paralog, YDC1, that arose from the whole genome duplication	ceramide catabolic process|ceramide biosynthetic process	phytoceramidase activity|sphingosine N-acyltransferase activity	integral to membrane|endoplasmic reticulum
YIL025C_d	YIL025C	hom			0.0104563321751077	0.545543025232736	1791	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YER081W	SER3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS	0.0104529518485869	0.54591343508046	1792	3-phosphoglycerate dehydrogenase; catalyzes the first step in serine and glycine biosynthesis; SER3 has a paralog, SER33, that arose from the whole genome duplication	serine family amino acid biosynthetic process	phosphoglycerate dehydrogenase activity	cytoplasm
YBL049W	MOH1	hom			0.0104471140002491	0.545897286600093	1793	Protein of unknown function, has homology to kinase Snf7p; not required for growth on nonfermentable carbon sources; essential for survival in stationary phase	biological_process	molecular_function	cellular_component
YCR019W	MAK32	hom			0.010417321551848	0.547043011858665	1794	Protein necessary for structural stability of L-A double-stranded RNA-containing particles	interspecies interaction between organisms	molecular_function	cellular_component
YGR226C_d	YGR226C	hom			0.0104059821917529	0.54747940087013	1795	Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; overlaps significantly with a verified ORF, AMA1/YGR225W	Unknown	Unknown	Unknown
YBR057C	MUM2	hom	FT	CELL CYCLE	0.010403474673701	0.547575924549942	1796	Cytoplasmic protein essential for meiotic DNA replication and sporulation; interacts with Orc2p, which is a component of the origin recognition complex	premeiotic DNA replication	molecular_function	cytoplasm
YKR015C_p	YKR015C	hom			0.0103988924599633	0.547992054200195	1797	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YBR120C	CBP6	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|TRANSLATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION|RIBOSOME	0.0103884971053892	0.548152641888723	1798	Mitochondrial protein required for translation of the COB mRNA; forms a complex with Cbp3p that binds to mt ribosomes near the polypeptide tunnel exit and promotes efficient translation of the COB mRNA; Cbp3p-Cbp6p complex also interacts with newly synthesized cytochrome b (Cobp) and Cbp4p to promote assembly of Cobp into the cytochrome bc1 complex	positive regulation of mitochondrial translation|mitochondrial respiratory chain complex III assembly	ribosome binding	mitochondrion|mitochondrial ribosome
YML047C	PRM6	hom			0.0103862314461596	0.54823990812993	1799	Potassium transporter that mediates K+ influx; activates the high-affinity Ca2+ influx system (HACS) during the mating pheromone response; expression is up-regulated in response to alpha factor; regulated by Ste12p during mating; localized to sites of polarized growth; similar to Prm6p; member of a fungal-specific gene family	biological_process	molecular_function	integral to membrane
YLL016W	SDC25	hom	FT	SIGNALING	0.0103383344188581	0.550086358525392	1800	Non-essential Ras guanine nucleotide exchange factor (GEF); localized to the membrane; expressed in poor nutrient conditions and on nonfermentable carbon sources; contains a stop codon in S288C, full-length gene includes YLL017W; SDC25 has a paralog, CDC25, that arose from the whole genome duplication	Ras protein signal transduction	Ras guanyl-nucleotide exchange factor activity	cellular_component
YKL150W	MCR1	hom	FT	LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|MITOCHONDRION	0.0103250043061309	0.550779736509473	1801	Mitochondrial NADH-cytochrome b5 reductase, involved in ergosterol biosynthesis	ergosterol biosynthetic process|cellular response to oxidative stress	cytochrome-b5 reductase activity	mitochondrial outer membrane|mitochondrion|integral to mitochondrial outer membrane|mitochondrial intermembrane space
YKR067W	GPT2	hom	FT	LIPID METABOLISM|ENDOPLASMIC RETICULUM	0.0103035700595016	0.551428454037085	1802	Glycerol-3-phosphate/dihydroxyacetone phosphate dual substrate-specific sn-1 acyltransferase located in lipid particles and the ER; involved in the stepwise acylation of glycerol-3-phosphate and dihydroxyacetone in lipid biosynthesis; the most conserved motifs and functionally relevant residues are oriented towards the ER lumen	phospholipid biosynthetic process	glycerol-3-phosphate O-acyltransferase activity|glycerone-phosphate O-acyltransferase activity	integral to membrane|lipid particle|endoplasmic reticulum|cytoplasm
YML034C-A_d	YML034C-A	hom			0.0102921369184959	0.551870187455395	1803	Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YLR420W	URA4	hom	FT	NUCLEOTIDE METABOLISM|NUCLEUS	0.010288471004487	0.552011861311899	1804	Dihydroorotase, catalyzes the third enzymatic step in the de novo biosynthesis of pyrimidines, converting carbamoyl-L-aspartate into dihydroorotate	'de novo' pyrimidine nucleobase biosynthetic process|pyrimidine nucleotide biosynthetic process	dihydroorotase activity	nucleus|cytoplasm
YMR185W	RTP1	het			0.0102803821299013	0.55232452918236	1805	Protein required for the nuclear import and biogenesis of RNA pol II; conflicting evidence on whether null mutant is viable with elongated buds, or inviable; interacts with Rpb2, Rpb3, Nup116p, Nup100p and components of the R2TP complex (Rvb1p, Rvb2p, Pih1p); similar to human TMCO7 gene	biological_process	molecular_function	cellular_component
YJL195C_d	YJL195C	het	FF		0.0102769751692481	0.552456248055436	1806	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL194W/CDC6	Unknown	Unknown	Unknown
YOR024W_d	YOR024W	hom			0.0102470498364091	0.553613873742081	1807	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGL253W	HXK2	hom	FT	CARBOHYDRATE METABOLISM|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|NUCLEUS|MITOCHONDRION	0.0102440687269269	0.55372925941038	1808	Hexokinase isoenzyme 2; catalyzes phosphorylation of glucose in the cytosol; predominant hexokinase during growth on glucose; functions in the nucleus to repress expression of HXK1 and GLK1 and to induce expression of its own gene; phosphorylation/dephosphorylation at serine-14 by protein kinase Snf1p and protein phosphatase Glc7p-Reg1p regulates nucleocytoplasmic shuttling of Hxk2p; HXK2 has a paralog, HXK1, that arose from the whole genome duplication	replicative cell aging|fructose import|regulation of transcription by glucose|glucose import|mannose metabolic process|glycolysis|glucose metabolic process|regulation of cell size|fructose metabolic process	hexokinase activity	cytosol|mitochondrion|nucleus
YGR045C_d	YGR045C	hom			0.0102290583537331	0.554310423902553	1809	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YPL147W	PXA1	hom	FT	NUCLEOTIDE METABOLISM	0.010223704848776	0.554517770506644	1810	Subunit of a heterodimeric peroxisomal ATP-binding cassette transporter complex (Pxa1p-Pxa2p), required for import of long-chain fatty acids into peroxisomes; similarity to human adrenoleukodystrophy transporter ABCD1 and ABCD2 and ALD-related proteins; mutations in ABCD1 cause X-linked adrenoleukodystrophy (X-ALD), a peroxisomal disorder	fatty acid transport	ATPase activity, coupled to transmembrane movement of substances	integral to membrane|integral to peroxisomal membrane
YGL184C	STR3	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.0102116808223731	0.554983611261296	1811	Peroxisomal cystathionine beta-lyase, converts cystathionine into homocysteine; may be redox regulated by Gto1p	methionine biosynthetic process|transsulfuration	cystathionine beta-lyase activity	peroxisome
YFR048W	RMD8	hom	FT	CELL CYCLE	0.0101992159887104	0.555525898475349	1812	Cytosolic protein required for sporulation	biological_process	molecular_function	cytoplasm
YNR073C_p	YNR073C	hom			0.0101733614715197	0.55664671451947	1813	Putative mannitol dehydrogenase; identical in amino acid sequence to Dsf1p	biological_process	mannitol dehydrogenase activity	cellular_component
YMR010W_p	YMR010W	hom			0.0101484592449782	0.557436113323302	1814	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR010W is not an essential gene; YMR010W mRNA is transcribed with ADI1	biological_process	molecular_function	integral to membrane|cytoplasm
YMR056C	AAC1	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.0100801449036873	0.560150801052218	1815	Mitochondrial inner membrane ADP/ATP translocator; exchanges cytosolic ADP for mitochondrially synthesized ATP; phosphorylated; Aac1p is a minor isoform while Pet9p is the major ADP/ATP translocator; relocalizes from mitochondrion to cytoplasm upon DNA replication stress	heme biosynthetic process|mitochondrial transport|heme transport|aerobic respiration	ATP:ADP antiporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YLR236C_d	YLR236C	hom			0.0100614369266803	0.560820499231666	1816	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDL179W	PCL9	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CELL DIVISION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH	0.0100309689019617	0.562007777297246	1817	Cyclin, forms a functional kinase complex with Pho85p cyclin-dependent kinase (Cdk), expressed in late M/early G1 phase, activated by Swi5p	regulation of establishment or maintenance of cell polarity|regulation of transcription involved in G1/S phase of mitotic cell cycle	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex|incipient cellular bud site|cellular bud neck
YLL015W	BPT1	hom	FT	ION HOMEOSTASIS|NUCLEOTIDE METABOLISM|ION HOMEOSTASIS	0.0100224002278701	0.56240038931504	1818	ABC type transmembrane transporter of MRP/CFTR family, found in vacuolar membrane, involved in the transport of unconjugated bilirubin and in heavy metal detoxification via glutathione conjugates, along with Ycf1p	cadmium ion transport|bilirubin transport	bilirubin transmembrane transporter activity|cadmium ion transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane
YKR026C	GCN3	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|TRANSLATION	0.0100122911135082	0.56273621313856	1819	Alpha subunit of the translation initiation factor eIF2B, the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a positive regulator of GCN4 expression	regulation of translational initiation	enzyme regulator activity|guanyl-nucleotide exchange factor activity|translation initiation factor activity	eukaryotic translation initiation factor 2B complex|guanyl-nucleotide exchange factor complex
YNL121C	TOM70	hom	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00996764878380204	0.564479112030094	1820	Component of the TOM (translocase of outer membrane) complex; involved in the recognition and initial import steps for all mitochondrially directed proteins; acts as a receptor for incoming precursor proteins; TOM70 has a paralog, TOM71, that arose from the whole genome duplication	protein import into mitochondrial matrix|protein import into mitochondrial inner membrane	mitochondrion targeting sequence binding|protein channel activity	mitochondrial outer membrane|mitochondrion|integral to membrane|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex
YCR054C	CTR86	het	FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.00995914837176099	0.564869517063366	1821	Essential protein of unknown function; with orthologs in Ashbya gossypii and Candida albicans; similar to human ATXN10, mutations in which cause spinocerebellar ataxia type 10; codon usage corresponds to that observed for yeast genes expressed at low levels; relative distribution to the nucleus increases upon DNA replication stress	biological_process	molecular_function	cytoplasm
YOR384W	FRE5	hom	FT	ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|ION HOMEOSTASIS|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION|PLASMA MEMBRANE	0.0099495556225755	0.565186233040258	1822	Putative ferric reductase with similarity to Fre2p; expression induced by low iron levels; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	ferric-chelate reductase activity	mitochondrion|integral to membrane
YMR206W_p	YMR206W	hom			0.00993956466779764	0.565576884103415	1823	Putative protein of unknown function; not an essential gene; YMR206W has a paralog, YNR014W, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YPL033C	SRL4	hom	FT	NUCLEOTIDE METABOLISM	0.00992913024098328	0.5659850134947	1824	Protein of unknown function; involved in regulation of dNTP production; null mutant suppresses the lethality of lcd1 and rad53 mutations; expression is induced by Kar4p	deoxyribonucleoside triphosphate metabolic process	molecular_function	cellular_component
YDR394W	RPT3	het	FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|NUCLEUS	0.00988985175378944	0.567522607730507	1825	One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; substrate of N-acetyltransferase B	positive regulation of RNA polymerase II transcriptional preinitiation complex assembly|proteasome regulatory particle assembly|ubiquitin-dependent protein catabolic process	ATPase activity	proteasome regulatory particle, base subcomplex
YDR109C_p	YDR109C	hom	FT	CARBOHYDRATE METABOLISM	0.00988852768704542	0.567864417442405	1826	Putative kinase	biological_process	molecular_function	cellular_component
YOR036W	PEP12	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.00988682636535569	0.567699081211095	1827	Target membrane receptor (t-SNARE) for vesicular intermediates traveling between the Golgi apparatus and the vacuole; controls entry of biosynthetic, endocytic, and retrograde traffic into the prevacuolar compartment; syntaxin	Golgi to vacuole transport|vacuole inheritance	SNAP receptor activity	endosome|Golgi apparatus
YBR019C	GAL10	hom	FT	CARBOHYDRATE METABOLISM	0.00986887217474563	0.568344691865992	1828	UDP-glucose-4-epimerase, catalyzes the interconversion of UDP-galactose and UDP-D-glucose in galactose metabolism; also catalyzes the conversion of alpha-D-glucose or alpha-D-galactose to their beta-anomers	galactose catabolic process via UDP-galactose	aldose 1-epimerase activity|UDP-glucose 4-epimerase activity	cytosol
YMR165C	PAH1	hom	FT	LIPID METABOLISM|MEMBRANE ORGANIZATION|OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.00985245677973097	0.568988325244313	1829	Mg2+-dependent phosphatidate (PA) phosphatase; dephosphorylates PA to yield diacylglycerol; responsible for de novo lipid synthesis and formation of lipid droplets; phosphorylation by Pho80p-Pho85p decreases catalytic activity and alters Pah1p localization and abundance; phosphorylation by protein kinase A decreases catalytic efficiency; dephosphorylation by Nem1p-Spo7p anchors Pah1p to the membrane increasing substrate catalysis; homologous to mammalian lipins 1 and 2	plasmid maintenance|vacuole fusion, non-autophagic|lipid particle organization|aerobic respiration|phospholipid biosynthetic process	phosphatidate phosphatase activity	cytosol|nuclear membrane|vacuole|cytoplasm|extrinsic to membrane
YER047C	SAP1	hom			0.00981613202410758	0.570413823172404	1830	Putative ATPase of the AAA family, interacts with the Sin1p transcriptional repressor in the two-hybrid system	biological_process	ATPase activity	cytoplasm
YGL172W	NUP49	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.00981109729349227	0.57061153602262	1831	FG-nucleoporin component of central core of the nuclear pore complex (NPC); contributes directly to nucleocytoplasmic transport and maintenance of the NPC permeability barrier; found in stable complex with Nic96p and two other FG-nucleoproteins (Nsp1p and Nup57p)	poly(A)+ mRNA export from nucleus|ribosomal large subunit export from nucleus|protein import into nucleus|tRNA export from nucleus	nucleocytoplasmic transporter activity|structural constituent of nuclear pore	nuclear pore central transport channel|nuclear envelope|integral to membrane|nuclear pore
YMR023C	MSS1	hom	FT	RNA PROCESSING|SIGNALING|NUCLEOTIDE METABOLISM|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00979119673997329	0.571393345951364	1832	Mitochondrial protein, forms a heterodimer complex with Mto1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; similar to human GTPBP3	mitochondrial tRNA wobble uridine modification|Unknown	GTP binding	mitochondrion|mitochondrial inner membrane
YHR071W	PCL5	hom	FT	CELL CYCLE|CELL DIVISION|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.00979076072972659	0.571410480680308	1833	Cyclin, interacts with and phosphorylated by Pho85p cyclin-dependent kinase (Cdk), induced by Gcn4p at level of transcription, specifically required for Gcn4p degradation, may be sensor of cellular protein biosynthetic capacity	negative regulation of sequence-specific DNA binding transcription factor activity|regulation of protein stability|negative regulation of macroautophagy	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex|nucleus
YMR106C	YKU80	hom	FT	PROTEIN LOCALIZATION|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|CHROMOSOME	0.00978603696235324	0.571596135266957	1834	Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair	chromatin assembly or disassembly|protein localization to chromosome|chromatin silencing|double-strand break repair via nonhomologous end joining|donor selection|telomere maintenance|double-strand break repair via homologous recombination	damaged DNA binding|RNA binding|DNA binding|telomeric DNA binding	nuclear chromatin|nuclear telomeric heterochromatin|Ku70:Ku80 complex
YNL102W	POL1	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.00976816864830842	0.572298659088445	1835	Catalytic subunit of the DNA polymerase I alpha-primase complex, required for the initiation of DNA replication during mitotic DNA synthesis and premeiotic DNA synthesis	RNA-dependent DNA replication|lagging strand elongation|DNA synthesis involved in DNA repair|DNA replication|DNA replication initiation|premeiotic DNA replication	DNA-directed DNA polymerase activity	mitochondrion|alpha DNA polymerase:primase complex|replication fork
YNL289W	PCL1	hom	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.00975030197202692	0.573231256395957	1836	Cyclin, interacts with cyclin-dependent kinase Pho85p; member of the Pcl1,2-like subfamily, involved in the regulation of polarized growth and morphogenesis and progression through the cell cycle; is ubiquitinated by Dma1p; phosphorylation by Pho85p targets it for degradation; localizes to sites of polarized cell growth	regulation of establishment or maintenance of cell polarity|G1 phase of mitotic cell cycle|regulation of cyclin-dependent protein kinase activity|septin ring organization|positive regulation of macroautophagy	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex|incipient cellular bud site|nucleus
YAR035W	YAT1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.00973766139174727	0.573499051523181	1837	Outer mitochondrial carnitine acetyltransferase, minor ethanol-inducible enzyme involved in transport of activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated	carnitine metabolic process|alcohol metabolic process	carnitine O-acetyltransferase activity	mitochondrion
YCR060W	TAH1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|NUCLEUS	0.00973130201435233	0.573749429015704	1838	Component of the conserved R2TP complex (Rvb1-Rvb2-Tah1-Pih1); contains a single TPR domain with at least two TPR motifs; R2TP complex interacts with Hsp90 (Hsp82p and Hsc82p) to mediate assembly large protein complexes such as box C/D snoRNPs and RNA polymerase II	protein folding|box C/D snoRNP assembly	chaperone binding	R2TP complex|nucleus|cytoplasm
YOR319W	HSH49	het	FF|FT	RNA PROCESSING|NUCLEUS	0.00970781743404199	0.574674497808489	1839	U2-snRNP associated splicing factor with similarity to the mammalian splicing factor SAP49; proposed to function as a U2-snRNP assembly factor along with Hsh155p and binding partner Cus1p; contains two RNA recognition motifs (RRM)	mRNA splicing, via spliceosome	RNA binding	U2 snRNP|U2-type prespliceosome
YEL041W	YEF1	hom	FT	NUCLEOTIDE METABOLISM|COFACTOR METABOLISM	0.00970435381629166	0.574810991022001	1840	ATP-NADH kinase; phosphorylates both NAD and NADH; homooctameric structure consisting of 60-kDa subunits; similar to Pos5p; overexpression complements certain pos5 phenotypes; YEF1 has a paralog, UTR1, that arose from the whole genome duplication	NADP biosynthetic process	NAD+ kinase activity|NADH kinase activity	cellular_component
YPL212C	PUS1	hom	FT	RNA PROCESSING|NUCLEUS	0.00970037303374397	0.574967883440106	1841	tRNA:pseudouridine synthase, introduces pseudouridines at positions 26-28, 34-36, 65, and 67 of tRNA; nuclear protein that appears to be involved in tRNA export; also acts on U2 snRNA	snRNA pseudouridine synthesis|tRNA pseudouridine synthesis	pseudouridine synthase activity	nucleus
YLR072W_p	YLR072W	hom	FT	ENDOMEMBRANE SYSTEM	0.00963069611473931	0.577774224943808	1842	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YLR072W is not an esssential gene	biological_process	molecular_function	cytoplasm
YLR278C_p	YLR278C	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.00962862540716111	0.577799097635683	1843	Zinc-cluster protein; GFP-fusion protein localizes to the nucleus; mutant shows moderate growth defect on caffeine; has a prion-domain like fragment that increases frequency of [URE3]; YLR278C is not an essential gene	biological_process	sequence-specific DNA binding	nucleus
YGR028W	MSP1	hom	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00962671795091027	0.577874456670802	1844	Mitochondrial protein involved in sorting of proteins in the mitochondria; putative membrane-spanning ATPase	protein targeting to mitochondrion	ATPase activity	mitochondrial outer membrane|mitochondrion
YOR270C	VPH1	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|ION HOMEOSTASIS	0.00959830138488652	0.5790544726228	1845	Subunit a of vacuolar-ATPase V0 domain; one of two isoforms (Vph1p and Stv1p); Vph1p is located in V-ATPase complexes of the vacuole while Stv1p is located in V-ATPase complexes of the Golgi and endosomes; relative distribution to the vacuolar membrane decreases upon DNA replication stress	polyphosphate metabolic process|proton transport|protein complex assembly|vacuolar acidification	proton-transporting ATPase activity, rotational mechanism	vacuolar proton-transporting V-type ATPase, V0 domain|fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YDL065C	PEX19	hom	FT	PROTEIN LOCALIZATION|PEROXISOME ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00956368026460941	0.580537523625231	1846	Chaperone and import receptor for newly-synthesized class I PMPs; binds peroxisomal membrane proteins (PMPs) in the cytoplasm and delivers them to the peroxisome for subsequent insertion into the peroxisomal membrane; interacts with Myo2p and contributes to peroxisome partitioning	protein stabilization|protein import into peroxisome membrane|peroxisome inheritance|ER-dependent peroxisome organization|protein exit from endoplasmic reticulum	peroxisome membrane targeting sequence binding|protein binding	cytosol|peroxisomal membrane|endoplasmic reticulum
YGL084C	GUP1	hom	FF|FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|ENDOPLASMIC RETICULUM|PLASMA MEMBRANE	0.00955722864854636	0.580622959290455	1847	Plasma membrane protein involved in remodeling GPI anchors; member of the MBOAT family of putative membrane-bound O-acyltransferases; proposed to be involved in glycerol transport	GPI anchor biosynthetic process|glycerol transport|glycerol catabolic process	O-acyltransferase activity	integral to membrane|endoplasmic reticulum|plasma membrane|membrane
YPR083W	MDM36	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00955027039060733	0.580955116226095	1848	Mitochondrial protein required for normal mitochondrial morphology and inheritance; proposed involvement in the formation of Dnm1p and Num1p-containing cortical anchor complexes that promote mitochondrial fission	mitochondrial fission|mitochondrion organization	molecular_function	mitochondrion|cytoplasm
YJL105W	SET4	hom	FT	CHROMATIN ORGANIZATION	0.00952358163719523	0.582012481877103	1849	Protein of unknown function, contains a SET domain; SET4 has a paralog, SET3, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YDR476C_p	YDR476C	hom	FT	ENDOPLASMIC RETICULUM	0.00951378186342743	0.582513892320536	1850	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene	biological_process	molecular_function	endoplasmic reticulum
YJR041C	URB2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00951035853530173	0.582762547339168	1851	Nucleolar protein required for normal metabolism of the rRNA primary transcript, proposed to be involved in ribosome biogenesis	rRNA metabolic process|ribosome biogenesis	molecular_function	nucleolus
YER093C-A	AIM11	hom			0.00950238123402514	0.582796644743552	1852	Protein of unknown function; null mutant is viable but shows increased loss of mitochondrial genome and synthetic interaction with prohibitin (phb1); contains an intron; YER093C-A has a paralog, YBL059W, that arose from the whole genome duplication	biological_process	molecular_function	cellular_component
YHR086W	NAM8	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS|MITOCHONDRION	0.00949988836738396	0.582895530893856	1853	RNA binding protein, component of the U1 snRNP protein; mutants are defective in meiotic recombination and in formation of viable spores, involved in the formation of DSBs through meiosis-specific splicing of REC107 pre-mRNA; Nam8p regulon embraces the meiotic pre-mRNAs of REC107, HFM1, AMA1 SPO22 and PCH2; the putative RNA binding domains RRM2 and RRM3 are required for Nam8p meiotic function	mRNA splicing, via spliceosome|positive regulation of mRNA splicing, via spliceosome|mRNA splice site selection	mRNA binding|RNA binding	commitment complex|U1 snRNP|U2-type prespliceosome
YHR046C	INM1	hom	FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|NUCLEUS	0.00949768267894014	0.5829830318841	1854	Inositol monophosphatase, involved in biosynthesis of inositol and in phosphoinositide second messenger signaling; INM1 expression increases in the presence of inositol and decreases upon exposure to antibipolar drugs lithium and valproate	inositol phosphate dephosphorylation	inositol monophosphate 1-phosphatase activity	nucleus|cytoplasm
YOR004W	UTP23	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.00948113488354604	0.583639688124053	1855	Component of the small subunit processome, involved in 40S ribosomal subunit biogenesis; interacts with snR30 and is required for dissociation of snR30 from large pre-ribosomal particles; has homology to PINc domain protein Fcf1p, although the PINc domain of Utp23p is not required for function; essential protein	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	small-subunit processome|mitochondrion|nucleolus
YEL019C	MMS21	het	FT	RESPONSE TO DNA DAMAGE|ENDOMEMBRANE SYSTEM|NUCLEUS|CHROMOSOME	0.00947675485870785	0.583813555654017	1856	SUMO ligase and component of the SMC5-SMC6 complex; this complex plays a key role in the removal of X-shaped DNA structures that arise between sister chromatids during DNA replication and repair; mutants are sensitive to methyl methanesulfonate and show increased spontaneous mutation and mitotic recombination	DNA repair	SUMO ligase activity	nuclear envelope|Smc5-Smc6 complex|nucleus|cytoplasm
YIL018W	RPL2B	hom	FT	TRANSLATION|RIBOSOME	0.00947667317444454	0.583816798385448	1857	Ribosomal 60S subunit protein L2B; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2B has a paralog, RPL2A, that arose from the whole genome duplication; expression is upregulated at low temperatures	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YLR335W	NUP2	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|RNA LOCALIZATION|GENE SILENCING|ENDOMEMBRANE SYSTEM|NUCLEUS|MITOCHONDRION|CHROMOSOME|NUCLEAR PORE	0.00945926417833944	0.584564322144138	1858	Nucleoporin involved in nucleocytoplasmic transport, binds to either the nucleoplasmic or cytoplasmic faces of the nuclear pore complex depending on Ran-GTP levels; also has a role in chromatin organization	rRNA export from nucleus|snRNA export from nucleus|nuclear pore organization|tRNA export from nucleus|posttranscriptional tethering of RNA polymerase II gene DNA at nuclear periphery|mRNA-binding (hnRNP) protein import into nucleus|ribosomal protein import into nucleus|snRNP protein import into nucleus|chromatin silencing at telomere|chromatin silencing at silent mating-type cassette|protein targeting to membrane|poly(A)+ mRNA export from nucleus|protein export from nucleus|mRNA export from nucleus in response to heat stress|transcription-dependent tethering of RNA polymerase II gene DNA at nuclear periphery|NLS-bearing substrate import into nucleus|mRNA export from nucleus|nuclear-transcribed mRNA catabolic process, non-stop decay	nucleocytoplasmic transporter activity	nuclear chromatin|mitochondrion|integral to membrane|nuclear pore
YGL217C_d	YGL217C	hom			0.00944556458418485	0.585052367642383	1859	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF KIP3/YGL216W	Unknown	Unknown	Unknown
YHR077C	NMD2	hom			0.00943486147687261	0.585477753742248	1860	Protein involved in the nonsense-mediated mRNA decay (NMD) pathway; interacts with Nam7p and Upf3p; involved in telomere maintenance	nuclear-transcribed mRNA catabolic process, 3'-5' exonucleolytic nonsense-mediated decay|translational frameshifting	molecular_function	polysome|cytoplasm
YDR132C	YDR132C	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|NUCLEUS|PLASMA MEMBRANE	0.00942957030074156	0.585688100154353	1861	Protein of unknown function; protein increases in abundance and relative distribution to the nucleus increases upon DNA replication stress; YDR132C has a paralog, YLR108C, that arose from the whole genome duplication	biological_process	molecular_function	nucleus|cytoplasm
YDL100C	GET3	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|SIGNALING|NUCLEOTIDE METABOLISM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.00942725895423661	0.585836087129206	1862	Guanine nucleotide exchange factor for Gpa1p; amplifies G protein signaling; subunit of the GET complex, which is involved in Golgi to ER trafficking and insertion of proteins into the ER membrane; has low-level ATPase activity; protein abundance increases in response to DNA replication stress	retrograde vesicle-mediated transport, Golgi to ER|pheromone-dependent signal transduction involved in conjugation with cellular fusion|response to heat|protein insertion into ER membrane|response to metal ion|posttranslational protein targeting to membrane	ATPase activity|guanyl-nucleotide exchange factor activity	endoplasmic reticulum|GET complex
YJL128C	PBS2	hom	FF|FT	PROTEIN LOCALIZATION|SIGNALING|CYTOSKELETON ORGANIZATION|PROTEIN PHOSPHORYLATION|SITE OF POLARIZED GROWTH	0.00942342200501704	0.58593256469713	1863	MAP kinase kinase of the HOG signaling pathway; activated under severe osmotic stress; mitophagy-specific regulator; plays a role in regulating Ty1 transposition	activation of MAPK activity involved in osmosensory signaling pathway|actin filament organization|MAPK import into nucleus involved in osmosensory signaling pathway|protein phosphorylation|hyperosmotic response|osmosensory signaling pathway|cellular response to heat	MAP-kinase scaffold activity|MAP kinase kinase activity|protein kinase activity	cellular bud neck|cytoplasm|cellular bud tip
YOL069W	NUF2	het	FT	CELL CYCLE|CELL DIVISION|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.00941859734619347	0.586460920126169	1864	Component of the evolutionarily conserved kinetochore-associated Ndc80 complex (Ndc80p-Nuf2p-Spc24p-Spc25p); involved in chromosome segregation, spindle checkpoint activity and kinetochore clustering	microtubule nucleation|chromosome segregation	structural constituent of cytoskeleton	spindle microtubule|Ndc80 complex|condensed nuclear chromosome kinetochore|condensed nuclear chromosome, centromeric region|spindle pole body
YDR087C	RRP1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00940355276945338	0.58672291576048	1865	Essential evolutionarily conserved nucleolar protein necessary for biogenesis of 60S ribosomal subunits and processing of pre-rRNAs to mature rRNAs, associated with several distinct 66S pre-ribosomal particles	rRNA processing	molecular_function	nucleolus|nucleus|preribosome, large subunit precursor
YDL211C_p	YDL211C	hom			0.00937440024069827	0.588051064848579	1866	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole	biological_process	molecular_function	fungal-type vacuole
YKL182W	FAS1	het	FF|FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|MITOCHONDRION	0.00937074594488571	0.588196564613704	1867	Beta subunit of fatty acid synthetase, which catalyzes the synthesis of long-chain saturated fatty acids; contains acetyltransacylase, dehydratase, enoyl reductase, malonyl transacylase, and palmitoyl transacylase activities	fatty acid biosynthetic process	palmitoyltransferase activity|enoyl-[acyl-carrier-protein] reductase (NADPH, B-specific) activity|fatty acid synthase activity|3-hydroxyacyl-[acyl-carrier-protein] dehydratase activity|[acyl-carrier-protein] S-acetyltransferase activity|[acyl-carrier-protein] S-malonyltransferase activity	cytosol|fatty acid synthase complex|mitochondrion|lipid particle|cytoplasm
YMR311C	GLC8	hom	FT	SIGNALING|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|CHROMOSOME SEGREGATION|NUCLEUS	0.00933586039814798	0.589419257329875	1868	Regulatory subunit of protein phosphatase 1 (Glc7p); involved in glycogen metabolism and chromosome segregation; proposed to regulate Glc7p activity via conformational alteration; ortholog of the mammalian protein phosphatase inhibitor 2; protein abundance increases in response to DNA replication stress	chromosome segregation|glycogen biosynthetic process	enzyme activator activity	nucleus|cytoplasm
YOR006C	TSR3	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00932418646579829	0.589884833546479	1869	Protein required for 20S pre-rRNA processing; involved in processing of the 20S pre-rRNA at site D to generate mature 18S rRNA; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus; relative distribution to the nucleus increases upon DNA replication stress	maturation of SSU-rRNA	molecular_function	nucleus|cytoplasm
YIL036W	CST6	hom	FT	TRANSCRIPTION FROM RNA POL II|RESPONSE TO NUTRIENT LEVELS|NUCLEUS	0.00929803531156691	0.590928400146435	1870	Basic leucine zipper (bZIP) transcription factor, in ATF/CREB family; mediates transcriptional activation of NCE103 (encoding carbonic anhydrase) in response to low CO2 levels such as in the ambient air; proposed to be a regulator of oleate responsive genes; involved in utilization of non-optimal carbon sources and chromosome stability; CST6 has a paralog, ACA1, that arose from the whole genome duplication	cellular response to carbon dioxide|positive regulation of transcription from RNA polymerase II promoter by oleic acid|cellular response to oleic acid|positive regulation of transcription from RNA polymerase II promoter|DNA metabolic process	sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus
YLR452C	SST2	hom	FT	SIGNALING|PLASMA MEMBRANE	0.00928576207150008	0.59141845850243	1871	GTPase-activating protein for Gpa1p, regulates desensitization to alpha factor pheromone; also required to prevent receptor-independent signaling of the mating pathway; member of the RGS (regulator of G-protein signaling) family	adaptation of signaling pathway by response to pheromone involved in conjugation with cellular fusion|signal transduction	GTPase activator activity	plasma membrane
YBR045C	GIP1	hom	FT	CELL WALL ORG/BIOGENESIS	0.00926914518045212	0.592082251851915	1872	Meiosis-specific regulatory subunit of the Glc7p protein phosphatase, regulates spore wall formation and septin organization, required for expression of some late meiotic genes and for normal localization of Glc7p	ascospore wall assembly|regulation of phosphoprotein phosphatase activity	protein phosphatase type 1 regulator activity|protein phosphatase 1 binding	protein phosphatase type 1 complex|prospore membrane
YKR031C	SPO14	hom	FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|LIPID METABOLISM|NUCLEUS	0.00926034050326538	0.59243410992648	1873	Phospholipase D; catalyzes the hydrolysis of phosphatidylcholine, producing choline and phosphatidic acid; involved in Sec14p-independent secretion; required for meiosis and spore formation; differently regulated in secretion and meiosis; participates in transcription initiation and/or early elongation of specific genes; interacts with foot domain of RNA polymerase II; deletion results in abnormal CTD-Ser5 phosphorylation of RNA polymerase II at specific promoter regions	phospholipid metabolic process|exocytosis|cell morphogenesis involved in conjugation with cellular fusion|ascospore-type prospore assembly	phospholipase D activity|phosphatidylinositol-3-phosphate binding	endosome|nucleus|prospore membrane
YJL130C	URA2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEOTIDE METABOLISM|MITOCHONDRION	0.00925648907475197	0.592588053281948	1874	Bifunctional carbamoylphosphate synthetase (CPSase)-aspartate transcarbamylase (ATCase), catalyzes the first two enzymatic steps in the de novo biosynthesis of pyrimidines; both activities are subject to feedback inhibition by UTP	glutamine metabolic process|'de novo' pyrimidine nucleobase biosynthetic process|negative regulation of pyrimidine nucleobase metabolic process	aspartate carbamoyltransferase activity|carbamoyl-phosphate synthase (glutamine-hydrolyzing) activity	mitochondrion|integral to membrane|cytoplasm
YLR128W	DCN1	hom			0.00925322628492053	0.592718482825222	1875	Scaffold-type E3 ligase required for cullin neddylation and ubiquitin ligase activation; contains a ubiquitin-binding domain (UBA) for ubiquitin and Nedd8 (Rub1p) interaction and a PONY domain involved in cullin binding and neddylation	protein neddylation|positive regulation of ubiquitin-protein ligase activity	ubiquitin binding|NEDD8 ligase activity|small conjugating protein binding	cellular_component
YPR174C	YPR174C	hom	FT	ENDOMEMBRANE SYSTEM|NUCLEUS|CYTOSKELETON	0.00924727319952127	0.592956490430396	1876	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nuclear periphery; potential Cdc28p substrate; binds phosphatidylinositols and phosphatidylethanolamine in a large-scale study; relative distribution to foci at the nuclear periphery increases upon DNA replication stress; YPR174C has a paralog, NBP1, that arose from the whole genome duplication	biological_process	molecular_function	nuclear envelope|spindle pole body
YDR467C_d	YDR467C	hom			0.00924667964035687	0.592980223649855	1877	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YOL083W	ATG34	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS	0.00922986600754772	0.593818486447316	1878	Receptor protein involved in selective autophagy during starvation; specifically involved in the transport of cargo protein alpha-mannosidase (Ams1p); Atg19p paralog	protein complex assembly|protein complex localization	protein binding, bridging	CVT complex
YBR218C	PYC2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM	0.00922817372047241	0.593720393413731	1879	Pyruvate carboxylase isoform; cytoplasmic enzyme that converts pyruvate to oxaloacetate; differentially regulated than isoform Pyc1p; mutations in the human homolog are associated with lactic acidosis; PYC2 has a paralog, PYC1, that arose from the whole genome duplication	NADPH regeneration|gluconeogenesis	pyruvate carboxylase activity	cytosol
YKL096W	CWP1	hom	FT	MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS	0.00921844811139032	0.594109551890797	1880	Cell wall mannoprotein that localizes specifically to birth scars of daughter cells, linked to a beta-1,3- and beta-1,6-glucan heteropolymer through a phosphodiester bond; required for propionic acid resistance	fungal-type cell wall organization|ascospore-type prospore membrane assembly	structural constituent of cell wall	fungal-type cell wall|cellular birth scar|prospore membrane
YIL029C_p	YIL029C	hom			0.00919474227999047	0.595058600178127	1881	Putative protein of unknown function; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO); YIL029C has paralog YPR071W	biological_process	molecular_function	integral to membrane
YPR172W_p	YPR172W	hom	FT	OXIDATION-REDUCTION PROCESS|COFACTOR METABOLISM|NUCLEUS	0.00917882167732375	0.595696359727478	1882	Putative pyridoxal 5'-phosphate synthase; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance; YPR172W has a paralog, YLR456W, that arose from the whole genome duplication	biological_process	molecular_function	nucleus|cytoplasm
YDR354W	TRP4	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.00914238640212308	0.597816314661425	1883	Anthranilate phosphoribosyl transferase of the tryptophan biosynthetic pathway, catalyzes the phosphoribosylation of anthranilate, subject to the general control system of amino acid biosynthesis	tryptophan biosynthetic process	anthranilate phosphoribosyltransferase activity	nucleus|cytoplasm
YIL126W	STH1	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|NUCLEUS|RSC COMPLEX	0.00914003878943558	0.597306124345098	1884	ATPase component of the RSC chromatin remodeling complex; required for expression of early meiotic genes; essential helicase-related protein homologous to Snf2p	double-strand break repair|ATP-dependent chromatin remodeling|nucleosome positioning|chromosome segregation|chromatin remodeling at centromere|nucleosome disassembly|regulation of transcription, DNA-dependent|G2/M transition of mitotic cell cycle|meiosis|cytoskeleton organization|transcription elongation from RNA polymerase II promoter	histone acetyl-lysine binding|DNA translocase activity|helicase activity|DNA-dependent ATPase activity	RSC complex|nucleus
YKL211C	TRP3	hom	FF|FT	KETONE METABOLISM|AMINO ACID METABOLISM	0.00912230707768149	0.598840694855147	1885	Indole-3-glycerol-phosphate synthase; forms bifunctional hetero-oligomeric anthranilate synthase:indole-3-glycerol phosphate synthase enzyme complex with Trp2p	tryptophan biosynthetic process	indole-3-glycerol-phosphate synthase activity|anthranilate synthase activity	anthranilate synthase complex|cytoplasm
YOL029C_p	YOL029C	hom			0.00911886715235637	0.59810085448857	1886	Putative protein of unknown function; identified as interacting with Hsc82p and Hsp82p in high-throughput two-hybrid screens	biological_process	molecular_function	cellular_component
YDR527W	RBA50	het	FF|FT	TRANSCRIPTION FROM RNA POL II	0.00911353759696208	0.598314810973301	1887	Protein involved in transcription; interacts with RNA polymerase II subunits Rpb2p, Rpb3, and Rpb11p; has similarity to human RPAP1	transcription from RNA polymerase II promoter	molecular_function	cytoplasm
YOR123C	LEO1	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|RNA POL II, HOLOENZYME	0.00910695104427645	0.598743482805036	1888	Component of the Paf1 complex; which associates with RNA polymerase II and is involved in histone methylation; plays a role in regulating Ty1 transposition; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay	chromatin organization|Unknown|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription-coupled nucleotide-excision repair|histone H3-K4 trimethylation|transcription elongation from RNA polymerase II promoter	RNA binding|RNA polymerase II transcription factor binding transcription factor activity	nucleus|Cdc73/Paf1 complex
YNL173C	MDG1	hom	FT	SIGNALING|PLASMA MEMBRANE	0.00907595896740395	0.599824400025175	1889	Plasma membrane protein involved in G-protein mediated pheromone signaling pathway; overproduction suppresses bem1 mutations	pheromone-dependent signal transduction involved in conjugation with cellular fusion	molecular_function	membrane raft|plasma membrane
YOR375C	GDH1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|NUCLEUS	0.00896807336184433	0.604167867766297	1890	NADP(+)-dependent glutamate dehydrogenase; synthesizes glutamate from ammonia and alpha-ketoglutarate; rate of alpha-ketoglutarate utilization differs from Gdh3p; expression regulated by nitrogen and carbon sources; GDH1 has a paralog, GDH3, that arose from the whole genome duplication	glutamate biosynthetic process|ammonia assimilation cycle	glutamate dehydrogenase (NADP+) activity	nucleus|cytoplasm
YOR260W	GCD1	het	FT	TRANSLATION	0.00895115034629436	0.604904507819289	1891	Gamma subunit of the translation initiation factor eIF2B, the guanine-nucleotide exchange factor for eIF2; activity subsequently regulated by phosphorylated eIF2; first identified as a negative regulator of GCN4 expression	regulation of translational initiation	translation initiation factor activity|guanyl-nucleotide exchange factor activity	eukaryotic translation initiation factor 2B complex|guanyl-nucleotide exchange factor complex
YBR061C	TRM7	hom	FT	RNA PROCESSING|TRANSLATION	0.00891991137129435	0.606165316439798	1892	2'-O-ribose methyltransferase; methylates the 2'-O-ribose of tRNA-Phe, tRNA-Trp, and tRNA-Leu at positions C32 and N34 of the tRNA anticodon loop; crucial biological role likely modification of tRNA-Phe; interacts with Trm732p and Rtt10p in 2'-O-methylation of C32 and N34 substrate tRNAs, respectively	cytoplasmic translation|tRNA methylation	tRNA methyltransferase activity	cytoplasm
YGR107W_d	YGR107W	hom			0.0089166199954217	0.60624433645827	1893	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YOR232W	MGE1	het	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00890369759823186	0.606927862222281	1894	Mitochondrial matrix cochaperone, acts as a nucleotide release factor for Ssc1p in protein translocation and folding; also acts as cochaperone for Ssq1p in folding of Fe-S cluster proteins; homolog of E. coli GrpE	protein refolding|protein import into mitochondrial matrix	adenyl-nucleotide exchange factor activity	mitochondrion|presequence translocase-associated import motor|mitochondrial matrix
YPL017C	IRC15	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|OXIDATION-REDUCTION PROCESS|CYTOSKELETON ORGANIZATION|CHROMOSOME SEGREGATION|CYTOSKELETON	0.00888151273066746	0.607662965140329	1895	Microtubule associated protein; regulates microtubule dynamics; required for accurate meiotic chromosome segregation; null mutant displays large budded cells due to delayed mitotic progression, increased levels of spontaneous Rad52 foci	microtubule nucleation|mitotic recombination|microtubule anchoring|meiotic sister chromatid segregation|attachment of spindle microtubules to kinetochore involved in mitotic sister chromatid segregation|positive regulation of mitotic cell cycle	microtubule binding|S-adenosylmethionine-dependent methyltransferase activity	microtubule|cytoplasm
YCR036W	RBK1	hom	FT	CARBOHYDRATE METABOLISM|NUCLEUS	0.0088723607895516	0.608033023600216	1896	Putative ribokinase	D-ribose metabolic process	ribokinase activity|ATP binding	nucleus|cytoplasm
YNL220W	ADE12	hom	FT	NUCLEOTIDE METABOLISM	0.00885325953192811	0.608805705677072	1897	Adenylosuccinate synthase, catalyzes the first step in synthesis of adenosine monophosphate from inosine 5'monophosphate during purine nucleotide biosynthesis; exhibits binding to single-stranded autonomously replicating (ARS) core sequence	purine nucleotide biosynthetic process	DNA replication origin binding|adenylosuccinate synthase activity	cytoplasm
YDL104C	QRI7	hom	FT	RNA PROCESSING|PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00884808673349811	0.609015030332339	1898	Highly conserved mitochondrial protein, essential for t6A modification of mitochondrial tRNAs that decode ANN codons; similar to Kae1p and E. coli YgjD, both of which are also required for tRNA t6A modification	mitochondrial tRNA threonylcarbamoyladenosine modification	molecular_function	mitochondrion
YOR046C	DBP5	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|SITE OF POLARIZED GROWTH|NUCLEAR PORE	0.00882031655341419	0.610139336977225	1899	Cytoplasmic ATP-dependent RNA helicase of the DEAD-box family; involved in mRNA export from the nucleus; involved in translation termination; ATP/ADP cycling is regulated by Gle1p and Nup159p	translational termination|mRNA export from nucleus	RNA helicase activity|inositol hexakisphosphate binding|RNA-dependent ATPase activity	nuclear pore cytoplasmic filaments|nucleus|polysome|nuclear pore|cellular bud tip|cytoplasm
YPR079W	MRL1	hom	FT	PROTEIN LOCALIZATION|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.0088069006015698	0.610682826528572	1900	Membrane protein; has similarity to mammalian mannose-6-phosphate receptors; possibly functions as a sorting receptor in the delivery of vacuolar hydrolases; protein abundance increases in response to DNA replication stress	vacuolar transport	signal sequence binding	late endosome|cytoplasm
YBR030W	RKM3	hom	FT	NUCLEUS	0.00880686782801535	0.610684154470867	1901	Ribosomal lysine methyltransferase specific for monomethylation of Rpl42ap and Rpl42bp (lysine 40); nuclear SET domain containing protein	peptidyl-lysine monomethylation	protein-lysine N-methyltransferase activity	nucleus
YJL172W	CPS1	hom	FT	PROTEOLYSIS	0.00877130486464744	0.612338888013651	1902	Vacuolar carboxypeptidase yscS; expression is induced under low-nitrogen conditions	nitrogen compound metabolic process|proteolysis involved in cellular protein catabolic process	carboxypeptidase activity	fungal-type vacuole lumen
YGR231C	PHB2	hom	FT	PROTEOLYSIS|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00876779424206452	0.61232149831857	1903	Subunit of the prohibitin complex (Phb1p-Phb2p), a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation	mitochondrion inheritance|protein folding|negative regulation of proteolysis|replicative cell aging	molecular_function	mitochondrion|mitochondrial inner membrane
YPR093C	ASR1	hom	FT	NUCLEUS	0.00875405985436649	0.612825526225715	1904	Ubiquitin ligase that modifies and regulates RNA Pol II; involved in a putative alcohol-responsive signaling pathway; accumulates in the nucleus under alcohol stress; contains a Ring/PHD finger domain similar to the mammalian rA9 protein	response to ethanol|protein ubiquitination	ubiquitin-protein ligase activity	nucleus|cytoplasm
YLR035C	MLH2	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS	0.00872352781849126	0.614065115823486	1905	Protein involved in the mismatch repair of certain frameshift intermediates and involved in meiotic recombination; forms a complex with Mlh1p	mismatch repair|reciprocal meiotic recombination	molecular_function	nucleus
YPL241C	CIN2	hom	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|CYTOSKELETON	0.00871788978015449	0.61429413890323	1906	GTPase-activating protein (GAP) for Cin4p; tubulin folding factor C involved in beta-tubulin (Tub2p) folding; mutants display increased chromosome loss and benomyl sensitivity; deletion complemented by human GAP, retinitis pigmentosa 2	protein folding|tubulin complex assembly|tubulin complex biogenesis	GTPase activator activity	cellular_component
YJL137C	GLG2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.00871567839782437	0.614702048739008	1907	Glycogenin glucosyltransferase; self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; similar to mammalian glycogenin; GLG2 has a paralog, GLG1, that arose from the whole genome duplication	glycogen biosynthetic process	glycogenin glucosyltransferase activity	cytoplasm
YPL152W-A_p	YPL152W-A	hom			0.00860810755817977	0.618761081352124	1908	Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YLR145W	RMP1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00859768916779528	0.619185732369184	1909	Subunit of RNase MRP, which processes pre-rRNA and has a role in cell cycle-regulated degradation of daughter cell-specific mRNAs; unlike most subunits, not shared between RNase MRP and nuclear RNase P	maturation of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|mRNA cleavage	ribonuclease MRP activity	nucleolus|nucleus|ribonuclease MRP complex|cytoplasm
YPR147C_p	YPR147C	hom			0.00859634487818472	0.619240534539964	1910	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS	biological_process	molecular_function	cytoplasm
YHL009C	YAP3	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.00858845981356545	0.61956202471791	1911	Basic leucine zipper (bZIP) transcription factor	regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YBL058W	SHP1	hom	FT	PROTEIN LOCALIZATION|CELL CYCLE|MEMBRANE ORGANIZATION|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|PROTEOLYSIS|CYTOSKELETON ORGANIZATION|RESPONSE TO NUTRIENT LEVELS|GEN. OF PRECURSOR METABOLITES AND ENERGY|CHROMOSOME SEGREGATION|NUCLEUS	0.00856045806064985	0.620965782776449	1912	UBX (ubiquitin regulatory X) domain-containing protein that regulates Glc7p phosphatase activity and interacts with Cdc48p; interacts with ubiquitylated proteins in vivo and is required for degradation of a ubiquitylated model substrate	glycogen metabolic process|proteasomal ubiquitin-dependent protein catabolic process|piecemeal microautophagy of nucleus|ER-associated protein catabolic process|ascospore formation|sister chromatid biorientation|autophagic vacuole assembly	protein phosphatase type 1 regulator activity	nucleus|cytoplasm
YHR143W-A	RPC10	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.00853678872213095	0.621670558172972	1913	RNA polymerase subunit ABC10-alpha, found in RNA pol I, II, and III; relocalizes from nucleolus to cytoplasm upon DNA replication stress	transcription from RNA polymerase I promoter|transcription from RNA polymerase III promoter|transcription from RNA polymerase II promoter	RNA-directed RNA polymerase activity|DNA-directed RNA polymerase activity	DNA-directed RNA polymerase III complex|DNA-directed RNA polymerase I complex|DNA-directed RNA polymerase II, core complex
YPR114W_p	YPR114W	hom	FT	ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00849046334015395	0.623563593755015	1914	Putative protein of unknown function	biological_process	molecular_function	integral to membrane|endoplasmic reticulum
YPL256C	CLN2	hom	FT	CELL CYCLE|SIGNALING|CELL DIVISION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.00848407917458461	0.623824670982029	1915	G1 cyclin involved in regulation of the cell cycle; activates Cdc28p kinase to promote the G1 to S phase transition; late G1 specific expression depends on transcription factor complexes, MBF (Swi6p-Mbp1p) and SBF (Swi6p-Swi4p)	regulation of cyclin-dependent protein kinase activity|re-entry into mitotic cell cycle after pheromone arrest	cyclin-dependent protein kinase regulator activity	cyclin-dependent protein kinase holoenzyme complex|nucleus|cytoplasm
YDR304C	CPR5	hom	FT	ENDOPLASMIC RETICULUM	0.00848028651123356	0.623979792403529	1916	Peptidyl-prolyl cis-trans isomerase (cyclophilin) of the endoplasmic reticulum, catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; transcriptionally induced in response to unfolded proteins in the ER	biological_process	peptidyl-prolyl cis-trans isomerase activity	endoplasmic reticulum|cytoplasm
YDL014W	NOP1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00844853954051544	0.625278909054034	1917	Nucleolar protein, component of the small subunit processome complex, which is required for processing of pre-18S rRNA; has similarity to mammalian fibrillarin	box C/D snoRNA 3'-end processing|rRNA processing|snoRNA processing|rRNA methylation	rRNA methyltransferase activity	small-subunit processome|box C/D snoRNP complex|ribosome|nucleolus|90S preribosome
YNR062C_p	YNR062C	hom			0.00844011022550404	0.62562404051672	1918	Putative membrane protein of unknown function	biological_process	molecular_function	integral to membrane
YDR373W	FRQ1	het	FT	SIGNALING|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS|PLASMA MEMBRANE	0.00843818620462591	0.625702829490658	1919	N-myristoylated calcium-binding protein that may have a role in intracellular signaling through its regulation of the phosphatidylinositol 4-kinase Pik1p; member of the recoverin/frequenin branch of the EF-hand superfamily	regulation of signal transduction	enzyme activator activity|calcium ion binding	Golgi membrane
YPR133W-A	TOM5	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00840492255468222	0.627220346421807	1920	Component of the TOM (translocase of outer membrane) complex responsible for recognition and initial import of all mitochondrially directed proteins; involved in transfer of precursors from the Tom70p and Tom20p receptors to the Tom40p pore	mitochondrial outer membrane translocase complex assembly|protein targeting to mitochondrion	protein channel activity	mitochondrial outer membrane|mitochondrion|integral to membrane|integral to mitochondrial outer membrane|mitochondrial outer membrane translocase complex
YLR329W	REC102	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME	0.00839267917478512	0.627928268953349	1921	Protein involved in early stages of meiotic recombination; required for chromosome synapsis; forms a complex with Rec104p and Spo11p necessary during the initiation of recombination	meiotic DNA double-strand break formation|reciprocal meiotic recombination	molecular_function	condensed nuclear chromosome|nucleus
YER032W	FIR1	hom	FT	RNA PROCESSING|SITE OF POLARIZED GROWTH	0.00835499198539952	0.629113723303285	1922	Protein involved in 3' mRNA processing, interacts with Ref2p; potential Cdc28p substrate	mRNA polyadenylation|RNA polyadenylation	molecular_function	cellular bud neck
YER009W	NTF2	het	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.00834465695278968	0.629538005925409	1923	Nuclear envelope protein, interacts with GDP-bound Gsp1p and with proteins of the nuclear pore to transport Gsp1p into the nucleus where it is an essential player in nucleocytoplasmic transport	nucleocytoplasmic transport|protein import into nucleus	Ran GTPase binding	nuclear envelope|integral to membrane
YFL005W	SEC4	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|SIGNALING|CELL DIVISION|ENDOMEMBRANE SYSTEM|MITOCHONDRION|PLASMA MEMBRANE|CYTOSKELETON	0.00834383188808438	0.629571882459677	1924	Rab family GTPase essential for vesicle-mediated exocytic secretion and autophagy; associates with the exocyst component Sec15p and may regulate polarized delivery of transport vesicles to the exocyst at the plasma membrane	bipolar cellular bud site selection|autophagy|exocytosis|Golgi to plasma membrane transport|small GTPase mediated signal transduction|ascospore-type prospore assembly|membrane addition at site of cytokinesis|vesicle fusion|cytokinesis	GTP binding|GTPase activity	mitochondrial outer membrane|vesicle|incipient cellular bud site|mitochondrion|transport vesicle|actin cap|plasma membrane
YBR025C	OLA1	hom			0.00831454822290136	0.630774751698719	1925	P-loop ATPase with similarity to human OLA1 and bacterial YchF; identified as specifically interacting with the proteasome; protein abundance increases in response to hydrogen peroxide and to DNA replication stress	biological_process	ATPase activity	cytoplasm
YIR024C	YIR024C	hom	FT	MITOCHONDRION	0.00831223061060693	0.630869992829901	1926	Protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; interacts with Arh1p, a mitochondrial oxidoreductase; deletion mutant has a respiratory growth defect	biological_process	molecular_function	mitochondrion
YDR249C_p	YDR249C	hom			0.00828361222884671	0.632046555758967	1927	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YCR050C_p	YCR050C	hom			0.00827611373784663	0.632405935233068	1928	Non-essential protein of unknown function; deletion mutant is synthetically sick or lethal with alpha-synuclein	biological_process	molecular_function	cellular_component
YBR006W	UGA2	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS	0.00825544169338625	0.633256465069379	1929	Succinate semialdehyde dehydrogenase involved in the utilization of gamma-aminobutyrate (GABA) as a nitrogen source; part of the 4-aminobutyrate and glutamate degradation pathways; localized to the cytoplasm	cellular response to oxidative stress|gamma-aminobutyric acid catabolic process|glutamate decarboxylation to succinate	succinate-semialdehyde dehydrogenase [NAD(P)+] activity	cytoplasm
YOR099W	KTR1	hom	FT	CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.0082522212326861	0.633338178553817	1930	Alpha-1,2-mannosyltransferase; involved in O- and N-linked protein glycosylation; type II membrane protein; member of the KRE2/MNT1 mannosyltransferase family; relocalizes from vacuole to cytoplasm upon DNA replication stress	N-glycan processing|cell wall mannoprotein biosynthetic process|protein O-linked glycosylation	alpha-1,2-mannosyltransferase activity	Golgi apparatus
YDR061W_p	YDR061W	hom	FT	NUCLEOTIDE METABOLISM|MITOCHONDRION	0.00824519471368167	0.633627446951684	1931	Protein with similarity to ATP-binding cassette (ABC) transporter family members; lacks predicted membrane-spanning regions; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance	biological_process	molecular_function	mitochondrion
YNL168C_p	FMP41	hom	FT	MITOCHONDRION	0.00824202920479031	0.633757783214531	1932	Putative protein of unknown function; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YLR415C_p	YLR415C	hom	FT	MITOCHONDRION	0.00821702631367834	0.634787648003096	1933	Putative protein of unknown function; YLR415C is not an essential gene	biological_process	molecular_function	cellular_component
YGL166W	CUP2	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0082148781858274	0.635028153940289	1934	Copper-binding transcription factor; activates transcription of the metallothionein genes CUP1-1 and CUP1-2 in response to elevated copper concentrations; CUP2 has a paralog, HAA1, that arose from the whole genome duplication	regulation of transcription from RNA polymerase II promoter|response to copper ion	RNA polymerase II core promoter proximal region sequence-specific DNA binding|copper ion regulated core promoter proximal region sequence-specific DNA binding RNA polymerase II transcription factor activity|copper ion binding	nucleus
YJL192C	SOP4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0081912437600413	0.635850367335849	1935	ER-membrane protein; suppressor of pma1-7, deletion of SOP4 slows down the export of wild-type Pma1p and Pma1-7 from the ER	ER to Golgi vesicle-mediated transport	molecular_function	integral to membrane|endoplasmic reticulum
YHR094C	HXT1	hom	FT	PLASMA MEMBRANE	0.00818292215001513	0.636193532163749	1936	Low-affinity glucose transporter of the major facilitator superfamily, expression is induced by Hxk2p in the presence of glucose and repressed by Rgt1p when glucose is limiting; HXT1 has a paralog, HXT6, what arose from the whole genome duplication	mannose transport|glucose transport	galactose transmembrane transporter activity|pentose transmembrane transporter activity|mannose transmembrane transporter activity|glucose transmembrane transporter activity|fructose transmembrane transporter activity	integral to membrane|plasma membrane
YER148W	SPT15	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.00817823979139753	0.636437135997192	1937	TATA-binding protein, general transcription factor that interacts with other factors to form the preinitiation complex at promoters, essential for viability	transposon integration|transcription of nuclear large rRNA transcript from RNA polymerase I promoter|RNA polymerase II transcriptional preinitiation complex assembly|RNA polymerase III transcriptional preinitiation complex assembly	RNA polymerase III regulatory region DNA binding|RNA polymerase I transcription factor recruiting transcription factor activity|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly|RNA polymerase II activating transcription factor binding|DNA binding, bending|sequence-specific DNA binding|RNA polymerase II core promoter sequence-specific DNA binding|TFIIIB-type transcription factor activity|chromatin binding|RNA polymerase I transcription factor binding	transcription factor TFIIIB complex|RNA polymerase I upstream activating factor complex|nucleus|RNA polymerase I core factor complex|transcription factor TFIID complex
YOL139C	CDC33	het	FT	CELL CYCLE|TRANSLATION|NUCLEUS|RIBOSOME	0.00817564770154183	0.636493578308935	1938	mRNA cap binding protein and translation initiation factor eIF4E; the eIF4E-cap complex is responsible for mediating cap-dependent mRNA translation via interactions with translation initiation factor eIF4G (Tif4631p or Tif4632p); protein abundance increases in response to DNA replication stress; mutants are defective for adhesion and pseudohyphal growth	regulation of cell cycle|translational initiation|nuclear-transcribed mRNA catabolic process, nonsense-mediated decay	phosphatidylinositol-3-phosphate binding|translation initiation factor activity	ribosome|nucleus|eukaryotic translation initiation factor 4F complex|cytoplasmic stress granule|cytoplasm
YJL210W	PEX2	hom	FT	PROTEIN LOCALIZATION|PEROXISOME ORGANIZATION	0.00816980486836286	0.63673461838495	1939	RING-finger peroxin and E3 ubiquitin ligase, peroxisomal membrane protein with a C-terminal zinc-binding RING domain, forms translocation subcomplex with Pex10p and Pex12p which functions in peroxisomal matrix protein import	protein import into peroxisome matrix	ubiquitin-protein ligase activity|protein binding	peroxisomal membrane
YOR090C	PTC5	hom	FT	MITOCHONDRION	0.00815282737303958	0.637636710480836	1940	Mitochondrial type 2C protein phosphatase (PP2C) involved in regulation of pyruvate dehydrogenase activity by dephosphorylating the serine 133 of the Pda1p subunit; localizes to the intermembrane space and is imported via the presequence pathway and processed by the inner membrane protease (Imp1p-Imp2p); acts in concert with kinases Pkp1p and Pkp2p and phosphatase Ptc6p	positive regulation of catalytic activity|regulation of catalytic activity|protein dephosphorylation	[pyruvate dehydrogenase (lipoamide)] phosphatase activity|protein serine/threonine phosphatase activity	mitochondrion
YDR485C	VPS72	hom	FF|FT	CHROMATIN ORGANIZATION|NUCLEUS|CHROMOSOME	0.00810321777947961	0.639484310016676	1941	Htz1p-binding component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for vacuolar protein sorting	chromatin remodeling|histone exchange	histone binding	Swr1 complex|nucleus|cytoplasm
YDL220C	CDC13	het	FT	CELL CYCLE|CELL DIVISION|NUCLEUS|CHROMOSOME	0.00810237198832742	0.639519268649954	1942	Single stranded DNA-binding protein found at TG1-3 telomere G-tails; regulates telomere replication through recruitment of specific sub-complexes, but the essential function is telomere capping; autophagy and proteasome are involved in Cdc13p degradation	telomere capping|telomere maintenance via telomerase|negative regulation of telomerase activity|telomere maintenance|regulation of telomere maintenance via telomerase	single-stranded telomeric DNA binding|telomerase inhibitor activity	nuclear telomere cap complex
YOL088C	MPD2	hom	FT	ENDOPLASMIC RETICULUM	0.00810080167562993	0.639584175666712	1943	Member of the protein disulfide isomerase (PDI) family, exhibits chaperone activity; overexpression suppresses the lethality of a pdi1 deletion but does not complement all Pdi1p functions; undergoes oxidation by Ero1p	protein folding	protein disulfide isomerase activity|protein disulfide oxidoreductase activity	endoplasmic reticulum
YCR099C_p	YCR099C	hom			0.00810017029193469	0.639610273941874	1944	Putative protein of unknown function	biological_process	molecular_function	integral to membrane
YNL159C	ASI2	hom	FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|NUCLEUS	0.00809684148304238	0.639747877787272	1945	Integral inner nuclear membrane protein that acts with Asi1p and Asi3p to ensure the fidelity of SPS-sensor signalling by maintaining the dormant repressed state of gene expression in the absence of inducing signals	ubiquitin-dependent protein catabolic process	molecular_function	nuclear inner membrane
YGR145W	ENP2	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00806590760914918	0.641027191396556	1946	Essential nucleolar protein, required for biogenesis of the small ribosomal subunit; contains WD repeats, interacts with Mpp10p and Bfr2p, and has homology to Spb1p	ribosomal small subunit biogenesis|rRNA processing	molecular_function	nucleolus|90S preribosome
YNL064C	YDJ1	hom	FT	PROTEIN LOCALIZATION|PROTEOLYSIS|MITOCHONDRION ORGANIZATION	0.00806528366547084	0.641053006444813	1947	Type I HSP40 co-chaperone; involved in regulation of HSP90 and HSP70 functions; critical for determining cell size at Start as a function of growth rate; involved in protein translocation across membranes; member of the DnaJ family	protein refolding|ER-associated protein catabolic process|protein targeting to mitochondrion|protein targeting to ER|'de novo' protein folding	unfolded protein binding|ATPase activator activity	cytosol|TRC complex|perinuclear region of cytoplasm
YBR181C	RPS6B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.00804550147425486	0.64187169973739	1948	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S6, no bacterial homolog; RPS6B has a paralog, RPS6A, that arose from the whole genome duplication	cytoplasmic translation|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	structural constituent of ribosome	small-subunit processome|cytosolic small ribosomal subunit|cytoplasm
YPR122W	AXL1	hom	FT	CELL CYCLE|CELL DIVISION|PROTEOLYSIS|SITE OF POLARIZED GROWTH	0.00803525333743384	0.642295993903914	1949	Haploid specific endoprotease that performs one of two N-terminal cleavages during maturation of a-factor mating pheromone; required for axial budding pattern of haploid cells	peptide pheromone maturation|axial cellular bud site selection	metalloendopeptidase activity	mating projection tip|cellular bud neck
YER079W_p	YER079W	hom	FT	NUCLEUS	0.00800173925149094	0.643684361098729	1950	Putative protein of unknown function	biological_process	molecular_function	nucleus|cytoplasm
YGL208W	SIP2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|SIGNALING|PROTEIN PHOSPHORYLATION|RESPONSE TO NUTRIENT LEVELS|PLASMA MEMBRANE	0.00800012254708	0.643751366796836	1951	One of three beta subunits of the Snf1 serine/threonine protein kinase complex involved in the response to glucose starvation; null mutants exhibit accelerated aging; N-myristoylprotein localized to the cytoplasm and the plasma membrane	cellular response to glucose starvation|signal transduction|protein phosphorylation|replicative cell aging|invasive growth in response to glucose limitation|regulation of protein complex assembly	AMP-activated protein kinase activity	AMP-activated protein kinase complex|plasma membrane|cytoplasm
YDR145W	TAF12	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|NUCLEUS|RNA POL II, HOLOENZYME|HISTONE ACETYLTRANSFERASE	0.0079493880418155	0.645855570250046	1952	Subunit (61/68 kDa) of TFIID and SAGA complexes, involved in RNA polymerase II transcription initiation and in chromatin modification, similar to histone H2A	histone acetylation|RNA polymerase II transcriptional preinitiation complex assembly|chromatin modification|transcription from RNA polymerase II promoter	TBP-class protein binding|chromatin binding|RNA polymerase II activating transcription factor binding|protein complex scaffold|RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	SLIK (SAGA-like) complex|SAGA complex|transcription factor TFIID complex
YMR145C	NDE1	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.00793481735678821	0.64646041142571	1953	Mitochondrial external NADH dehydrogenase, a type II NAD(P)H:quinone oxidoreductase that catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p provide cytosolic NADH to the mitochondrial respiratory chain	glucose catabolic process to ethanol|NADH oxidation|chronological cell aging	NADH dehydrogenase activity	mitochondrion
YLL038C	ENT4	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.00790901584328674	0.647532026488534	1954	Protein of unknown function, contains an N-terminal epsin-like domain; proposed to be involved in the trafficking of Arn1p in the absence of ferrichrome	endocytosis|actin filament organization|establishment of protein localization to plasma membrane|actin cortical patch assembly	clathrin binding	actin cortical patch
YNL193W_p	YNL193W	hom			0.00790399130582153	0.647740795818793	1955	Putative protein of unknown function; exhibits a two-hybrid interaction with Yhr151cp in a large-scale analysis	biological_process	molecular_function	cellular_component
YLR418C	CDC73	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|PROTEIN PHOSPHORYLATION|NUCLEUS|CHROMOSOME|RNA POL II, HOLOENZYME	0.00789040156842522	0.648305587577519	1956	Component of the Paf1p complex; binds to and modulates the activity of RNA polymerases I and II; required for expression of certain genes, modification of some histones, and telomere maintenance; involved in transcription elongation as demonstrated by the G-less-based run-on (GLRO) assay; protein abundance increases in response to DNA replication stress	transcription elongation from RNA polymerase I promoter|negative regulation of DNA recombination|mRNA 3'-end processing|recruitment of 3'-end processing factors to RNA polymerase II holoenzyme complex|positive regulation of transcription elongation from RNA polymerase II promoter|Unknown|regulation of transcription-coupled nucleotide-excision repair|transcription elongation from RNA polymerase II promoter	chromatin binding|TFIIF-class binding transcription factor activity|RNA polymerase II core binding|RNA polymerase II transcription factor binding transcription factor activity	nucleus|transcriptionally active chromatin|Cdc73/Paf1 complex
YLR422W_p	YLR422W	hom			0.0078848654804155	0.648535726335649	1957	Protein of unknown function with similarity to human DOCK proteins (guanine nucleotide exchange factors); interacts with Ino4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm, YLR422W is not an essential protein	biological_process	molecular_function	cytoplasm
YMR207C	HFA1	hom	FT	KETONE METABOLISM|LIPID METABOLISM|MITOCHONDRION	0.00788291115417088	0.648616976956423	1958	Mitochondrial acetyl-coenzyme A carboxylase; catalyzes the production of malonyl-CoA in mitochondrial fatty acid biosynthesis; relocalizes from mitochondrion to cytoplasm upon DNA replication stress	fatty acid biosynthetic process	acetyl-CoA carboxylase activity	mitochondrion
YKR036C	CAF4	hom	FT	TRANSCRIPTION FROM RNA POL II|MITOCHONDRION ORGANIZATION|PEROXISOME ORGANIZATION|NUCLEUS|MITOCHONDRION	0.00787325933649399	0.649018310141673	1959	WD40 repeat-containing protein associated with the CCR4-NOT complex; interacts in a Ccr4p-dependent manner with Ssn2p; also interacts with Fis1p, Mdv1p and Dnm1p and plays a role in mitochondrial fission; CAF4 has a paralog, MDV1, that arose from the whole genome duplication	peroxisome fission|mitochondrial fission|regulation of transcription from RNA polymerase II promoter	molecular_function	mitochondrion|CCR4-NOT complex
YPL158C	AIM44	hom	FT	SITE OF POLARIZED GROWTH	0.00785392809999147	0.649920240203762	1960	Protein of unknown function; GFP-fusion protein localizes to the bud neck; transcription is regulated by Swi5p; null mutant displays elevated frequency of mitochondrial genome loss; relocalizes from bud neck to cytoplasm upon DNA replication stress	biological_process	molecular_function	cellular bud neck
YBR158W	AMN1	hom	FT	CELL CYCLE|CELL DIVISION|NUCLEUS	0.00782444904476081	0.651049454051217	1961	Protein required for daughter cell separation, multiple mitotic checkpoints, and chromosome stability; contains 12 degenerate leucine-rich repeat motifs; expression is induced by the Mitotic Exit Network (MEN)	mitotic cell cycle checkpoint|negative regulation of exit from mitosis	protein binding	nucleus|cellular bud|cytoplasm
YGR007W	ECT1	hom	FT	LIPID METABOLISM|NUCLEUS	0.00782398338304438	0.651068844150081	1962	Ethanolamine-phosphate cytidylyltransferase, catalyzes the second step of phosphatidylethanolamine biosynthesis; involved in the maintenance of plasma membrane; similar to mammalian CTP: phosphocholine cytidylyl-transferases	phosphatidylethanolamine biosynthetic process	ethanolamine-phosphate cytidylyltransferase activity	nucleus|cytoplasm
YHR060W	VMA22	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|ION HOMEOSTASIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0077908671326246	0.652448405338859	1963	Peripheral membrane protein that is required for vacuolar H+-ATPase (V-ATPase) function, although not an actual component of the V-ATPase complex; functions in the assembly of the V-ATPase; localized to the yeast endoplasmic reticulum (ER)	vacuolar proton-transporting V-type ATPase complex assembly|vacuolar acidification	unfolded protein binding	extrinsic to endoplasmic reticulum membrane
YLR195C	NMT1	het			0.00779018835522148	0.652476694391751	1964	N-myristoyl transferase, catalyzes the cotranslational, covalent attachment of myristic acid to the N-terminal glycine residue of several proteins involved in cellular growth and signal transduction	N-terminal peptidyl-glycine N-myristoylation|replicative cell aging	glycylpeptide N-tetradecanoyltransferase activity	cytosol
YGL082W_p	YGL082W	hom	FT	NUCLEUS	0.00778989485283518	0.652537509680141	1965	Putative protein of unknown function; predicted prenylation/proteolysis target of Afc1p and Rce1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YGL082W is not an essential gene	biological_process	molecular_function	nucleus|plasma membrane|cytoplasm
YBR089C-A	NHP6B	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.0077897631548997	0.652494415499008	1966	High-mobility group (HMG) protein, binds to and remodels nucleosomes; involved in recruiting FACT and other chromatin remodelling complexes to the chromosomes; functionally redundant with Nhp6Ap; homologous to mammalian HMGB1 and HMGB2; NHP6B has a paralog, NHP6A, that arose from the whole genome duplication	RNA polymerase III transcriptional preinitiation complex assembly|chromatin remodeling|transcription from RNA polymerase II promoter	nucleosome binding|DNA binding, bending|sequence-specific DNA binding	nucleus
YJR062C	NTA1	hom	FT	PROTEOLYSIS|MITOCHONDRION	0.00776459754213682	0.653543593613859	1967	Amidase, removes the amide group from N-terminal asparagine and glutamine residues to generate proteins with N-terminal aspartate and glutamate residues that are targets of ubiquitin-mediated degradation	cellular protein modification process|protein catabolic process	protein-N-terminal asparagine amidohydrolase activity	mitochondrion
YOL046C_d	YOL046C	hom			0.00776094988047303	0.653695724948259	1968	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data;almost completely overlaps the verified gene PSK2/YOL045W	Unknown	Unknown	Unknown
YML060W	OGG1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS|MITOCHONDRION	0.00771059884263711	0.655797159841389	1969	Mitochondrial glycosylase/lyase that specifically excises 7,8-dihydro-8-oxoguanine residues located opposite cytosine or thymine residues in DNA, repairs oxidative damage to mitochondrial DNA, contributes to UVA resistance	DNA repair|base-excision repair, AP site formation	oxidized purine nucleobase lesion DNA N-glycosylase activity	mitochondrion
YIL004C	BET1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.00770795707686818	0.655907491150179	1970	Type II membrane protein required for vesicular transport between the endoplasmic reticulum and Golgi complex; v-SNARE with similarity to synaptobrevins	retrograde vesicle-mediated transport, Golgi to ER|ER to Golgi vesicle-mediated transport|vesicle fusion	SNAP receptor activity	SNARE complex|integral to membrane|endoplasmic reticulum membrane|ER to Golgi transport vesicle
YGL073W	HSF1	het	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|SIGNALING|CYTOSKELETON ORGANIZATION|NUCLEUS|MITOCHONDRION	0.0076977706192516	0.656332990930797	1971	Trimeric heat shock transcription factor, activates multiple genes in response to stresses that include hyperthermia; recognizes variable heat shock elements (HSEs) consisting of inverted NGAAN repeats; posttranslationally regulated	spindle pole body duplication|negative regulation of TOR signaling cascade|response to heat|regulation of transcription from RNA polymerase II promoter|response to stress	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	mitochondrion|nucleus
YDL132W	CDC53	het	FT	CELL CYCLE|CELL DIVISION|PROTEOLYSIS|NUCLEUS|UBIQUITIN LIGASE COMPLEX	0.00769323702744743	0.656570500258493	1972	Cullin, structural protein of SCF complexes (which also contain Skp1p, Cdc34p, Hrt1p and an F-box protein) involved in ubiquitination; SCF promotes the G1-S transition by targeting G1 cyclins and the Cln-CDK inhibitor Sic1p for degradation	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process|G2/M transition of mitotic cell cycle|protein ubiquitination involved in ubiquitin-dependent protein catabolic process|G1/S transition of mitotic cell cycle	ubiquitin-protein ligase activity|DNA replication origin binding|protein binding, bridging	SCF ubiquitin ligase complex
YPL240C	HSP82	hom	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MITOCHONDRION ORGANIZATION	0.00767373584819875	0.657577489639022	1973	Hsp90 chaperone; redundant in function with Hsc82p; required for pheromone signaling, negative regulation of Hsf1p; docks with Tom70p for mitochondrial preprotein delivery; promotes telomerase DNA binding, nucleotide addition; protein abundance increases in response to DNA replication stress; contains two acid-rich unstructured regions that promote solubility of chaperone-substrate complexes; HSP82 has a paralog, HSC82, that arose from the whole genome duplication	proteasome assembly|positive regulation of telomere maintenance via telomerase|box C/D snoRNP assembly|response to stress|protein refolding|protein targeting to mitochondrion|response to osmotic stress|'de novo' protein folding	unfolded protein binding|ATPase activity, coupled	cytoplasm
YER119C	AVT6	hom	FT	VACUOLAR TRANSPORT	0.00766735722692646	0.657604055212874	1974	Vacuolar aspartate and glutamate exporter; member of a family of seven genes (AVT1-7) related to vesicular GABA-glycine transporters; involved in compartmentalizing acidic amino acids in response to nitrogen starvation; AVT6 has a paralog, AVT5, that arose from the whole genome duplication	amino acid export from vacuole|transmembrane transport	L-aspartate transmembrane transporter activity|transporter activity|L-glutamate transmembrane transporter activity	fungal-type vacuole membrane|integral to membrane|fungal-type vacuole
YMR264W	CUE1	hom	FF|FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION|UBIQUITIN LIGASE COMPLEX	0.00765316506127665	0.658197526279742	1975	Ubiquitin-binding protein; endoplasmic reticulum membrane protein that recruits the ubiquitin-conjugating enzyme Ubc7p to the ER where it functions in protein degradation; contains a CUE domain that binds ubiquitin to facilitate intramolecular monoubiquitination; CUE1 has a paralog, CUE4, that arose from the whole genome duplication	ER-associated protein catabolic process|establishment of protein localization to endoplasmic reticulum membrane	ubiquitin-protein ligase activator activity	Doa10p ubiquitin ligase complex|mitochondrion|integral to endoplasmic reticulum membrane
YDL148C	NOP14	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS|MITOCHONDRION	0.00763767091208522	0.658845688018851	1976	Nucleolar protein, forms a complex with Noc4p that mediates maturation and nuclear export of 40S ribosomal subunits; also present in the small subunit processome complex, which is required for processing of pre-18S rRNA	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit biogenesis|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|rRNA processing	snoRNA binding	small-subunit processome|mitochondrion|nucleolus|90S preribosome|Noc4p-Nop14p complex
YEL030W	ECM10	hom	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00763401535674337	0.659046449468382	1977	Heat shock protein of the Hsp70 family; localized in mitochondrial nucleoids, plays a role in protein translocation, interacts with Mge1p in an ATP-dependent manner; overexpression induces extensive mitochondrial DNA aggregations; ECM10 has a paralog, SSC1, that arose from the whole genome duplication	protein refolding|protein targeting to mitochondrion	molecular_function	mitochondrial nucleoid|mitochondrion
YJL127C	SPT10	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS	0.00759172979945899	0.660769032474103	1978	Putative histone acetylase with a role in transcriptional silencing, sequence-specific activator of histone genes, binds specifically and cooperatively to pairs of UAS elements in core histone promoters, functions at or near the TATA box	DNA repair|negative regulation of transcription from RNA polymerase II promoter|chromatin silencing at rDNA|chromatin remodeling|chromatin silencing at telomere|chromatin silencing at silent mating-type cassette	histone acetyltransferase activity|sequence-specific DNA binding	nucleus
YNL231C	PDR16	hom	FF|FT	LIPID METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00758616974363754	0.661192252352569	1979	Phosphatidylinositol transfer protein (PITP); controlled by the multiple drug resistance regulator Pdr1p; localizes to lipid particles and microsomes; controls levels of various lipids, may regulate lipid synthesis; homologous to Pdr17p; protein abundance increases in response to DNA replication stress	response to drug|sterol biosynthetic process|phospholipid biosynthetic process|phospholipid transport	phosphatidylinositol transporter activity|phosphatidylcholine transporter activity	cell periphery|lipid particle|plasma membrane|cytoplasm
YOR295W	UAF30	hom	FT	CHROMATIN ORGANIZATION|NUCLEUS	0.00758582932450979	0.661158923263254	1980	Subunit of UAF (upstream activation factor); UAF is an RNA polymerase I specific transcription stimulatory factor composed of Uaf30p, Rrn5p, Rrn9p, Rrn10p, histones H3 and H4; deletion decreases cellular growth rate; UAF30 has a paralog, TRI1, that arose from the whole genome duplication	transcription of nuclear large rRNA transcript from RNA polymerase I promoter|chromatin organization	RNA polymerase I upstream control element sequence-specific DNA binding|RNA polymerase I upstream control element sequence-specific DNA binding transcription factor activity	nucleolus|RNA polymerase I upstream activating factor complex
YLR006C	SSK1	hom	FT	SIGNALING|PROTEIN PHOSPHORYLATION	0.00752741538925582	0.663465346647601	1981	Cytoplasmic response regulator; part of a two-component signal transducer that mediates osmosensing via a phosphorelay mechanism; required for mitophagy; dephosphorylated form is degraded by the ubiquitin-proteasome system; potential Cdc28p substrate	activation of MAPKKK activity involved in osmosensory signaling pathway|positive regulation of protein autophosphorylation|osmosensory signaling pathway via two-component system	protein kinase activator activity|two-component response regulator activity|protein homodimerization activity|mitogen-activated protein kinase kinase kinase binding	cytoplasm
YOR288C	MPD1	hom	FT	ENDOPLASMIC RETICULUM	0.00751850747438193	0.663839146366026	1982	Member of the protein disulfide isomerase (PDI) family; interacts with and inhibits the chaperone activity of Cne1p; MPD1 overexpression in a pdi1 null mutant suppresses defects in Pdi1p functions such as carboxypeptidase Y maturation	protein folding	protein disulfide oxidoreductase activity|protein disulfide isomerase activity	fungal-type vacuole
YMR175W-A_p	YMR175W-A	hom			0.00749529769083341	0.664813483024258	1983	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YNR001C	CIT1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.00748208557699478	0.665368374877258	1984	Citrate synthase; catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate; the rate-limiting enzyme of the TCA cycle; nuclear encoded mitochondrial protein; CIT1 has a paralog, CIT2, that arose from the whole genome duplication	glutamate biosynthetic process|tricarboxylic acid cycle|acetyl-CoA catabolic process|citrate metabolic process	citrate (Si)-synthase activity	mitochondrion
YMR294W-A_d	YMR294W-A	hom			0.007468003949907	0.665959986903997	1985	Dubious open reading frame unlikely to encode a functional protein, substantially overlaps YMR295C; deletion causes sensitivity to unfolded protein response-inducing agents	Unknown	Unknown	Unknown
YHR105W	YPT35	hom			0.00745800739354048	0.666380098838921	1986	Endosomal protein of unknown function that contains a phox (PX) homology domain and binds to both phosphatidylinositol-3-phosphate (PtdIns(3)P) and proteins involved in ER-Golgi or vesicular transport	biological_process	phosphatidylinositol-3-phosphate binding	endosome
YLR313C	SPH1	hom	FT	CELL CYCLE|SIGNALING|CELL DIVISION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.00745327921085227	0.666578840318442	1987	Protein involved in shmoo formation and bipolar bud site selection; homologous to Spa2p, localizes to sites of polarized growth in a cell cycle dependent- and Spa2p-dependent manner, interacts with MAPKKs Mkk1p, Mkk2p, and Ste7p	bipolar cellular bud site selection|pseudohyphal growth|invasive filamentous growth|mating projection assembly	molecular_function	incipient cellular bud site|cellular bud neck|cellular bud tip|mating projection
YBR093C	PHO5	hom	FT	RESPONSE TO NUTRIENT LEVELS	0.00744611206606629	0.666880144214092	1988	Repressible acid phosphatase (1 of 3) that also mediates extracellular nucleotide-derived phosphate hydrolysis; secretory pathway derived cell surface glycoprotein; induced by phosphate starvation and coordinately regulated by PHO4 and PHO2	cellular response to phosphate starvation|phosphate-containing compound metabolic process|regulation of cell size	nucleoside-triphosphate diphosphatase activity|nucleoside-triphosphatase activity|acid phosphatase activity	fungal-type cell wall|cell wall-bounded periplasmic space
YPR045C	THP3	hom	FT	RNA PROCESSING|NUCLEUS|CHROMOSOME	0.00741390706632525	0.668234691844407	1989	Protein that forms a complex with Csn12p that is recruited to transcribed genes and may have a role in transcription elongation; possibly involved in splicing based on pre-mRNA accumulation defect for many intron-containing genes	mRNA splicing, via spliceosome	molecular_function	nucleus|transcriptionally active chromatin
YNL243W	SLA2	hom	FT	VESICLE-MEDIATED TRANSPORT|CELL CYCLE|MEMBRANE ORGANIZATION|CELL WALL ORG/BIOGENESIS|CELL DIVISION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE|CYTOSKELETON	0.00739737709845616	0.668930364981155	1990	Adaptor protein that links actin to clathrin and endocytosis; involved in membrane cytoskeleton assembly and cell polarization; present in the actin cortical patch of the emerging bud tip; dimer in vivo	bipolar cellular bud site selection|fungal-type cell wall organization|actin filament organization|endocytosis|exocytosis	protein binding, bridging	incipient cellular bud site|mating projection tip|actin cortical patch
YLR311C_d	YLR311C	hom			0.00739571201880769	0.669000456572935	1991	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YEL054C	RPL12A	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.00739483099533433	0.669037544456268	1992	Ribosomal 60S subunit protein L12A; rpl12a rpl12b double mutant exhibits slow growth and slow translation; homologous to mammalian ribosomal protein L12 and bacterial L11; RPL12A has a paralog, RPL12B, that arose from the whole genome duplication	cytoplasmic translation|ribosomal large subunit assembly	structural constituent of ribosome	cytosolic large ribosomal subunit
YOR381W	FRE3	hom	FT	ION HOMEOSTASIS|OXIDATION-REDUCTION PROCESS|ION HOMEOSTASIS|GEN. OF PRECURSOR METABOLITES AND ENERGY|PLASMA MEMBRANE	0.00738277083356557	0.669545314503947	1993	Ferric reductase, reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels	cellular iron ion homeostasis|siderophore transport	ferric-chelate reductase activity	integral to membrane|plasma membrane
YHR192W	LNP1	hom			0.0073766642567587	0.669802477853701	1994	Lunapark family member involved in ER network formation; localizes to ER junctions and this localization is regulated by the yeast atlastin ortholog Sey1p; interacts with the reticulon protein Rtn1p; induced in response to the DNA-damaging agent MMS	endoplasmic reticulum tubular network organization	molecular_function	endoplasmic reticulum tubular network|cytoplasm
YLR143W	DPH6	hom			0.00737624245075345	0.669820242597422	1995	Diphthamide synthetase; catalyzes the last amidation step of diphthamide biosynthesis using ammonium and ATP; evolutionarily conserved in eukaryotes; dph6 mutants exhibit diphthine accumulation and resistance to sordarin, which is indicative of defects in diphthamide formation on EF2; green fluorescent protein (GFP)-tagged protein localizes to the cytoplasm; DPH6/YLR143W is not an essential gene	biological_process	molecular_function	cytoplasm
YBR290W	BSD2	hom	FT	PROTEIN LOCALIZATION|ION HOMEOSTASIS|PROTEOLYSIS|ION HOMEOSTASIS|VACUOLAR TRANSPORT|ENDOPLASMIC RETICULUM	0.00731593192751392	0.672362171310929	1996	Heavy metal ion homeostasis protein, facilitates trafficking of Smf1p and Smf2p metal transporters to the vacuole where they are degraded, controls metal ion transport, prevents metal hyperaccumulation, functions in copper detoxification	metal ion transport|ubiquitin-dependent protein catabolic process|protein targeting to vacuole	protein binding	fungal-type vacuole membrane|integral to membrane|endoplasmic reticulum
YER042W	MXR1	hom	FT	OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.00726783077664523	0.674621907618274	1997	Methionine-S-sulfoxide reductase, involved in the response to oxidative stress; protects iron-sulfur clusters from oxidative inactivation along with MXR2; involved in the regulation of lifespan	cellular response to oxidative stress	peptide-methionine-(S)-S-oxide reductase activity	nucleus|cytoplasm
YIR003W	AIM21	hom	FT	SITE OF POLARIZED GROWTH|CYTOSKELETON	0.00726014377096465	0.674716832683043	1998	Protein of unknown function involved in mitochondrial migration along actin filament; may interact with ribosomes; GFP-fusion protein colocalizes with Sac1p to the actin cytoskeleton	mitochondrion migration along actin filament	molecular_function	ribosome|mating projection tip|actin cytoskeleton
YLR013W	GAT3	hom	FT	NUCLEUS	0.0072440677369559	0.675395949446009	1999	Protein containing GATA family zinc finger motifs	transcription, DNA-dependent	sequence-specific DNA binding|sequence-specific DNA binding transcription factor activity	nucleus
YLR198C_d	YLR198C	het			0.00721625943496773	0.676571308245379	2000	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene SIK1/YLR197W	Unknown	Unknown	Unknown
YBR139W	YBR139W	hom	FT	PROTEOLYSIS	0.0072100090380742	0.676835599030548	2001	Putative serine type carboxypeptidase with a role in phytochelatin synthesis; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; expression induced by nitrogen limitation in a GLN3, GAT1-independent manner	phytochelatin biosynthetic process	serine hydrolase activity|serine-type carboxypeptidase activity	fungal-type vacuole
YOR219C	STE13	hom	FT	PROTEOLYSIS|GOLGI APPARATUS	0.0071943682811538	0.677497124583102	2002	Dipeptidyl aminopeptidase, Golgi integral membrane protein that cleaves on the carboxyl side of repeating -X-Ala- sequences, required for maturation of alpha factor, transcription is induced by a-factor	peptide pheromone maturation	aminopeptidase activity	trans-Golgi network
YLR092W	SUL2	hom	FT	ION HOMEOSTASIS|ION HOMEOSTASIS|PLASMA MEMBRANE	0.0071897380844115	0.677693006403364	2003	High affinity sulfate permease; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates	sulfate transport	sulfate transmembrane transporter activity	integral to membrane|plasma membrane
YBR134W_d	YBR134W	hom			0.0071644154860244	0.678764671304769	2004	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YGL241W	KAP114	hom	FT	PROTEIN LOCALIZATION|RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS	0.00716411584062623	0.678777356339029	2005	Karyopherin, responsible for nuclear import of specific proteins; cargoes include Spt15p, Sua7p, histones H2A and H2B, and Nap1p; amino terminus shows similarity to those of other importins, particularly Cse1p; localization is primarily nuclear; function is regulated by sumoylation; protein abundance increases in response to DNA replication stress	protein import into nucleus|transcription factor import into nucleus	protein transporter activity	integral to membrane|nucleus|cytoplasm
YHR194W	MDM31	hom	FT	ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|NUCLEUS|MITOCHONDRION	0.00714687390234723	0.679507420785219	2006	Mitochondrial protein that may have a role in phospholipid metabolism; inner membrane protein with similarity to Mdm32p; required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MMM2, MDM10, MDM12, and MDM34	mitochondrion inheritance|cellular ion homeostasis|mitochondrion organization|Unknown	molecular_function	mitochondrial inner membrane|nucleus
YMR268C	PRP24	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.00714017028544571	0.679791348956278	2007	Splicing factor that reanneals U4 and U6 snRNPs during spliceosome recycling	assembly of spliceosomal tri-snRNP|spliceosomal complex assembly	U6 snRNA binding|snRNA binding	U6 snRNP
YBR076W	ECM8	hom	FT	CELL WALL ORG/BIOGENESIS	0.00711987839547063	0.680651077838001	2008	Non-essential protein of unknown function	fungal-type cell wall organization	molecular_function	cellular_component
YJL146W	IDS2	hom	FT	CELL CYCLE|NUCLEUS	0.00711964831930407	0.680660828109828	2009	Protein involved in modulation of Ime2p activity during meiosis, appears to act indirectly to promote Ime2p-mediated late meiotic functions; found in growing cells and degraded during sporulation	meiosis	molecular_function	nucleus|cytoplasm
YBR255W	MTC4	hom			0.00706808169539587	0.682847485029905	2010	Protein of unknown function, required for normal growth rate at 15 degrees C; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; mtc4 is synthetically sick with cdc13-1	biological_process	molecular_function	cytoplasm
YLR425W	TUS1	hom	FT	SIGNALING|CELL WALL ORG/BIOGENESIS|SITE OF POLARIZED GROWTH	0.00706032268312295	0.683176733014977	2011	Guanine nucleotide exchange factor (GEF) that modulate Rho1p activity; involved in the cell integrity signaling pathway; interacts with Rgl1p; localization of Tus1p to the bed neck is regulated by Rgl1p; multicopy suppressor of tor2 mutation and ypk1 ypk2 double mutation; potential Cdc28p substrate	fungal-type cell wall organization|signal transduction	Rho guanyl-nucleotide exchange factor activity	incipient cellular bud site|cellular bud neck
YML120C	NDI1	hom	FT	OXIDATION-REDUCTION PROCESS|NUCLEOTIDE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.00705185689350653	0.683536041308528	2012	NADH:ubiquinone oxidoreductase; transfers electrons from NADH to ubiquinone in the respiratory chain but does not pump protons, in contrast to the higher eukaryotic multisubunit respiratory complex I; phosphorylated; involved in Mn and H2O2 induced apoptosis; upon apoptotic stress, Ndip is activated in the mitochondria by N-terminal cleavage, and the truncated protein translocates to the cytoplasm to induce apoptosis; homolog of human AMID	mitochondrial electron transport, NADH to ubiquinone|NADH oxidation|chronological cell aging|positive regulation of apoptotic process	NADH dehydrogenase (ubiquinone) activity	mitochondrion|mitochondrial matrix
YPR121W	THI22	hom			0.00704411903350651	0.683864517214053	2013	Protein with similarity to hydroxymethylpyrimidine phosphate kinases; member of a gene family with THI20 and THI21; not required for thiamine biosynthesis	thiamine biosynthetic process	phosphomethylpyrimidine kinase activity|hydroxymethylpyrimidine kinase activity	cellular_component
YHR158C	KEL1	hom	FT	CELL CYCLE|MEMBRANE ORGANIZATION|SITE OF POLARIZED GROWTH	0.00703746972663229	0.684146831293267	2014	Protein required for proper cell fusion and cell morphology; functions in a complex with Kel2p to negatively regulate mitotic exit, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate	negative regulation of exit from mitosis|regulation of cell shape|cell morphogenesis|cytogamy|plasma membrane fusion	molecular_function	mating projection tip|cellular bud neck|cytoplasm|cellular bud tip
YMR252C_p	YMR252C	hom	FT	MITOCHONDRION	0.00703283326300151	0.684388402195812	2015	Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YMR252C is not an essential gene	biological_process	molecular_function	mitochondrion
YEL018W	EAF5	hom	FT	CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.00699682851674072	0.686006843723	2016	Esa1p-associated factor, non-essential subunit of the NuA4 acetyltransferase complex	DNA repair	molecular_function	nucleus|NuA4 histone acetyltransferase complex
YKR077W	MSA2	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS	0.00699219701193973	0.68607017658973	2017	Putative transcriptional activator, that interacts with G1-specific transcription factor, MBF and G1-specific promoters; ortholog of Msa2p, an MBF and SBF activator that regulates G1-specific transcription and cell cycle initiation	regulation of transcription involved in G1 phase of mitotic cell cycle	molecular_function	nucleus|cytoplasm
YLR037C	PAU23	hom	FT	CELL WALL ORG/BIOGENESIS	0.00698618987041727	0.686547829067131	2018	Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; member of the seripauperin multigene family encoded mainly in subtelomeric regions; expressed under anaerobic conditions, completely repressed during aerobic growth	biological_process	molecular_function	fungal-type cell wall
YCR059C	YIH1	hom	FT	TRANSLATION|PROTEIN PHOSPHORYLATION|NUCLEUS	0.00691076641898703	0.689887290150093	2019	Negative regulator of eIF2 kinase Gcn2p; competes with Gcn2p for binding to Gcn1p; may contribute to regulation of translation in response to starvation via regulation of Gcn2p; binds to monomeric actin and to ribosomes and polyribosomes; ortholog of mammalian IMPACT	negative regulation of protein phosphorylation	protein kinase inhibitor activity|ribosome binding|actin monomer binding	ribosome|nucleus|polysome|cytoplasm
YBL102W	SFT2	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.00690844512285226	0.689633609028957	2020	Non-essential tetra-spanning membrane protein found mostly in the late Golgi, can suppress some sed5 alleles; may be part of the transport machinery, but precise function is unknown; similar to mammalian syntaxin 5	Golgi to endosome transport	molecular_function	integral to membrane|Golgi membrane
YNL300W_p	TOS6	hom			0.00690200967636471	0.689907707191495	2021	Glycosylphosphatidylinositol-dependent cell wall protein, expression is periodic and decreases in respone to ergosterol perturbation or upon entry into stationary phase; depletion increases resistance to lactic acid	biological_process	molecular_function	fungal-type cell wall
YOL041C	NOP12	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00690062037197406	0.690098867541188	2022	Nucleolar protein involved in pre-25S rRNA processing and biogenesis of large 60S ribosomal subunit; contains an RNA recognition motif (RRM); binds to Ebp2; similar to Nop13p and Nsr1p	maturation of LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	RNA binding	nucleolus|preribosome
YJL216C	IMA5	hom	FT	CARBOHYDRATE METABOLISM	0.00689053206166815	0.690396662015575	2023	Alpha-glucosidase; specificity for isomaltose, maltose, and palatinose, but not alpha-methylglucoside; member of the IMA isomaltase family; not required for isomaltose utilization, but Ima5p overexpression allows the ima1 null mutant to grow on isomaltose	disaccharide catabolic process	oligo-1,6-glucosidase activity	cellular_component
YHR043C	DOG2	hom	FT	CARBOHYDRATE METABOLISM|NUCLEUS	0.00687219158182725	0.69117824800109	2024	2-deoxyglucose-6-phosphate phosphatase; member of a family of low molecular weight phosphatases, paralogous to DOG1, induced by oxidative and osmotic stress, confers 2-deoxyglucose resistance when overexpressed	glucose metabolic process	2-deoxyglucose-6-phosphatase activity	nucleus|cytoplasm
YGR039W_d	YGR039W	hom			0.00686959666099363	0.691288858056605	2025	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the Autonomously Replicating Sequence ARS722	Unknown	Unknown	Unknown
YML020W_p	YML020W	hom			0.00686945241486821	0.691295006827389	2026	Putative protein of unknown function	biological_process	molecular_function	cellular_component
YGR030C	POP6	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00686598861314354	0.691442664203047	2027	Subunit of both RNase MRP and nuclear RNase P; RNase MRP cleaves pre-rRNA, while nuclear RNase P cleaves tRNA precursors to generate mature 5' ends and facilitates turnover of nuclear RNAs	tRNA processing|intronic box C/D snoRNA processing|mRNA cleavage|rRNA processing	ribonuclease MRP activity|ribonuclease P activity	nucleolar ribonuclease P complex|ribonuclease MRP complex
YPL001W	HAT1	hom	FT	CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|HISTONE ACETYLTRANSFERASE	0.00685863955489908	0.691755983864252	2028	Catalytic subunit of the Hat1p-Hat2p histone acetyltransferase complex that uses the cofactor acetyl coenzyme A, to acetylate free nuclear and cytoplasmic histone H4; involved in telomeric silencing and DNA double-strand break repair	histone acetylation|chromatin silencing at telomere	histone acetyltransferase activity|histone binding	histone acetyltransferase complex|nucleus|cytoplasm
YER139C	RTR1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.00684709341485567	0.692335753555614	2029	CTD phosphatase; dephosphorylates S5-P in the C-terminal domain of Rpo21p; has a cysteine-rich motif required for function and conserved in eukaryotes; shuttles between the nucleus and cytoplasm; RTR1 has a paralog, RTR2, that arose from the whole genome duplication	dephosphorylation of RNA polymerase II C-terminal domain|transcription from RNA polymerase II promoter	CTD phosphatase activity	nucleus|cytoplasm
YKR068C	BET3	het	FT	VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|GOLGI APPARATUS	0.00683514120682365	0.692758165936826	2030	Hydrophilic protein that acts in conjunction with SNARE proteins in targeting and fusion of ER to Golgi transport vesicles; component of the TRAPP (transport protein particle) complex	ER to Golgi vesicle-mediated transport|intra-Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	TRAPP complex|cis-Golgi network membrane
YFL047W	RGD2	hom	FT	SIGNALING|SITE OF POLARIZED GROWTH	0.00682215977117769	0.693312042465702	2031	GTPase-activating protein (RhoGAP) for Cdc42p and Rho5p; relocalizes from bud neck to cytoplasm upon DNA replication stress	small GTPase mediated signal transduction	Rho GTPase activator activity	cellular bud neck|cytoplasm
YDR306C_p	YDR306C	hom	FT	PROTEOLYSIS	0.00682114844112624	0.69335519958287	2032	F-box protein of unknown function; interacts with Sgt1p via a Leucine-Rich Repeat (LRR) domain	SCF-dependent proteasomal ubiquitin-dependent protein catabolic process	ubiquitin-protein ligase activity|protein binding, bridging	SCF ubiquitin ligase complex
YGL032C	AGA2	hom			0.00678701104070459	0.694942695088381	2033	Adhesion subunit of a-agglutinin of a-cells, C-terminal sequence acts as a ligand for alpha-agglutinin (Sag1p) during agglutination, modified with O-linked oligomannosyl chains, linked to anchorage subunit Aga1p via two disulfide bonds	agglutination involved in conjugation with cellular fusion	cell adhesion molecule binding	fungal-type cell wall
YDR002W	YRB1	het	FT	PROTEIN LOCALIZATION|CELL CYCLE|PROTEOLYSIS|RNA LOCALIZATION|NUCLEUS	0.00677878487823714	0.695640941829432	2034	Ran GTPase binding protein; involved in nuclear protein import and RNA export, ubiquitin-mediated protein degradation during the cell cycle; shuttles between the nucleus and cytoplasm; is essential; homolog of human RanBP1	RNA export from nucleus|protein import into nucleus|G1/S transition of mitotic cell cycle|ubiquitin-dependent protein catabolic process	Ran GTPase binding	nucleus|cytoplasm
YDR236C	FMN1	het	FT	NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.00674757458091214	0.696799806459574	2035	Riboflavin kinase, produces riboflavin monophosphate (FMN); FMN is a necessary cofactor for many enzymes; predominantly localizes to the microsomal fraction and also found in the mitochondrial inner membrane	FMN biosynthetic process	riboflavin kinase activity|FMN adenylyltransferase activity	intracellular membrane-bounded organelle|mitochondrial inner membrane
YBR222C	PCS60	hom			0.0067019592163443	0.698448366250144	2036	Peroxisomal protein that binds AMP and mRNA, localizes to both the peroxisomal peripheral membrane and matrix, expression is highly inducible by oleic acid, similar to E. coli long chain acyl-CoA synthetase	biological_process	mRNA binding|AMP binding	integral to membrane|peroxisomal matrix|peroxisomal membrane|cytoplasm
YGR033C	TIM21	hom	FT	PROTEIN LOCALIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00669413487287508	0.698783192498802	2037	Nonessential subunit of the Translocase of the Inner Mitochondrial membrane (TIM23 complex); interacts with the Translocase of the Outer Mitochondrial membrane (TOM complex) and with respiratory enzymes; may regulate TIM23 complex activity	protein import into mitochondrial matrix	molecular_function	mitochondrion|mitochondrial inner membrane presequence translocase complex
YDR086C	SSS1	het	FT	PROTEIN LOCALIZATION|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00669314192511373	0.698825687790624	2038	Subunit of the Sec61p translocation complex (Sec61p-Sss1p-Sbh1p) that forms a channel for passage of secretory proteins through the endoplasmic reticulum membrane, and of the Ssh1p complex (Ssh1p-Sbh2p-Sss1p); interacts with Ost4p and Wbp1p	posttranslational protein targeting to membrane, translocation|SRP-dependent cotranslational protein targeting to membrane, translocation	structural molecule activity|P-P-bond-hydrolysis-driven protein transmembrane transporter activity	Sec61 translocon complex|Ssh1 translocon complex
YER044C-A	MEI4	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME	0.00668160468903246	0.699319517247819	2039	Meiosis-specific protein involved in double-strand break formation during meiotic recombination; required for chromosome synapsis and production of viable spores	meiotic DNA double-strand break formation	molecular_function	condensed nuclear chromosome
YDR070C	FMP16	hom	FT	MITOCHONDRION	0.00667769576097329	0.699486860333576	2040	Protein of unknown function; may be involved in responding to conditions of stress; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	mitochondrion
YKL071W_p	YKL071W	hom	FT	OXIDATION-REDUCTION PROCESS	0.00667308576858	0.699684235069943	2041	Putative protein of unknown function; expression induced in cells treated with the mycotoxin patulin, and also the quinone methide triterpene celastrol; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm	biological_process	molecular_function	integral to membrane|cytoplasm
YAL067W-A_p	YAL067W-A	hom			0.00666195235517122	0.700203685940132	2042	Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching	biological_process	molecular_function	cellular_component
YKL162C-A_d	YKL162C-A	hom			0.00665526384698798	0.700447463228079	2043	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YDR452W	PPN1	hom	FT	NUCLEUS	0.00664273343045126	0.700984262495991	2044	Vacuolar endopolyphosphatase with a role in phosphate metabolism; functions as a homodimer; relocalizes from vacuole to cytoplasm upon DNA replication stress	polyphosphate catabolic process|polyphosphate metabolic process	endopolyphosphatase activity|exopolyphosphatase activity	fungal-type vacuole membrane|nucleus
YHR079C-A	SAE3	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.006641201094576	0.701049917550558	2045	Meiosis specific protein involved in DMC1-dependent meiotic recombination, forms heterodimer with Mei5p; proposed to be an assembly factor for Dmc1p	double-strand break repair|reciprocal meiotic recombination|meiotic DNA recombinase assembly	molecular_function	condensed nuclear chromosome
YKR102W	FLO10	hom			0.0066344762502459	0.7013380792101	2046	Member of the FLO family of cell wall flocculation proteins; not expressed in most lab strains; overproduction induces flocculation that can be inhibited by mannose, sucrose, or glucose; overproduction also promotes haploid invasive growth and diploid filamentous growth	filamentous growth of a population of unicellular organisms|flocculation via cell wall protein-carbohydrate interaction|flocculation|invasive growth in response to glucose limitation	mannose binding	fungal-type cell wall
YIL014W	MNT3	hom	FT	CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.00663039993957619	0.701512771291239	2047	Alpha-1,3-mannosyltransferase, adds the fourth and fifth alpha-1,3-linked mannose residues to O-linked glycans during protein O-glycosylation	protein O-linked glycosylation	alpha-1,3-mannosyltransferase activity	cellular_component
YGL157W	ARI1	hom	FT	OXIDATION-REDUCTION PROCESS|NUCLEUS	0.0066233794717814	0.701813673483483	2048	NADPH-dependent aldehyde reductase, utilizes aromatic and alophatic aldehyde substrates; member of the short-chain dehydrogenase/reductase superfamily	biological_process	oxidoreductase activity|carbonyl reductase (NADPH) activity	nucleus|cytoplasm
YNL107W	YAF9	hom	FF|FT	CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|CHROMOSOME|HISTONE ACETYLTRANSFERASE	0.00661910961017429	0.701996705618231	2049	Subunit of both the NuA4 histone H4 acetyltransferase complex and the SWR1 complex, may function to antagonize silencing near telomeres; interacts directly with Swc4p, has homology to human leukemogenic protein AF9, contains a YEATS domain	DNA repair|chromatin remodeling|histone exchange|chromatin silencing at telomere	molecular_function	Swr1 complex|nucleus|NuA4 histone acetyltransferase complex|cytoplasm
YPL064C	CWC27	hom	FT	RNA PROCESSING|NUCLEUS	0.00661831048786648	0.702030962761177	2050	Component of a complex containing Cef1p; putatively involved in pre-mRNA splicing; has similarity to S. pombe Cwf27p; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	U2-type spliceosomal complex
YCL064C	CHA1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|MITOCHONDRION	0.0066174715720551	0.702066926441479	2051	Catabolic L-serine (L-threonine) deaminase, catalyzes the degradation of both L-serine and L-threonine; required to use serine or threonine as the sole nitrogen source, transcriptionally induced by serine and threonine	threonine catabolic process|L-serine catabolic process	L-threonine ammonia-lyase activity|L-serine ammonia-lyase activity	mitochondrial nucleoid|mitochondrion
YPL258C	THI21	hom			0.00661649443120019	0.702108816564598	2052	Hydroxymethylpyrimidine (HMP) and HMP-phosphate kinase; involved in thiamine biosynthesis; member of a gene family with THI20 and THI22; functionally redundant with Thi20p	thiamine biosynthetic process	phosphomethylpyrimidine kinase activity|hydroxymethylpyrimidine kinase activity	cellular_component
YKL058W	TOA2	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.00658675875191779	0.70342630371725	2053	TFIIA small subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; homologous to smallest subunit of human and Drosophila TFIIA; protein abundance increases in response to DNA replication stress	transcription initiation from RNA polymerase II promoter|RNA polymerase II transcriptional preinitiation complex assembly	TBP-class protein binding|TBP-class protein binding RNA polymerase II transcription factor activity involved in preinitiation complex assembly|TBP-class protein binding RNA polymerase II transcription factor activity	transcription factor TFIIA complex
YER014C-A	BUD25	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CELL DIVISION	0.006586500905498	0.703395081416389	2054	Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern	cellular bud site selection	molecular_function	cellular_component
YNL325C	FIG4	hom	FT	LIPID METABOLISM	0.00655208962838049	0.704871846048925	2055	Phosphatidylinositol 3,5-bisphosphate (PtdIns[3,5]P) phosphatase; required for efficient mating and response to osmotic shock; physically associates with and regulated by Vac14p; contains a SAC1-like domain	phosphatidylinositol dephosphorylation	phosphatidylinositol-3,5-bisphosphate 5-phosphatase activity	fungal-type vacuole membrane|PAS complex|extrinsic to membrane
YER135C_d	YER135C	hom			0.00655052737686339	0.704938916723974	2056	Dubious open reading frame unlikely to encode a protein; YER135C is not an essential gene	Unknown	Unknown	Unknown
YOR067C	ALG8	hom	FF|FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00650409750692766	0.70693329118173	2057	Glucosyl transferase, involved in N-linked glycosylation; adds glucose to the dolichol-linked oligosaccharide precursor prior to transfer to protein during lipid-linked oligosaccharide biosynthesis; similar to Alg6p	oligosaccharide-lipid intermediate biosynthetic process|protein N-linked glycosylation	dolichyl pyrophosphate Glc1Man9GlcNAc2 alpha-1,3-glucosyltransferase activity	integral to membrane|endoplasmic reticulum membrane
YNL308C	KRI1	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00649839673960071	0.707178304092881	2058	Essential nucleolar protein required for 40S ribosome biogenesis; associate with snR30; physically and functionally interacts with Krr1p	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	nucleolus
YDL205C	HEM3	het	FT	COFACTOR METABOLISM|NUCLEUS	0.00648865839634141	0.707596917841429	2059	Porphobilinogen deaminase, catalyzes the conversion of 4-porphobilinogen to hydroxymethylbilane, the third step in heme biosynthesis; localizes to the cytoplasm and nucleus; expression is regulated by Hap2p-Hap3p, but not by levels of heme	heme biosynthetic process	hydroxymethylbilane synthase activity	nucleus|cytoplasm
YOL059W	GPD2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|COFACTOR METABOLISM|MITOCHONDRION	0.00646217038511897	0.709110606999193	2060	NAD-dependent glycerol 3-phosphate dehydrogenase, homolog of Gpd1p, expression is controlled by an oxygen-independent signaling pathway required to regulate metabolism under anoxic conditions; located in cytosol and mitochondria; constitutively active but is inactivated via phosphorylation by energy-stress responsive kinase SNF1	NADH oxidation|glycerol metabolic process	glycerol-3-phosphate dehydrogenase [NAD+] activity	cytosol|mitochondrion
YLR108C	YLR108C	hom	FT	NUCLEUS	0.0064573007660847	0.708945460982058	2061	Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YLR108C is not an esssential gene; protein abundance increases in response to DNA replication stress; YLR108C has a paralog, YDR132C, that arose from the whole genome duplication	biological_process	molecular_function	nucleus
YHR083W	SAM35	het	FT	PROTEIN LOCALIZATION|PROTEIN COMPLEX ORG/BIOGENESIS|MEMBRANE ORGANIZATION|MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00645003186389214	0.709258192432264	2062	Essential component of the sorting and assembly machinery (SAM complex or TOB complex) of the mitochondrial outer membrane, which binds precursors of beta-barrel proteins and facilitates their insertion into the outer membrane	mitochondrial outer membrane translocase complex assembly|protein import into mitochondrial outer membrane	molecular_function	mitochondrial outer membrane|mitochondrial sorting and assembly machinery complex|mitochondrion
YHR141C	RPL42B	hom	FT	TRANSLATION|RIBOSOME	0.00644669125956032	0.709401932358234	2063	Ribosomal 60S subunit protein L42B; required for propagation of the killer toxin-encoding M1 double-stranded RNA satellite of the L-A double-stranded RNA virus; homologous to mammalian ribosomal protein L36A, no bacterial homolog; RPL42B has a paralog, RPL42A, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YLR009W	RLP24	het	FF|FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|NUCLEUS	0.00644098675450588	0.709896391625274	2064	Essential protein required for ribosomal large subunit biogenesis; associated with pre-60S ribosomal subunits; stimulates the ATPase activity of Afg2p, which is required for release of Rlp24p from the pre-60S particle; has similarity to Rpl24Ap and Rpl24Bp	ribosomal large subunit biogenesis	molecular_function	nucleolus|preribosome, large subunit precursor
YNL009W	IDP3	hom	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|NUCLEOTIDE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.00643249398278874	0.710137247155221	2065	Peroxisomal NADP-dependent isocitrate dehydrogenase; catalyzes oxidation of isocitrate to alpha-ketoglutarate with the formation of NADP(H+), required for growth on unsaturated fatty acids; IDP3 has a paralog, IDP2, that arose from the whole genome duplication	NADPH regeneration|fatty acid beta-oxidation|isocitrate metabolic process	isocitrate dehydrogenase (NADP+) activity	mitochondrion|peroxisome|cytoplasm
YML027W	YOX1	hom	FT	TRANSCRIPTION FROM RNA POL II|CELL CYCLE|NUCLEUS|CHROMOSOME	0.00642324406858181	0.710411111640763	2066	Homeobox transcriptional repressor; binds to Mcm1p and to early cell cycle boxes (ECBs) in the promoters of cell cycle-regulated genes expressed in M/G1 phase; expression is cell cycle-regulated; potential Cdc28p substrate; relocalizes from nucleus to cytoplasm upon DNA replication stress; YOX1 has a paralog, YHP1, that arose from the whole genome duplication	negative regulation of transcription involved in G1 phase of mitotic cell cycle	RNA polymerase II regulatory region sequence-specific DNA binding|sequence-specific DNA binding|RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription	nuclear chromatin|nucleus
YOL090W	MSH2	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|CHROMOSOME	0.0064170474679529	0.71080196139804	2067	Protein that forms heterodimers with Msh3p and Msh6p that bind to DNA mismatches to initiate the mismatch repair process; contains a Walker ATP-binding motif required for repair activity and involved in interstrand cross-link repair; Msh2p-Msh6p binds to and hydrolyzes ATP	mismatch repair|mitotic recombination|meiotic gene conversion|meiotic mismatch repair|removal of nonhomologous ends|DNA recombination|chromatin silencing at silent mating-type cassette	loop DNA binding|single base insertion or deletion binding|ATP binding|Y-form DNA binding|double-strand/single-strand DNA junction binding|DNA insertion or deletion binding|guanine/thymine mispair binding|four-way junction DNA binding|ATPase activity	MutSbeta complex|nuclear chromosome|MutSalpha complex|nucleus
YLR012C_p	YLR012C	hom			0.00641490868020858	0.710976735870081	2068	Putative protein of unknown function; YLR012C is not an essential gene	biological_process	molecular_function	cellular_component
YGR024C	THG1	het	FT	RNA PROCESSING|NUCLEUS	0.00641177795810517	0.710904803969286	2069	tRNAHis guanylyltransferase, adds a guanosine residue to the 5' end of tRNAHis after transcription and RNase P cleavage; couples nuclear division and migration to cell budding and cytokinesis; essential enzyme conserved among eukaryotes	tRNA modification	tRNA guanylyltransferase activity	nucleus|cytoplasm
YBR192W	RIM2	het	FF|FT	ION HOMEOSTASIS|MITOCHONDRION ORGANIZATION|ION HOMEOSTASIS|MITOCHONDRION	0.00640749419807502	0.711089279454763	2070	Mitochondrial pyrimidine nucleotide transporter; imports pyrimidine nucleoside triphosphates and exports pyrimidine nucleoside monophosphates; member of the mitochondrial carrier family	pyrimidine nucleotide transport|mitochondrial genome maintenance|transmembrane transport	pyrimidine nucleotide transmembrane transporter activity|transporter activity	mitochondrion|integral to membrane
YDL166C	FAP7	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS	0.00639631057909204	0.711570969585085	2071	Essential NTPase required for small ribosome subunit synthesis, mediates processing of the 20S pre-rRNA at site D in the cytoplasm but associates only transiently with 43S preribosomes via Rps14p, may be the endonuclease for site D	cellular response to oxidative stress|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|ribosomal small subunit export from nucleus	nucleoside-triphosphatase activity	nucleus|preribosome|cytoplasm
YMR218C	TRS130	het	FT	VESICLE-MEDIATED TRANSPORT|SIGNALING|NUCLEOTIDE METABOLISM|GOLGI APPARATUS	0.00638941404972271	0.712074100629457	2072	One of 10 subunits of the transport protein particle (TRAPP) complex of the cis-Golgi which mediates vesicle docking and fusion; involved in ER to Golgi membrane traffic; mutation activates transcription of OCH1; mutants are defective in cytoplasm-to-vacuole targeting (Cvt) pathway and starvation-induced autophagy	regulation of Rab GTPase activity|early endosome to Golgi transport|intra-Golgi vesicle-mediated transport	Rab guanyl-nucleotide exchange factor activity	TRAPP complex|trans-Golgi network|early endosome
YGR143W	SKN1	hom	FT	LIPID METABOLISM|CELL WALL ORG/BIOGENESIS|CARBOHYDRATE METABOLISM	0.00637265738290746	0.71259011636013	2073	Protein involved in sphingolipid biosynthesis; type II membrane protein with similarity to Kre6p	fungal-type cell wall organization|(1->6)-beta-D-glucan biosynthetic process|sphingolipid biosynthetic process	glucosidase activity	integral to membrane
YLR215C	CDC123	het	FT	CELL CYCLE|TRANSLATION|CELL DIVISION	0.00636305607339003	0.713045000817948	2074	Protein involved in nutritional control of the cell cycle; regulates abundance of the translation initiation factor eIF2; ortholog of human D123 protein	regulation of mitotic cell cycle|regulation of translation	molecular_function	cytoplasm
YDR326C	YSP2	hom	FT	MITOCHONDRION	0.00634197193363673	0.713913026837324	2075	Protein involved in programmed cell death; mutant shows resistance to cell death induced by amiodarone or intracellular acidification; YSP2 has a paralog, YHR080C, that arose from the whole genome duplication	apoptotic process	molecular_function	mitochondrion
YGL201C	MCM6	het	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|NUCLEUS|CHROMOSOME	0.00631579141625509	0.715083182541022	2076	Protein involved in DNA replication; component of the Mcm2-7 hexameric complex that binds chromatin as a part of the pre-replicative complex; forms a subcomplex with Mcm4p and Mcm7p	S phase of mitotic cell cycle|DNA strand elongation involved in DNA replication|DNA unwinding involved in replication|double-strand break repair via break-induced replication|pre-replicative complex assembly|DNA replication initiation	four-way junction helicase activity|DNA helicase activity|DNA replication origin binding|single-stranded DNA-dependent ATPase activity|ATP-dependent 3'-5' DNA helicase activity	replication fork protection complex|DNA replication preinitiation complex|nucleus|pre-replicative complex|cytoplasm|MCM complex
YKL119C	VPH2	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|ION HOMEOSTASIS|ION HOMEOSTASIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.0062828732565458	0.716463308365186	2077	Integral membrane protein required for vacuolar H+-ATPase (V-ATPase) function, although not an actual component of the V-ATPase complex; functions in the assembly of the V-ATPase; localized to the endoplasmic reticulum (ER)	vacuolar proton-transporting V-type ATPase complex assembly|vacuolar acidification	molecular_function	endoplasmic reticulum membrane
YLR233C	EST1	hom	FT	NUCLEUS|CHROMOSOME	0.00627713812971629	0.716710964817185	2078	TLC1 RNA-associated factor involved in telomere length regulation as recruitment subunit of telomerase; has G-quadruplex promoting activity that is required for telomere elongation; possible role in activating telomere-bound Est2p-TLC1-RNA	telomere maintenance via telomerase|telomere maintenance|G-quadruplex DNA formation	single-stranded DNA binding|RNA binding|telomeric DNA binding	nucleolus|nucleus|telomerase holoenzyme complex
YGL150C	INO80	het	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|GENE SILENCING|NUCLEUS|CHROMOSOME	0.00627269695481165	0.716902765801321	2079	ATPase and nucleosome spacing factor, subunit of complex containing actin and actin-related proteins that has chromatin remodeling activity and 3' to 5' DNA helicase activity in vitro; has a role in modulating stress gene transcription	nucleosome positioning|histone exchange|transcription from RNA polymerase II promoter|DNA repair|nucleosome mobilization|chromatin remodeling|chromatin silencing at telomere|regulation of transcription from RNA polymerase II promoter in response to stress|positive regulation of transcription from RNA polymerase II promoter	ATPase activity|ATP-dependent 3'-5' DNA helicase activity	Ino80 complex
YHR015W	MIP6	hom	FT	RNA LOCALIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|NUCLEAR PORE	0.00626504829365241	0.717233130299409	2080	Putative RNA-binding protein; interacts with Mex67p, which is a component of the nuclear pore involved in nuclear mRNA export; MIP6 has a paralog, PES4, that arose from the whole genome duplication	mRNA export from nucleus	RNA binding	nuclear pore
YBR172C	SMY2	hom	FT	VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00624804586342915	0.717967696449732	2081	Protein of unknown function involved in COPII vesicle formation; interacts with the Sec23p/Sec24p subcomplex; overexpression suppresses the temperature sensitivity of a myo2 mutant; similar to S. pombe Mpd2; SMY2 has a paralog, SYH1, that arose from the whole genome duplication	ER to Golgi vesicle-mediated transport	molecular_function	endoplasmic reticulum membrane|cytoplasmic mRNA processing body|cytoplasm|extrinsic to membrane
YDR383C	NKP1	hom	FT	CELL CYCLE|CELL DIVISION|NUCLEUS|CHROMOSOME|KINETOCHORE	0.00623065888339944	0.718719146132474	2082	Central kinetochore protein and subunit of the Ctf19 complex; mutants have elevated rates of chromosome loss; orthologous to fission yeast kinetochore protein fta4	biological_process	molecular_function	kinetochore
YER151C	UBP3	hom	FT	VESICLE-MEDIATED TRANSPORT|PROTEOLYSIS	0.00622791921208608	0.718837577088659	2083	Ubiquitin-specific protease involved in transport and osmotic response; interacts with Bre5p to co-regulate anterograde and retrograde transport between the ER and Golgi; involved in transcription elongation in response to osmostress through phosphorylation at Ser695 by Hog1p; inhibitor of gene silencing; cleaves ubiquitin fusions but not polyubiquitin; also has mRNA binding activity; protein abundance increases in response to DNA replication stress	protein deubiquitination|ribophagy|regulation of ER to Golgi vesicle-mediated transport|regulation of response to osmotic stress	ubiquitin-specific protease activity|mRNA binding	cytoplasm
YAL002W	VPS8	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.00618980322454756	0.720606200709043	2084	Membrane-binding component of the CORVET complex; involved in endosomal vesicle tethering and fusion in the endosome to vacuole protein targeting pathway; interacts with Vps21p; contains RING finger motif	late endosome to vacuole transport via multivesicular body sorting pathway|protein targeting to vacuole	GTPase binding|protein anchor	late endosome|membrane|CORVET complex
YER131W	RPS26B	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RNA LOCALIZATION|RIBOSOME	0.00614988368899556	0.722213733559224	2085	Protein component of the small (40S) ribosomal subunit; homologous to mammalian ribosomal protein S26, no bacterial homolog; RPS26B has a paralog, RPS26A, that arose from the whole genome duplication	cytoplasmic translation|rRNA export from nucleus	structural constituent of ribosome	cytosolic small ribosomal subunit
YMR227C	TAF7	het	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|RNA POL II, HOLOENZYME	0.00614516455434419	0.722418078145879	2086	TFIID subunit (67 kDa), involved in RNA polymerase II transcription initiation	RNA polymerase II transcriptional preinitiation complex assembly|transcription from RNA polymerase II promoter	RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity involved in preinitiation complex assembly	nucleus|transcription factor TFIID complex
YDR386W	MUS81	hom	FT	CELL CYCLE|RESPONSE TO DNA DAMAGE|CHROMOSOME SEGREGATION|NUCLEUS	0.00613882561562921	0.722692593476731	2087	Subunit of the structure-specific Mms4p-Mus81p endonuclease that cleaves branched DNA; involved in DNA repair, replication fork stability, and joint molecule formation/resolution during meiotic recombination; helix-hairpin-helix protein; phosphorylation of the non-catalytic subunit Mms4p by Cdc28p and Cdcp during mitotic cell cycle activates the function of Mms4p-Mus81p	DNA repair|DNA topological change|reciprocal meiotic recombination|resolution of meiotic recombination intermediates|response to DNA damage stimulus	crossover junction endodeoxyribonuclease activity|endonuclease activity	Holliday junction resolvase complex|nucleus
YDR415C_p	YDR415C	hom	FT	PROTEOLYSIS	0.00612177975417077	0.723430961816844	2088	Putative aminopeptidase	biological_process	molecular_function	cellular_component
YDL138W	RGT2	hom	FT	SIGNALING|PLASMA MEMBRANE	0.00609037897751966	0.724791809280236	2089	Plasma membrane high glucose sensor that regulates glucose transport; contains 12 predicted transmembrane segments and a long C-terminal tail required for induction of hexose transporters; RGT2 has a paralog, SNF3, that arose from the whole genome duplication	glucose transport|signal transduction|detection of glucose	glucose transmembrane transporter activity|receptor activity|glucose binding	integral to membrane|plasma membrane
YAL049C	AIM2	hom			0.00606516257770637	0.725885267817021	2090	Cytoplasmic protein involved in mitochondrial function or organization; null mutant displays reduced frequency of mitochondrial genome loss; potential Hsp82p interactor	biological_process	molecular_function	cytoplasm
YGL223C	COG1	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|VACUOLAR TRANSPORT|ENDOMEMBRANE SYSTEM|GOLGI APPARATUS	0.00606411306960739	0.726206454355234	2091	Essential component of the conserved oligomeric Golgi complex (Cog1p through Cog8p), a cytosolic tethering complex that functions in protein trafficking to mediate fusion of transport vesicles to Golgi compartments	retrograde transport, vesicle recycling within Golgi|intra-Golgi vesicle-mediated transport|CVT pathway	molecular_function	Golgi transport complex
YLR194C	YLR194C	hom	FT	CELL WALL ORG/BIOGENESIS|PLASMA MEMBRANE	0.00605823662435546	0.726382398543791	2092	Structural constituent of the cell wall attached to the plasma membrane by a GPI-anchor; expression is upregulated in response to cell wall stress	fungal-type cell wall organization	structural constituent of cell wall	fungal-type cell wall|anchored to plasma membrane
YHR132C	ECM14	hom	FT	CELL WALL ORG/BIOGENESIS|PROTEOLYSIS	0.00605015377349547	0.72653635984689	2093	Putative metalloprotease with similarity to the zinc carboxypeptidase family, required for normal cell wall assembly	fungal-type cell wall organization|proteolysis	metalloendopeptidase activity	fungal-type vacuole
YGR281W	YOR1	hom	FT	NUCLEOTIDE METABOLISM|PLASMA MEMBRANE	0.00603428755301552	0.727224861916993	2094	Plasma membrane ATP-binding cassette (ABC) transporter, multidrug transporter mediates export of many different organic anions including oligomycin; similar to human cystic fibrosis transmembrane receptor (CFTR)	transport|response to drug	xenobiotic-transporting ATPase activity	integral to membrane|plasma membrane
YPR162C	ORC4	het	FT	GENE SILENCING|NUCLEUS|CHROMOSOME	0.00603393891592913	0.727239993221619	2095	Subunit of the origin recognition complex, which directs DNA replication by binding to replication origins and is also involved in transcriptional silencing	pre-replicative complex assembly|DNA replication initiation|chromatin silencing at silent mating-type cassette	DNA replication origin binding	DNA replication preinitiation complex|pre-replicative complex|nuclear origin of replication recognition complex
YBL056W	PTC3	hom	FT	CELL CYCLE|SIGNALING|PROTEIN PHOSPHORYLATION|NUCLEUS	0.00603168838533572	0.727337671745095	2096	Type 2C protein phosphatase (PP2C); dephosphorylates Hog1p (see also Ptc2p) to limit maximal kinase activity induced by osmotic stress; dephosphorylates T169 phosphorylated Cdc28p (see also Ptc2p); role in DNA damage checkpoint inactivation; PTC3 has a paralog, PTC2, that arose from the whole genome duplication	inactivation of MAPK activity involved in osmosensory signaling pathway|regulation of cyclin-dependent protein kinase activity|protein dephosphorylation	protein serine/threonine phosphatase activity	nucleus|cytoplasm
YGR228W_d	YGR228W	hom			0.00602060879805209	0.727818617434773	2097	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SMI1/YGR229C	Unknown	Unknown	Unknown
YNR069C	BSC5	hom			0.00596921085432472	0.730089930885269	2098	Protein of unknown function; shows homology with N-terminal end of Bul1p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression; readthrough expression includes YNR068C and the locus for this readthrough is termed BUL3; Bul3p is involved in ubiquitin-mediated sorting of plasma membrane proteins; readthrough and shortened forms of Bul3p interact with Rsp5p differently in vitro	biological_process	molecular_function	cellular_component
YGL222C	EDC1	hom	FT	RNA PROCESSING|TRANSLATION|NUCLEUS	0.00596172457644751	0.730376473610928	2099	RNA-binding protein that activates mRNA decapping directly; binds to the mRNA substrate and enhances the activity of the decapping proteins Dcp1p and Dcp2p; has a role in translation during heat stress; protein becomes more abundant and forms cytoplasmic foci in response to DNA replication stress	deadenylation-dependent decapping of nuclear-transcribed mRNA|positive regulation of translation in response to stress	mRNA binding	nucleus|cytoplasm
YPR118W	MRI1	hom	FT	KETONE METABOLISM|AMINO ACID METABOLISM|NUCLEUS	0.00593616992142659	0.73148747085337	2100	5'-methylthioribose-1-phosphate isomerase; catalyzes the isomerization of 5-methylthioribose-1-phosphate to 5-methylthioribulose-1-phosphate in the methionine salvage pathway	L-methionine salvage from methylthioadenosine	S-methyl-5-thioribose-1-phosphate isomerase activity	nucleus|cytoplasm
YGR021W_p	YGR021W	hom	FT	MITOCHONDRION	0.00593352421020564	0.731602526242522	2101	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YKR046C	PET10	hom	FT	OXIDATION-REDUCTION PROCESS|GEN. OF PRECURSOR METABOLITES AND ENERGY	0.00591436402349519	0.732435934927488	2102	Protein of unknown function that co-purifies with lipid particles; expression pattern suggests a role in respiratory growth; computational analysis of large-scale protein-protein interaction data suggests a role in ATP/ADP exchange	aerobic respiration	molecular_function	lipid particle
YBR143C	SUP45	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|TRANSLATION|CELL DIVISION	0.00590207270571607	0.732970735297989	2103	Polypeptide release factor (eRF1) in translation termination; mutant form acts as a recessive omnipotent suppressor; methylated by Mtq2p-Trm112p in ternary complex eRF1-eRF3-GTP; mutation of methylation site confers resistance to zymocin; has a role in cytokinesis through interaction with Mlc1p	translational termination|cytokinesis	translation release factor activity, codon specific|translation release factor activity	cytosol|translation release factor complex
YOR279C	RFM1	hom	FT	GENE SILENCING|NUCLEUS	0.00590204496549677	0.732971942433185	2104	DNA-binding protein required for vegetative repression of middle sporulation genes; specificity factor that directs the Hst1p histone deacetylase to some of the promoters regulated by Sum1p; involved in telomere maintenance	chromatin silencing|chromatin silencing at silent mating-type cassette	unfolded protein binding	histone deacetylase complex|nucleus
YNL212W	VID27	hom			0.00588258583640647	0.733818882641019	2105	Cytoplasmic protein of unknown function; possibly involved in vacuolar protein degradation; not essential for proteasome-dependent degradation of fructose-1,6-bisphosphatase (FBPase); null mutants exhibit normal growth	biological_process	molecular_function	cytoplasm
YKR020W	VPS51	hom	FF|FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|CELL DIVISION|VACUOLAR TRANSPORT|GOLGI APPARATUS	0.00587441615196566	0.734251111462335	2106	Component of the GARP (Golgi-associated retrograde protein) complex, Vps51p-Vps52p-Vps53p-Vps54p, which is required for the recycling of proteins from endosomes to the late Golgi; links the (VFT/GARP) complex to the SNARE Tlg1p	vesicle organization|retrograde transport, endosome to Golgi|budding cell apical bud growth|regulation of cell size|protein targeting to vacuole	protein binding	Golgi apparatus|GARP complex
YJL050W	MTR4	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|OXIDATION-REDUCTION PROCESS|RNA LOCALIZATION|NUCLEUS	0.00586269958971004	0.734684747357122	2107	ATP-dependent 3'-5' RNA helicase of the DExD/H family; involved in nuclear RNA processing and degradation both as a component of TRAMP complex and in TRAMP-independent processes; TRAMP unwinds RNA duplexes, with Mtr4p unwinding activity stimulated by Pap2p/Air2p but not dependent on ongoing polyadenylation; contains an arch domain, with two coiled-coil arms/stalks and a globular fist/KOW domain, which has RNA binding activity and is required for 5.8S rRNA processing	U5 snRNA 3'-end processing|nuclear polyadenylation-dependent tRNA catabolic process|nuclear polyadenylation-dependent rRNA catabolic process|ncRNA polyadenylation|nuclear polyadenylation-dependent mRNA catabolic process|U4 snRNA 3'-end processing|nuclear mRNA surveillance of mRNA 3'-end processing|nuclear retention of pre-mRNA with aberrant 3'-ends at the site of transcription|rRNA catabolic process|polyadenylation-dependent snoRNA 3'-end processing|exonucleolytic trimming to generate mature 3'-end of 5.8S rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	ATP-dependent 3'-5' RNA helicase activity|poly(A) RNA binding	nucleolus|nucleus|TRAMP complex
YPR134W	MSS18	hom	FT	RNA PROCESSING|MITOCHONDRION	0.00584572995858819	0.735461995294852	2108	Nuclear encoded protein needed for efficient splicing of mitochondrial COX1 aI5beta intron; mss18 mutations block cleavage of 5' exon - intron junction; phenotype of intronless strain suggests additional functions	Group I intron splicing	molecular_function	mitochondrion
YOR223W	YOR223W	hom	FT	ENDOPLASMIC RETICULUM	0.00582114336939364	0.736495229362272	2109	Subunit of the DSC ubiquitin ligase complex; protein of unknown function that localizes to the ER and vacuole lumen; overexpression affects endocytic protein trafficking; ortholog of fission yeast dsc3	biological_process	molecular_function	fungal-type vacuole lumen|endoplasmic reticulum
YNL094W	APP1	hom	FT	CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.00579855010161533	0.737480166131186	2110	Phosphatidate phosphatase, converts phosphatidate to diacylglycerol; App1p, Pah1p, Dpp1p, and Lpp1p are responsible for all the phosphatidate phosphatase activity; component of cortical actin patches; interacts with components of endocytic pathway	actin cytoskeleton organization	molecular_function	actin cytoskeleton|actin cortical patch
YMR018W_p	YMR018W	hom	FT	PROTEIN LOCALIZATION|PEROXISOME ORGANIZATION	0.00579140426886579	0.737791773219805	2111	Putative protein of unknown function with similarity to human PEX5Rp (peroxin protein 5 related protein); transcription increases during colony development similar to genes involved in peroxisome biogenesis; YMR018W is not an essential gene	biological_process	molecular_function	cellular_component
YGL014W	PUF4	hom	FT	PROTEIN LOCALIZATION|CHROMATIN ORGANIZATION|TRANSLATION|GENE SILENCING	0.00578774564613302	0.737951330822603	2112	Member of the PUF protein family, which is defined by the presence of Pumilio homology domains that confer RNA binding activity; preferentially binds mRNAs encoding nucleolar ribosomal RNA-processing factors	nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay|negative regulation of translation|protein localization|negative regulation of chromatin silencing involved in replicative cell aging	mRNA binding	cytoplasm
YIR036C_p	IRC24	hom	FT	OXIDATION-REDUCTION PROCESS	0.00578149735098806	0.738223853716192	2113	Putative benzil reductase;(GFP)-fusion protein localizes to the cytoplasm and is induced by the DNA-damaging agent MMS; sequence similarity with short-chain dehydrogenase/reductases; null mutant has increased spontaneous Rad52p foci	biological_process	molecular_function	integral to membrane|cytoplasm
YGR036C	CAX4	hom	FT	LIPID METABOLISM|CARBOHYDRATE METABOLISM|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00576398929522174	0.738987652445676	2114	Dolichyl pyrophosphate (Dol-P-P) phosphatase with a luminally oriented active site in the ER, cleaves the anhydride linkage in Dol-P-P, required for Dol-P-P-linked oligosaccharide intermediate synthesis and protein N-glycosylation	lipid biosynthetic process|protein N-linked glycosylation	dolichyldiphosphatase activity	integral to endoplasmic reticulum membrane|integral to membrane
YOL118C_d	YOL118C	hom			0.00575113366552387	0.739661351014431	2115	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data	Unknown	Unknown	Unknown
YJL037W	IRC18	hom			0.00572076423750761	0.740874470945055	2116	Putative protein of unknown function; expression induced in respiratory-deficient cells and in carbon-limited chemostat cultures; similar to adjacent ORF, YJL038C; null mutant displays increased levels of spontaneous Rad52p foci	biological_process	molecular_function	cellular_component
YOR117W	RPT5	het	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|PROTEOLYSIS|NUCLEUS	0.00570365455506542	0.741920205934506	2117	One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription; similar to human TBP1	positive regulation of RNA polymerase II transcriptional preinitiation complex assembly|proteasome regulatory particle assembly|ubiquitin-dependent protein catabolic process	ATPase activity	proteasome regulatory particle, base subcomplex
YER076C_p	YER076C	hom	FT	MITOCHONDRION	0.00567018494596557	0.743084288098915	2118	Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; analysis of HA-tagged protein suggests a membrane localization	biological_process	molecular_function	mitochondrion
YLR093C	NYV1	hom	FT	VESICLE-MEDIATED TRANSPORT|MEMBRANE ORGANIZATION	0.00565710676741974	0.743656021042491	2119	v-SNARE component of the vacuolar SNARE complex involved in vesicle fusion; inhibits ATP-dependent Ca(2+) transport activity of Pmc1p in the vacuolar membrane	vesicle-mediated transport|vacuole fusion, non-autophagic|vesicle fusion	SNAP receptor activity	SNARE complex|fungal-type vacuole membrane
YKL033W	TTI1	het	FT	CHROMATIN ORGANIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.00564227534893354	0.744341496637578	2120	Subunit of the ASTRA complex, involved in chromatin remodeling; telomere length regulator involved in the stability or biogenesis of PIKKs such as TORC1; similar to S. pombe Tti1p; detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	ASTRA complex|mitochondrion|cytoplasm
YLR151C	PCD1	hom	FT	NUCLEOTIDE METABOLISM	0.00561767299225807	0.74538078411599	2121	Peroxisomal pyrophosphatase with specificity for coenzyme A and CoA derivatives, may function to remove potentially toxic oxidized CoA disulfide from peroxisomes to maintain the capacity for beta-oxidation of fatty acids; nudix hydrolase family member	biological_process	pyrophosphatase activity	peroxisome
YGL102C_d	YGL102C	het			0.00561274946286227	0.745596220334564	2122	Dubious open reading frame unlikely to encode a functional protein; overlaps 3' end of essential RPL28 gene encoding a large subunit ribosomal protein	Unknown	Unknown	Unknown
YGR230W	BNS1	hom	FT	CELL CYCLE	0.00560641236014852	0.745873538785637	2123	Protein with some similarity to Spo12p; overexpression bypasses need for Spo12p, but not required for meiosis	meiosis	molecular_function	cellular_component
YER045C	ACA1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS	0.0056035230219389	0.745999990268138	2124	ATF/CREB family basic leucine zipper (bZIP) transcription factor; binds as a homodimer to the ATF/CREB consensus sequence TGACGTCA; important for carbon source utilization; target genes include GRE2 and COS8; ACA1 has a paralog, CST6, that arose from the whole genome duplication	positive regulation of transcription from RNA polymerase II promoter	sequence-specific DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus
YCL056C	PEX34	hom	FT	PEROXISOME ORGANIZATION	0.00560225870255006	0.746092016923313	2125	Peroxisomal integral membrane protein that regulates peroxisome populations; interacts with Pex11p, Pex25p, and Pex27p to control both constitutive peroxisome division and peroxisome morphology and abundance during peroxisome proliferation	peroxisome organization	molecular_function	integral to peroxisomal membrane|cytoplasm
YDR444W_p	YDR444W	hom	FT	LIPID METABOLISM	0.00558641137624499	0.746749019117043	2126	Putative hydrolase acting on ester bonds	biological_process	molecular_function	cytoplasm
YJL124C	LSM1	hom	FF|FT	RNA PROCESSING|NUCLEUS	0.00555076825165887	0.748637715578043	2127	Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs; unlike most Sm-like proteins, Lsm1p requires both its SM-domain and C-terminal domain for RNA-binding; forms cytoplasmic foci upon DNA replication stress	deadenylation-dependent decapping of nuclear-transcribed mRNA|nuclear-transcribed mRNA catabolic process, deadenylation-dependent decay	RNA binding|RNA cap binding	mRNA cap binding complex|cytoplasmic mRNA processing body|cytoplasm
YDL230W	PTP1	hom	FT	MITOCHONDRION	0.00553908522212228	0.748821872617616	2128	Phosphotyrosine-specific protein phosphatase that dephosphorylates a broad range of substrates in vivo, including Fpr3p; localized to the cytoplasm and the mitochondria; proposed to be a negative regulator of filamentation	pseudohyphal growth|invasive growth in response to glucose limitation|protein dephosphorylation	protein tyrosine phosphatase activity	mitochondrion|cytoplasm
YMR040W	YET2	hom	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM	0.00553839343768658	0.748888502400128	2129	Protein of unknown function that may interact with ribosomes, based on co-purification experiments; homolog of human BAP31 protein	biological_process	molecular_function	ribosome|integral to membrane
YJR124C_p	YJR124C	hom			0.00553570038886672	0.748970195763898	2130	Putative protein of unknown function; expression induced under calcium shortage	biological_process	molecular_function	integral to membrane
YDR090C_p	YDR090C	hom	FT	PLASMA MEMBRANE	0.00552249528514391	0.749548931149574	2131	Putative protein of unknown function	biological_process	molecular_function	integral to membrane
YNL258C	DSL1	het	FT	PROTEIN LOCALIZATION|VESICLE-MEDIATED TRANSPORT|PEROXISOME ORGANIZATION|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.00550408861581542	0.750391983350823	2132	Peripheral membrane protein needed for Golgi-to-ER retrograde traffic; forms a complex with Sec39p and Tip20p that interacts with ER SNAREs Sec20p and Use1p; component of the ER target site that interacts with coatomer; interacts with Cin5p; similar to the fly and human ZW10 gene	retrograde vesicle-mediated transport, Golgi to ER|ER-dependent peroxisome organization	molecular_function	Dsl1p complex|endoplasmic reticulum|peroxisome|nucleus
YER082C	UTP7	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00550139840172457	0.750509927804459	2133	Nucleolar protein, component of the small subunit (SSU) processome containing the U3 snoRNA that is involved in processing of pre-18S rRNA	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage in 5'-ETS of tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	molecular_function	small-subunit processome|nucleolus|90S preribosome
YFL036W	RPO41	hom	FT	MITOCHONDRION ORGANIZATION|MITOCHONDRION	0.00549137878152923	0.751057413749072	2134	Mitochondrial RNA polymerase; single subunit enzyme similar to those of T3 and T7 bacteriophages; requires a specificity subunit encoded by MTF1 for promoter recognition; Mtf1p interacts with and stabilizes the Rpo41p-promoter complex, enhancing DNA bending and melting to facilitate pre-initiation open complex formation	transcription from mitochondrial promoter|mitochondrial genome maintenance	DNA-directed RNA polymerase activity	mitochondrial nucleoid|mitochondrion|mitochondrial DNA-directed RNA polymerase complex|mitochondrial matrix
YKL141W	SDH3	het	FT	PROTEIN LOCALIZATION|MEMBRANE ORGANIZATION|OXIDATION-REDUCTION PROCESS|MITOCHONDRION ORGANIZATION|GEN. OF PRECURSOR METABOLITES AND ENERGY|COFACTOR METABOLISM|MITOCHONDRION	0.00545332663638504	0.752582657249878	2135	Subunit of both succinate dehydrogenase and of TIM22 translocase; functions as the cytochrome b subunit of succinate dehydrogenase, which couples the oxidation of succinate to the transfer of electrons to ubiquinone as part of the TCA cycle and the mitochondrial respiratory chain; also required for mitochondrial inner membrane protein import as part of the TIM22 complex	mitochondrial electron transport, succinate to ubiquinone|cellular respiration|tricarboxylic acid cycle|protein import into mitochondrial inner membrane	succinate dehydrogenase (ubiquinone) activity	mitochondrial respiratory chain complex II|mitochondrion|integral to membrane|mitochondrial inner membrane protein insertion complex
YPL221W	FLC1	hom	FT	CELL WALL ORG/BIOGENESIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|SITE OF POLARIZED GROWTH	0.00544546167370077	0.752927856261799	2136	Putative FAD transporter; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance	protein folding|fungal-type cell wall biogenesis|FAD transport	FAD transmembrane transporter activity	integral to membrane|endoplasmic reticulum|fungal-type vacuole|cellular bud neck
YMR263W	SAP30	hom	FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.00544277538641596	0.75308152296002	2137	Subunit of a histone deacetylase complex, along with Rpd3p and Sin3p, that is involved in silencing at telomeres, rDNA, and silent mating-type loci; involved in telomere maintenance	positive regulation of transcription from RNA polymerase II promoter in response to heat stress|negative regulation of chromatin silencing at silent mating-type cassette|negative regulation of transcription from RNA polymerase I promoter|negative regulation of chromatin silencing at telomere|negative regulation of chromatin silencing at rDNA|positive regulation of transcription from RNA polymerase II promoter	histone deacetylase activity	histone deacetylase complex|Rpd3L-Expanded complex|Rpd3L complex
YDL200C	MGT1	hom	FT	RESPONSE TO DNA DAMAGE|NUCLEUS	0.00542717371128481	0.75383771642264	2138	DNA repair methyltransferase (6-O-methylguanine-DNA methylase) involved in protection against DNA alkylation damage	DNA dealkylation involved in DNA repair	methylated-DNA-[protein]-cysteine S-methyltransferase activity	nucleus
YOL104C	NDJ1	hom	FT	CELL CYCLE|NUCLEUS|CHROMOSOME	0.00539962748455533	0.754940533046001	2139	Meiosis-specific telomere protein, required for bouquet formation, effective homolog pairing, ordered cross-over distribution, sister chromatid cohesion at meiotic telomeres, chromosomal segregation and telomere-led rapid prophase movement	meiotic telomere clustering|synapsis|attachment of telomeric heterochromatin to nuclear envelope|regulation of reciprocal meiotic recombination|reciprocal meiotic recombination	telomeric DNA binding	nuclear chromosome, telomeric region
YOR127W	RGA1	hom	FT	SIGNALING|CELL DIVISION|CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH|CYTOSKELETON	0.00539778800660806	0.755021343262393	2140	GTPase-activating protein for polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; relocalizes from bud neck to cytoplasm upon DNA replication stress	budding cell isotropic bud growth|pheromone-dependent signal transduction involved in conjugation with cellular fusion|pseudohyphal growth|actin filament organization|establishment of cell polarity|small GTPase mediated signal transduction|invasive growth in response to glucose limitation|budding cell apical bud growth	Rho GTPase activator activity	cellular bud neck split septin rings
YDL238C	GUD1	hom			0.00539776825784617	0.755022210860983	2141	Guanine deaminase, a catabolic enzyme of the guanine salvage pathway producing xanthine and ammonia from guanine; activity is low in exponentially-growing cultures but expression is increased in post-diauxic and stationary-phase cultures	guanine metabolic process	guanine deaminase activity|hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides	cytoplasm
YKL222C	YKL222C	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|CYTOSKELETON	0.00539197506950953	0.755276729364392	2142	Protein of unknown function that may interact with ribosomes, based on co-purification experiments; similar to transcriptional regulators from the zinc cluster (binuclear cluster) family; null mutant is sensitive to caffeine	biological_process	sequence-specific DNA binding	ribosome|nucleus|mitotic spindle
YBR259W	YBR259W	hom			0.00538920432675134	0.755398468837459	2143	Protein of unknown function; YBR259W is not an essential gene; forms cytoplasmic foci upon DNA replication stress	biological_process	molecular_function	cellular_component
YNR025C_d	YNR025C	hom			0.005381278261272	0.755782141367314	2144	Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion reduces expression of PIS1 gene encoding phosphatidylinositol synthase	Unknown	Unknown	Unknown
YKR104W	YKR104W	hom	FT	NUCLEOTIDE METABOLISM	0.00537935968631877	0.75583106668946	2145	Putative transporter of the multidrug resistance-associated protein (MRP) subfamily; contains a stop codon in S288C; adjacent ORFs YKR103W and YKR104W are merged in different strain backgrounds	transport	ATPase activity, coupled to transmembrane movement of substances	integral to membrane|membrane
YGR063C	SPT4	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|CHROMATIN ORGANIZATION|RESPONSE TO DNA DAMAGE|RNA LOCALIZATION|CHROMOSOME SEGREGATION|GENE SILENCING|NUCLEUS|CHROMOSOME	0.00535964559394964	0.756697582607298	2146	Component of the universally conserved Spt4/5 complex (DSIF complex); the complex has multiple roles in concert with RNA polymerases I and II, including regulation of transcription elongation, RNA processing, quality control, and transcription-coupled DNA repair; Spt4p also localizes to kinetochores and heterochromatin and affects chromosome dynamics and silencing; required for transcription through lengthy trinucleotide repeats in ORFs or non-protein coding regions	7-methylguanosine mRNA capping|chromosome segregation|chromatin organization|intracellular mRNA localization|positive regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription, DNA-dependent|regulation of transcription-coupled nucleotide-excision repair|chromatin silencing|mRNA splicing, via spliceosome|Unknown	core RNA polymerase I binding transcription factor activity|core RNA polymerase II binding transcription factor activity|rDNA binding	DSIF complex|nuclear telomeric heterochromatin|rDNA heterochromatin|mating-type region heterochromatin|kinetochore
YPR198W	SGE1	hom	FF|FT	PLASMA MEMBRANE	0.00535763790597762	0.756962139309948	2147	Plasma membrane multidrug transporter of the major facilitator superfamily, acts as an extrusion permease; partial multicopy suppressor of gal11 mutations	response to drug|drug transport	drug transmembrane transporter activity	integral to membrane|integral to plasma membrane
YJL108C	PRM10	hom			0.00533051479932983	0.757978561152863	2148	Pheromone-regulated protein, proposed to be involved in mating; predicted to have 5 transmembrane segments; induced by treatment with 8-methoxypsoralen and UVA irradiation	biological_process	molecular_function	integral to membrane
YOR222W	ODC2	hom	FT	MITOCHONDRION	0.0052926178276759	0.759925048991939	2149	Mitochondrial inner membrane transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for use in lysine and glutamate biosynthesis and in lysine catabolism	mitochondrial transport	dicarboxylic acid transmembrane transporter activity	mitochondrion|integral to membrane|mitochondrial inner membrane
YJR009C	TDH2	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.00528217687239608	0.760105606272525	2150	Glyceraldehyde-3-phosphate dehydrogenase, isozyme 2; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; protein abundance increases in response to DNA replication stress; TDH2 has a paralog, TDH3, that arose from the whole genome duplication	gluconeogenesis|reactive oxygen species metabolic process|glycolysis|apoptotic process	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity	mitochondrion|fungal-type cell wall|lipid particle|plasma membrane|cytoplasm
YLR149C	YLR149C	hom			0.00527459586264299	0.760439363367875	2151	Protein of unknown function; overexpression causes a cell cycle delay or arrest; null mutation results in a decrease in plasma membrane electron transport; YLR149C is not an essential gene; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	cellular_component
YLR356W	ATG33	hom	FT	MITOCHONDRION	0.00526153496111948	0.761361474012285	2152	Mitochondrial mitophagy-specific protein; required primarily for mitophagy induced at the post-log phase; not required for other types of selective autophagy or macroautophagy; conserved within fungi, but not in higher eukaryotes	mitochondrion degradation	molecular_function	mitochondrion|integral to membrane
YOR078W	BUD21	hom	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|RIBOSOME BIOGENESIS|NUCLEUS	0.00526129050788255	0.76102524486884	2153	Component of small ribosomal subunit (SSU) processosome that contains U3 snoRNA; originally isolated as bud-site selection mutant that displays a random budding pattern	endonucleolytic cleavage in ITS1 to separate SSU-rRNA from 5.8S rRNA and LSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|endonucleolytic cleavage to generate mature 5'-end of SSU-rRNA from (SSU-rRNA, 5.8S rRNA, LSU-rRNA)|maturation of SSU-rRNA from tricistronic rRNA transcript (SSU-rRNA, 5.8S rRNA, LSU-rRNA)	snoRNA binding	small-subunit processome|nucleolus|90S preribosome
YLR340W	RPP0	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RIBOSOME BIOGENESIS|TRANSLATION|RIBOSOME	0.00525420227625258	0.761857466811103	2154	Conserved ribosomal protein P0 of the ribosomal stalk; involved in interaction between translational elongation factors and the ribosome; phosphorylated on serine 302; homologous to mammalian ribosomal protein LP0 and bacterial L10	translational elongation|cytoplasmic translation|ribosomal large subunit assembly	structural constituent of ribosome|LSU rRNA binding	cytosolic large ribosomal subunit|preribosome, large subunit precursor|90S preribosome|cytoplasm
YBR244W	GPX2	hom	FT	OXIDATION-REDUCTION PROCESS|RESPONSE TO OXIDATIVE STRESS|NUCLEUS|MITOCHONDRION	0.00523196704383738	0.762316943231507	2155	Phospholipid hydroperoxide glutathione peroxidase; protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress; induced by glucose starvation; protein abundance increases in response to DNA replication stress	cellular response to oxidative stress	phospholipid-hydroperoxide glutathione peroxidase activity|glutathione peroxidase activity	extrinsic to mitochondrial inner membrane|extrinsic to mitochondrial outer membrane|nucleus|cytoplasm
YNL190W_p	YNL190W	hom			0.00522395416779808	0.762670025678966	2156	Hydrophilin essential in dessication-rehydration process; cell wall protein; contains a putative GPI-attachment site	cellular response to water deprivation	molecular_function	fungal-type cell wall
YJL052W	TDH1	hom	FT	OXIDATION-REDUCTION PROCESS|CARBOHYDRATE METABOLISM|GEN. OF PRECURSOR METABOLITES AND ENERGY|MITOCHONDRION	0.00521784548841992	0.763008064249589	2157	Glyceraldehyde-3-phosphate dehydrogenase, isozyme 1; involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell wall; protein abundance increases in response to DNA replication stress	gluconeogenesis|glycolysis	glyceraldehyde-3-phosphate dehydrogenase (NAD+) (phosphorylating) activity	mitochondrion|fungal-type cell wall|lipid particle|plasma membrane|cytoplasm
YLR140W_d	YLR140W	het			0.00520374996843165	0.76356053030428	2158	Dubious open reading frame unlikely to encode a functional protein; overlaps essential RRN5 gene which encodes a member of the UAF transcription factor involved in transcription of rDNA by RNA polymerase I	Unknown	Unknown	Unknown
YBR108W	AIM3	hom	FT	CYTOSKELETON ORGANIZATION|CYTOSKELETON	0.00520296575244913	0.763595101112657	2159	Protein interacting with Rvs167p; null mutant is viable and displays elevated frequency of mitochondrial genome loss	actin cortical patch assembly	molecular_function	membrane raft|actin cortical patch
YGR130C	YGR130C	hom			0.00519842449300403	0.763898208144973	2160	Component of the eisosome with unknown function; GFP-fusion protein localizes to the cytoplasm; specifically phosphorylated in vitro by mammalian diphosphoinositol pentakisphosphate (IP7)	biological_process	molecular_function	eisosome|membrane raft|cytoplasm
YCR030C	SYP1	hom	FT	CYTOSKELETON ORGANIZATION|SITE OF POLARIZED GROWTH	0.00519816210306604	0.763806871986208	2161	Protein of unknown function that is involved in endocytic site formation; may regulate assembly and disassembly of the septin ring; colocalizes and interacts with septin subunits; potential role in actin cytoskeletal organization	septin cytoskeleton organization|actin cortical patch assembly	molecular_function	mating projection base|mating projection tip|cellular bud neck|cellular bud tip
YBR265W	TSC10	het	FT	KETONE METABOLISM|LIPID METABOLISM|OXIDATION-REDUCTION PROCESS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION	0.0051940017945768	0.763990295183445	2162	3-ketosphinganine reductase, catalyzes the second step in phytosphingosine synthesis, essential for growth in the absence of exogenous dihydrosphingosine or phytosphingosine, member of short chain dehydrogenase/reductase protein family	3-keto-sphinganine metabolic process|sphingolipid biosynthetic process	oxidoreductase activity, acting on NADH or NADPH	mitochondrial outer membrane|endoplasmic reticulum|cytoplasm
YER155C	BEM2	hom	FT	SIGNALING|CELL WALL ORG/BIOGENESIS|CYTOSKELETON ORGANIZATION|MITOCHONDRION|SITE OF POLARIZED GROWTH|PLASMA MEMBRANE	0.00519023499802698	0.764156380313815	2163	Rho GTPase activating protein (RhoGAP) involved in the control of cytoskeleton organization and cellular morphogenesis; required for bud emergence	negative regulation of Rho protein signal transduction|fungal-type cell wall organization|establishment of cell polarity|actin cytoskeleton organization	Rho GTPase activator activity	cell cortex|incipient cellular bud site|mitochondrion|plasma membrane|mating projection tip|cytoplasm|cellular bud tip
YML013W	UBX2	hom	FF|FT	PROTEOLYSIS|ENDOMEMBRANE SYSTEM|ENDOPLASMIC RETICULUM|MITOCHONDRION|UBIQUITIN LIGASE COMPLEX	0.00517655456676472	0.7647596673793	2164	Bridging factor involved in ER-associated protein degradation (ERAD); bridges the cytosolic Cdc48p-Npl1p-Ufd1p ATPase complex and the membrane associated Ssm4p and Hrd1p ubiquitin ligase complexes; contains a UBX (ubiquitin regulatory X) domain and a ubiquitin-associated (UBA) domain; redistributes from the ER to lipid droplets during the diauxic shift and stationary phase; required for the maintenance of lipid homeostasis	proteasomal ubiquitin-dependent protein catabolic process|ER-associated protein catabolic process|lipid particle organization	protein binding, bridging	mitochondrial outer membrane|Doa10p ubiquitin ligase complex|integral to endoplasmic reticulum membrane|lipid particle|endoplasmic reticulum
YIR030C	DCG1	hom			0.0051745680581915	0.764847281384556	2165	Protein of unknown function, expression is sensitive to nitrogen catabolite repression and regulated by Dal80p; contains transmembrane domain	nitrogen compound metabolic process	molecular_function	cellular_component
YOR152C_p	YOR152C	hom			0.00516442905071083	0.76529450426946	2166	Putative protein of unknown function; YOR152C is not an essential gene	biological_process	molecular_function	membrane
YGR236C	SPG1	hom	FT	MITOCHONDRION	0.00515842261419616	0.765559479914741	2167	Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies	biological_process	molecular_function	mitochondrion
YDR532C	KRE28	hom	FT	ENDOMEMBRANE SYSTEM|NUCLEUS|CHROMOSOME|CYTOSKELETON|KINETOCHORE	0.00514720674936149	0.766054344355165	2168	Subunit of a kinetochore-microtubule binding complex with Spc105p that bridges centromeric heterochromatin and kinetochore MAPs and motors, and is also required for sister chromatid bi-orientation and kinetochore binding of SAC components	biological_process	molecular_function	chromosome, centromeric region|condensed nuclear chromosome kinetochore|spindle pole body
YDR191W	HST4	hom	FT	KETONE METABOLISM|LIPID METABOLISM|CHROMATIN ORGANIZATION|GENE SILENCING|NUCLEUS	0.00514178682209293	0.766293515657009	2169	Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst3p in silencing at telomeres, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism	short-chain fatty acid metabolic process|chromatin silencing at telomere|histone deacetylation	histone deacetylase activity|DNA binding	nucleus|cytoplasm
YFR031C-A	RPL2A	hom	FT	TRANSLATION|RIBOSOME	0.00512341276554388	0.767206044629207	2170	Ribosomal 60S subunit protein L2A; homologous to mammalian ribosomal protein L2 and bacterial L2; RPL2A has a paralog, RPL2B, that arose from the whole genome duplication	cytoplasmic translation	structural constituent of ribosome	cytosolic large ribosomal subunit
YER180C-A	SLO1	hom	FT	PROTEIN LOCALIZATION	0.00511775332730189	0.767354336995888	2171	Protein interacting with Arl3p, which is a GTPase of the Ras superfamily involved in vesicle-tethering at the Golgi; putative ortholog of human SCOCO	intracellular protein transport	small GTPase regulator activity	cytoplasm
YER020W	GPA2	hom	FT	SIGNALING|NUCLEOTIDE METABOLISM|MITOCHONDRION|PLASMA MEMBRANE	0.00511363411761942	0.767536199786411	2172	Nucleotide binding alpha subunit of the heterotrimeric G protein that interacts with the receptor Gpr1p, has signaling role in response to nutrients; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery	adenylate cyclase-activating G-protein coupled receptor signaling pathway|ascospore formation|replicative cell aging|signal transduction|glucose mediated signaling pathway|pseudohyphal growth|hexose mediated signaling|regulation of cell size	GTPase activity	mitochondrion|plasma membrane
YPR133C	SPN1	het	FF|FT	TRANSCRIPTION FROM RNA POL II|CHROMATIN ORGANIZATION|RNA LOCALIZATION|NUCLEUS	0.00511344535172557	0.76754453409279	2173	Protein involved in RNA polymerase II transcription; interacts genetically or physically with RNAP II, TBP, TFIIS, and chromatin remodelling factors; central domain highly conserved throughout eukaryotes; mutations confer an Spt- phenotype	poly(A)+ mRNA export from nucleus|regulation of transcription elongation from RNA polymerase II promoter|regulation of transcription by chromatin organization|regulation of transcription from RNA polymerase II promoter	core RNA polymerase II binding transcription factor activity|RNA polymerase II transcription factor binding transcription factor activity	nucleus
YOR302W	YOR302W	hom	FT	TRANSLATION	0.00509886702337064	0.76818827095317	2174	CPA1 uORF, Arginine attenuator peptide, regulates translation of the CPA1 mRNA	regulation of translation	translation regulator activity	cytosol
YMR021C	MAC1	hom	FF|FT	TRANSCRIPTION FROM RNA POL II|ION HOMEOSTASIS|ION HOMEOSTASIS|NUCLEUS	0.00509373978822501	0.768414712860152	2175	Copper-sensing transcription factor involved in regulation of genes required for high affinity copper transport	cellular copper ion homeostasis|positive regulation of protein catabolic process|positive regulation of transcription from RNA polymerase II promoter	core promoter proximal region DNA binding|RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	nucleus
YGL151W	NUT1	hom	FT	TRANSCRIPTION FROM RNA POL II|NUCLEUS|MITOCHONDRION	0.00508130000149856	0.768964192206212	2176	Component of the RNA polymerase II mediator complex, which is required for transcriptional activation and also has a role in basal transcription	regulation of transcription from RNA polymerase II promoter|transcription from RNA polymerase II promoter	molecular_function	mitochondrion|mediator complex|nucleus
YOR173W	DCS2	hom			0.00506971441647234	0.769476044855266	2177	Non-essential, stress induced regulatory protein; modulates m7G-oligoribonucleotide metabolism; inhibits Dcs1p; regulated by Msn2p, Msn4p, and the Ras-cAMP-cAPK signaling pathway; mutant has increased aneuploidy tolerance	deadenylation-dependent decapping of nuclear-transcribed mRNA	m7G(5')pppN diphosphatase activity	cytoplasmic mRNA processing body|cytoplasm
YBR237W	PRP5	het	FT	PROTEIN COMPLEX ORG/BIOGENESIS|RNA PROCESSING|NUCLEUS	0.00503361164561102	0.771071713075413	2178	RNA helicase in the DEAD-box family, necessary for prespliceosome formation, bridges U1 and U2 snRNPs and enables stable U2 snRNP association with intron RNA	mRNA branch site recognition	RNA-dependent ATPase activity	spliceosomal complex
YMR295C	YMR295C	hom	FT	SITE OF POLARIZED GROWTH	0.00502158470308905	0.771636723930133	2179	Protein of unknown function that associates with ribosomes; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and bud; YMR295C is not an essential gene; protein abundance increases in response to DNA replication stress	biological_process	molecular_function	ribosome|cellular bud|mating projection tip
YKL020C	SPT23	hom	FT	TRANSCRIPTION FROM RNA POL II|KETONE METABOLISM|LIPID METABOLISM|GENE SILENCING|ENDOMEMBRANE SYSTEM|NUCLEUS|ENDOPLASMIC RETICULUM	0.0050167795855251	0.771915603692732	2180	ER membrane protein involved in regulation of OLE1 transcription, acts with homolog Mga2p; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting	cellular response to cold|positive regulation of unsaturated fatty acid biosynthetic process by positive regulation of transcription from RNA polymerase II promoter|positive regulation of transcription from RNA polymerase II promoter|chromatin silencing at silent mating-type cassette	DNA binding	integral to endoplasmic reticulum membrane|nucleus
YOR351C	MEK1	hom	FT	CELL CYCLE|PROTEIN PHOSPHORYLATION|NUCLEUS	0.00501296389987737	0.771984736874302	2181	Meiosis-specific serine/threonine protein kinase, functions in meiotic checkpoint, promotes recombination between homologous chromosomes by suppressing double strand break repair between sister chromatids	meiosis|meiotic recombination checkpoint|protein phosphorylation	protein serine/threonine kinase activity|protein kinase activity	nucleus
YLR443W	ECM7	hom	FT	ION HOMEOSTASIS|CELL WALL ORG/BIOGENESIS|ION HOMEOSTASIS	0.00500505668675968	0.772334470029888	2182	Non-essential putative integral membrane protein with a role in calcium uptake; mutant has cell wall defects and Ca+ uptake deficiencies; transcription is induced under conditions of zinc deficiency	fungal-type cell wall organization|calcium ion transport	molecular_function	integral to membrane
YIR029W	DAL2	hom			0.00498553343817889	0.773198174061145	2183	Allantoicase, converts allantoate to urea and ureidoglycolate in the second step of allantoin degradation; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation	allantoin catabolic process	allantoicase activity	cellular_component
YPL136W_d	YPL136W	hom			0.00498263099105608	0.773326601658467	2184	Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified gene GIP3/YPL137C	Unknown	Unknown	Unknown
YGL197W	MDS3	hom	FT	CELL CYCLE|SIGNALING|MITOCHONDRION	0.00497824192770067	0.773520820893369	2185	Putative component of the TOR regulatory pathway; negative regulator of early meiotic gene expression; required, with Pmd1p, for growth under alkaline conditions; has an N-terminal kelch-like domain	TOR signaling cascade|negative regulation of sporulation resulting in formation of a cellular spore	molecular_function	mitochondrion|cytoplasm
YAL011W	SWC3	hom	FF|FT	CHROMATIN ORGANIZATION|NUCLEUS|MITOCHONDRION|CHROMOSOME	0.00496650487153914	0.774040263739873	2186	Protein of unknown function, component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for formation of nuclear-associated array of smooth endoplasmic reticulum known as karmellae	endoplasmic reticulum organization|chromatin remodeling|histone exchange	molecular_function	mitochondrion|Swr1 complex|nucleus
YOR021C	SFM1	hom			0.0049616776168325	0.774253931253379	2187	SPOUT methyltransferase; catalyzes omega-monomethylation of Rps3p on Arg-146; not an essential gene; predicted to be involved in rRNA processing and ribosome biogenesis and in biopolymer catabolism	peptidyl-arginine methylation	protein-arginine omega-N monomethyltransferase activity	cellular_component
YDR382W	RPP2B	hom	FT	TRANSLATION|RIBOSOME	0.004927966634849	0.775746547302546	2188	Ribosomal protein P2 beta, a component of the ribosomal stalk, which is involved in the interaction between translational elongation factors and the ribosom