YAR053W	3.07899	YAP3	YAR053W||S000000085|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YAR060C	2.54486	YAP3	YAR060C||S000000086|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YHR212W-A	2.52947	YAP3	YHR212W-A||S000028650|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YPL223C	2.03264	YAP3	YPL223C|GRE1|S000006144|Hydrophilin of unknown function; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway
YLR307C-A	2.01897	YAP3	YLR307C-A||S000028525|Putative protein of unknown function
YHR212C	2.01236	YAP3	YHR212C||S000001255|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHR095W	1.92087	YAP3	YHR095W||S000001137|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YAL062W	1.9013	YAP3	YAL062W|GDH3|S000000058|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
YMR175W	1.59086	YAP3	YMR175W|SIP18|S000004787|Protein of unknown function whose expression is induced by osmotic stress
YKR039W	1.42139	YAP3	YKR039W|GAP1|S000001747|General amino acid permease; localization to the plasma membrane is regulated by nitrogen source
YDR043C	1.38303	YAP3	YDR043C|NRG1|S000002450|Transcriptional repressor that recruits the Cyc8p-Tup1p complex to promoters; mediates glucose repression and negatively regulates a variety of processes including filamentous growth and alkaline pH response
YMR107W	1.29458	YAP3	YMR107W|SPG4|S000004713|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
YLR327C	1.25389	YAP3	YLR327C|TMA10|S000004319|Protein of unknown function that associates with ribosomes
YOR178C	1.22996	YAP3	YOR178C|GAC1|S000005704|Regulatory subunit for Glc7p type-1 protein phosphatase (PP1), tethers Glc7p to Gsy2p glycogen synthase, binds Hsf1p heat shock transcription factor, required for induction of some HSF-regulated genes under heat shock
YNL274C	1.08328	YAP3	YNL274C|GOR1|S000005218|Glyoxylate reductase; null mutation results in increased biomass after diauxic shift; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YAR050W	1.07241	YAP3	YAR050W|FLO1|S000000084|Lectin-like protein involved in flocculation, cell wall protein that binds to mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin sensitive and heat resistant; similar to Flo5p
YML128C	0.964242	YAP3	YML128C|MSC1|S000004597|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 and is phosphorylated
YAL063C	0.938638	YAP3	YAL063C|FLO9|S000000059|Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation
YAL067W-A	0.937501	YAP3	YAL067W-A||S000028593|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YFR057W	0.936078	YAP3	YFR057W||S000001953|Putative protein of unknown function
YPL119C	0.934238	YAP3	YPL119C|DBP1|S000006040|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
YMR206W	0.929958	YAP3	YMR206W||S000004819|Putative protein of unknown function; YMR206W is not an essential gene
YER101C	0.929153	YAP3	YER101C|AST2|S000000903|Protein that may have a role in targeting of plasma membrane [H+]ATPase (Pma1p) to the plasma membrane, as suggested by analysis of genetic interactions
YAR047C	0.901381	YAP3	YAR047C||S000000083|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YAR035W	0.899556	YAP3	YAR035W|YAT1|S000000080|Outer mitochondrial carnitine acetyltransferase, minor ethanol-inducible enzyme involved in transport of activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated
YKR040C	0.877161	YAP3	YKR040C||S000001748|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YKR041W
YIL057C	0.850103	YAP3	YIL057C||S000001319|Putative protein of unknown function; expression induced under carbon limitation and repressed under high glucose
YNL036W	0.84956	YAP3	YNL036W|NCE103|S000004981|Carbonic anhydrase; poorly transcribed under aerobic conditions and at an undetectable level under anaerobic conditions; involved in non-classical protein export pathway
YMR090W	0.839925	YAP3	YMR090W||S000004696|Putative protein of unknown function with similarity to DTDP-glucose 4,6-dehydratases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR090W is not an essential gene
YMR164C	0.819844	YAP3	YMR164C|MSS11|S000004774|Transcription factor involved in regulation of invasive growth and starch degradation; controls the activation of MUC1 and STA2 in response to nutritional signals
YDL022W	0.811429	YAP3	YDL022W|GPD1|S000002180|NAD-dependent glycerol-3-phosphate dehydrogenase, key enzyme of glycerol synthesis, essential for growth under osmotic stress; expression regulated by high-osmolarity glycerol response pathway; homolog of Gpd2p
YDL023C	0.79459	YAP3	YDL023C||S000002181|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
YGR087C	0.772945	YAP3	YGR087C|PDC6|S000003319|Minor isoform of pyruvate decarboxylase, decarboxylates pyruvate to acetaldehyde, involved in amino acid catabolism; transcription is glucose- and ethanol-dependent, and is strongly induced during sulfur limitation
YJL116C	0.766605	YAP3	YJL116C|NCA3|S000003652|Protein that functions with Nca2p to regulate mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p ) of the Fo-F1 ATP synthase; member of the SUN family
YLR366W	0.735894	YAP3	YLR366W||S000004358|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR364C-A
YKL044W	0.725076	YAP3	YKL044W||S000001527|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHL040C	0.722447	YAP3	YHL040C|ARN1|S000001032|Transporter, member of the ARN family of transporters that specifically recognize siderophore-iron chelates; responsible for uptake of iron bound to ferrirubin, ferrirhodin, and related siderophores
YLR270W	0.719876	YAP3	YLR270W|DCS1|S000004260|Non-essential hydrolase involved in mRNA decapping, may function in a feedback mechanism to regulate deadenylation, contains pyrophosphatase activity and a HIT (histidine triad) motif; interacts with neutral trehalase Nth1p
YDR374C	0.718484	YAP3	YDR374C||S000002782|Putative protein of unknown function
YMR013C	0.70683	YAP3	YMR013C|SEC59|S000004615|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
YNL194C	0.703658	YAP3	YNL194C||S000005138|Integral membrane protein localized to eisosomes; sporulation and plasma membrane sphingolipid content are altered in mutants; has homologs SUR7 and FMP45; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
YBR071W	0.689013	YAP3	YBR071W||S000000275|Putative protein of unknown function; (GFP)-fusion and epitope-tagged proteins localize to the cytoplasm; mRNA expression may be regulated by the cell cycle and/or cell wall stress
YMR174C	0.675279	YAP3	YMR174C|PAI3|S000004786|Cytoplasmic proteinase A (Pep4p) inhibitor, dependent on Pbs2p and Hog1p protein kinases for osmotic induction; intrinsically unstructured, N-terminal half becomes ordered in the active site of proteinase A upon contact
YJL057C	0.673243	YAP3	YJL057C|IKS1|S000003593|Putative serine/threonine kinase; expression is induced during mild heat stress; deletion mutants are hypersensitive to copper sulphate and resistant to sorbate; interacts with an N-terminal fragment of Sst2p
YJR137C	0.670658	YAP3	YJR137C|ECM17|S000003898|Sulfite reductase beta subunit, involved in amino acid biosynthesis, transcription repressed by methionine
YOL151W	0.665979	YAP3	YOL151W|GRE2|S000005511|3-methylbutanal reductase and NADPH-dependent methylglyoxal reductase (D-lactaldehyde dehydrogenase); stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway
YPR005C	0.660758	YAP3	YPR005C|HAL1|S000006209|Cytoplasmic protein involved in halotolerance; decreases intracellular Na+ (via Ena1p) and increases intracellular K+ by decreasing efflux; expression repressed by Ssn6p-Tup1p and Sko1p and induced by NaCl, KCl, and sorbitol through Gcn4p
YPR007C	0.660683	YAP3	YPR007C|REC8|S000006211|Meiosis-specific component of sister chromatid cohesion complex; maintains cohesion between sister chromatids during meiosis I; maintains cohesion between centromeres of sister chromatids until meiosis II; homolog of S. pombe Rec8p
YNL142W	0.652321	YAP3	YNL142W|MEP2|S000005086|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
YOL126C	0.652018	YAP3	YOL126C|MDH2|S000005486|Cytoplasmic malate dehydrogenase, one of three isozymes that catalyze interconversion of malate and oxaloacetate; involved in the glyoxylate cycle and gluconeogenesis during growth on two-carbon compounds; interacts with Pck1p and Fbp1
YEL007W	0.643734	YAP3	YEL007W||S000000733|Putative protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1)
YLR365W	0.635904	YAP3	YLR365W||S000004357|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps dubious gene YLR364C-A; YLR365W is not an essential gene
YOR192C-C	0.630747	YAP3	YOR192C-C||S000028857|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YJR138W	0.619878	YAP3	YJR138W|IML1|S000003899|Protein of unknown function, green fluorescent protein (GFP)-fusion protein localizes to the vacuolar membrane
YBR182C	0.613291	YAP3	YBR182C|SMP1|S000000386|Putative transcription factor involved in regulating the response to osmotic stress; member of the MADS-box family of transcription factors
YAR019W-A	0.609989	YAP3	YAR019W-A||S000028735|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YMR081C	0.606427	YAP3	YMR081C|ISF1|S000004686|Serine-rich, hydrophilic protein with similarity to Mbr1p; overexpression suppresses growth defects of hap2, hap3, and hap4 mutants; expression is under glucose control; cotranscribed with NAM7 in a cyp1 mutant
YKL223W	0.595263	YAP3	YKL223W||S000001706|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YPL222W	0.587081	YAP3	YPL222W|FMP40|S000006143|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YLR004C	0.585018	YAP3	YLR004C|THI73|S000003994|Putative plasma membrane permease proposed to be involved in carboxylic acid uptake and repressed by thiamine; substrate of Dbf2p/Mob1p kinase; transcription is altered if mitochondrial dysfunction occurs
YNR002C	0.581482	YAP3	YNR002C|ATO2|S000005285|Putative transmembrane protein involved in export of ammonia, a starvation signal that promotes cell death in aging colonies; phosphorylated in mitochondria; member of the TC 9.B.33 YaaH family; homolog of Ady2p and Y. lipolytica Gpr1p
YOR394W	0.573972	YAP3	YOR394W|PAU21|S000005921|Hypothetical protein
YBR076C-A	0.570885	YAP3	YBR076C-A||S000028533|Dubious open reading frame unlikely to encode a protein; partially overlaps verified gene ECM8; identified by fungal homology and RT-PCR
YHR075C	0.560353	YAP3	YHR075C|PPE1|S000001117|Protein with carboxyl methyl esterase activity that may have a role in demethylation of the phosphoprotein phosphatase catalytic subunit; also identified as a small subunit mitochondrial ribosomal protein
YMR273C	0.558132	YAP3	YMR273C|ZDS1|S000004886|Protein that interacts with silencing proteins at the telomere, involved in transcriptional silencing; has a role in localization of Bcy1p, a regulatory subunit of protein kinase A; implicated in mRNA nuclear export
YKL224C	0.557322	YAP3	YKL224C|PAU16|S000001707|Putative protein of unknown function
YLL023C	0.552969	YAP3	YLL023C||S000003946|Protein of unknown function; highly conserved across species and orthologous to human TMEM33; may interact with ribosomes, based on co-purification experiments; GFP-fusion protein localizes to the endoplasmic reticulum
YHL041W	0.545659	YAP3	YHL041W||S000001033|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YFR053C	0.545458	YAP3	YFR053C|HXK1|S000001949|Hexokinase isoenzyme 1, a cytosolic protein that catalyzes phosphorylation of glucose during glucose metabolism; expression is highest during growth on non-glucose carbon sources; glucose-induced repression involves the hexokinase Hxk2p
YNL143C	0.544494	YAP3	YNL143C||S000005087|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR268C	0.530602	YAP3	YOR268C||S000005794|Putative protein of unknown function; sporulation is abnormal in homozygous diploid; YOR268C is not an essential gene
YOR062C	0.530405	YAP3	YOR062C||S000005588|Protein of unknown function; similar to YKR075Cp and Reg1p; expression regulated by glucose and Rgt1p; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
YGR144W	0.52735	YAP3	YGR144W|THI4|S000003376|Thiazole synthase, catalyzes formation of the thiazole moiety of thiamin pyrophosphate; required for thiamine biosynthesis and for mitochondrial genome stability
YDR069C	0.524751	YAP3	YDR069C|DOA4|S000002476|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
YMR180C	0.524378	YAP3	YMR180C|CTL1|S000004792|RNA 5'-triphosphatase, localizes to both the nucleus and cytoplasm
YKL016C	0.523148	YAP3	YKL016C|ATP7|S000001499|Subunit d of the stator stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis
YER181C	0.522174	YAP3	YER181C||S000000983|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative data; extensively overlaps a Ty1 LTR; protein product is detected in highly purified mitochondria in high-throughput studies
YLR122C	0.520597	YAP3	YLR122C||S000004112|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR123C
YAL061W	0.514785	YAP3	YAL061W|BDH2|S000000057|Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively active PDR1 and PDR3; BDH2 is an essential gene
YAR023C	0.509023	YAP3	YAR023C||S000000074|Putative integral membrane protein, member of DUP240 gene family
YIR041W	0.50283	YAP3	YIR041W|PAU15|S000001480|Hypothetical protein
YKL161C	0.499116	YAP3	YKL161C||S000001644|Protein kinase implicated in the Slt2p mitogen-activated (MAP) kinase signaling pathway; associates with Rlm1p
YPL062W	0.495272	YAP3	YPL062W||S000005983|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YPL062W is not an essential gene; homozygous diploid mutant shows a decrease in glycogen accumulation
YMR105C	0.494337	YAP3	YMR105C|PGM2|S000004711|Phosphoglucomutase, catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; functions as the acceptor for a Glc-phosphotransferase
YCR068W	0.49369	YAP3	YCR068W|ATG15|S000000664|Lipase, required for intravacuolar lysis of autophagosomes; located in the endoplasmic reticulum membrane and targeted to intravacuolar vesicles during autophagy via the multivesicular body (MVB) pathway
YLR251W	0.490692	YAP3	YLR251W|SYM1|S000004241|Protein required for ethanol metabolism; induced by heat shock and localized to the inner mitochondrial membrane; homologous to mammalian peroxisomal membrane protein Mpv17
YNL144C	0.489287	YAP3	YNL144C||S000005088|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YNL144C is not an essential gene
YNR034W-A	0.48547	YAP3	YNR034W-A||S000007525|Putative protein of unknown function; expression is regulated by Msn2p/Msn4p
YFR026C	0.481322	YAP3	YFR026C||S000001922|Putative protein of unknown function
YOR161C	0.470324	YAP3	YOR161C|PNS1|S000005687|Protein of unknown function; has similarity to Torpedo californica tCTL1p, which is postulated to be a choline transporter, neither null mutation nor overexpression affects choline transport
YAL054C	0.466263	YAP3	YAL054C|ACS1|S000000050|Acetyl-coA synthetase isoform which, along with Acs2p, is the nuclear source of acetyl-coA for histone acetlyation; expressed during growth on nonfermentable carbon sources and under aerobic conditions
YDL169C	0.465564	YAP3	YDL169C|UGX2|S000002328|Protein of unknown function, transcript accumulates in response to any combination of stress conditions
YLR356W	0.459812	YAP3	YLR356W||S000004348|Putative protein of unknown function with similarity to SCM4; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR356W is not an essential gene
YER167W	0.459551	YAP3	YER167W|BCK2|S000000969|Protein rich in serine and threonine residues involved in protein kinase C signaling pathway, which controls cell integrity; overproduction suppresses pkc1 mutations
YML012C-A	0.459288	YAP3	YML012C-A||S000004474|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SEL1
YER188W	0.45262	YAP3	YER188W||S000000990|Hypothetical protein
YPR192W	0.452171	YAP3	YPR192W|AQY1|S000006396|Spore-specific water channel that mediates the transport of water across cell membranes, developmentally controlled; may play a role in spore maturation, probably by allowing water outflow, may be involved in freeze tolerance
YEL060C	0.450311	YAP3	YEL060C|PRB1|S000000786|Vacuolar proteinase B (yscB), a serine protease of the subtilisin family; involved in protein degradation in the vacuole and required for full protein degradation during sporulation
YPR015C	0.449747	YAP3	YPR015C||S000006219|Putative protein of unknown function
YIL108W	0.449591	YAP3	YIL108W||S000001370|Putative metalloprotease
YEL008W	0.446788	YAP3	YEL008W||S000000734|Hypothetical protein predicted to be involved in metabolism
YLL030C	0.446018	YAP3	YLL030C||S000003953|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YHR211W	0.444034	YAP3	YHR211W|FLO5|S000001254|Lectin-like cell wall protein (flocculin) involved in flocculation, binds to mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin resistant but heat labile; similar to Flo1p
YLR123C	0.441377	YAP3	YLR123C||S000004113|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR122C; contains characteristic aminoacyl-tRNA motif
YPR065W	0.439844	YAP3	YPR065W|ROX1|S000006269|Heme-dependent repressor of hypoxic genes; contains an HMG domain that is responsible for DNA bending activity
YEL059W	0.438597	YAP3	YEL059W||S000000785|Dubious open reading frame unlikely to encode a functional protein
YGL262W	0.436297	YAP3	YGL262W||S000003231|Putative protein of unknown function; null mutant displays elevated sensitivity to expression of a mutant huntingtin fragment or of alpha-synuclein; YGL262W is not an essential gene
YBR169C	0.43334	YAP3	YBR169C|SSE2|S000000373|Member of the heat shock protein 70 (HSP70) family; may be involved in protein folding; localized to the cytoplasm; highly homologous to the heat shock protein Sse1p
YBR147W	0.430383	YAP3	YBR147W|RTC2|S000000351|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays fluconazole resistance and suppresses cdc13-1 temperature sensitivity
YFR027W	0.427762	YAP3	YFR027W|ECO1|S000001923|Acetyltransferase required for the establishment of sister chromatid cohesion during DNA replication and in response to double-strand breaks; also required for postreplicative double-strand break repair
YMR068W	0.426603	YAP3	YMR068W|AVO2|S000004672|Component of a complex containing the Tor2p kinase and other proteins, which may have a role in regulation of cell growth
YMR169C	0.42645	YAP3	YMR169C|ALD3|S000004779|Cytoplasmic aldehyde dehydrogenase, involved in beta-alanine synthesis; uses NAD+ as the preferred coenzyme; very similar to Ald2p; expression is induced by stress and repressed by glucose
YPL080C	0.425386	YAP3	YPL080C||S000006001|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YBL078C	0.419415	YAP3	YBL078C|ATG8|S000000174|Conserved protein that is a component of autophagosomes and Cvt vesicles; undergoes C-terminal conjugation to phosphatidylethanolamine (PE), Atg8p-PE is anchored to membranes and may mediate membrane fusion during autophagosome formation
YFR016C	0.414392	YAP3	YFR016C||S000001912|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and bud; interacts with Spa2p; YFL016C is not an essential gene
YJR159W	0.414278	YAP3	YJR159W|SOR1|S000003920|Sorbitol dehydrogenase; expression is induced in the presence of sorbitol
YAR019C	0.408259	YAP3	YAR019C|CDC15|S000000072|Protein kinase of the Mitotic Exit Network that is localized to the spindle pole bodies at late anaphase; promotes mitotic exit by directly switching on the kinase activity of Dbf2p
YBL049W	0.407328	YAP3	YBL049W|MOH1|S000000145|Protein of unknown function, has homology to kinase Snf7p; not required for growth on nonfermentable carbon sources; essential for viability in stationary phase
YBL064C	0.406785	YAP3	YBL064C|PRX1|S000000160|Mitochondrial peroxiredoxin (1-Cys Prx) with thioredoxin peroxidase activity, has a role in reduction of hydroperoxides; induced during respiratory growth and under conditions of oxidative stress; phosphorylated
YFL054C	0.404189	YAP3	YFL054C||S000001840|Putative channel-like protein; similar to Fps1p; mediates passive diffusion of glycerol in the presence of ethanol
YOL164W-A	0.399849	YAP3	YOL164W-A||S000028580|Putative protein of unknown function; identified by fungal homology and RT-PCR
YGR149W	0.399548	YAP3	YGR149W||S000003381|Putative protein of unknown function; predicted to be an integal membrane protein
YIL119C	0.397417	YAP3	YIL119C|RPI1|S000001381|Putative transcriptional regulator; overexpression suppresses the heat shock sensitivity of wild-type RAS2 overexpression and also suppresses the cell lysis defect of an mpk1 mutation
YBR292C	0.394753	YAP3	YBR292C||S000000496|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YBR292C is not an essential gene
YER103W	0.394012	YAP3	YER103W|SSA4|S000000905|Heat shock protein that is highly induced upon stress; plays a role in SRP-dependent cotranslational protein-membrane targeting and translocation; member of the HSP70 family; cytoplasmic protein that concentrates in nuclei upon starvation
YML131W	0.39394	YAP3	YML131W||S000004600|Putative protein of unknown function with similarity to oxidoreductases; HOG1 and SKO1-dependent mRNA expression is induced after osmotic shock; GFP-fusion protein localizes to the cytoplasm and is induced by the DNA-damaging agent MMS
YDL222C	0.391346	YAP3	YDL222C|FMP45|S000002381|Integral membrane protein localized to mitochondria (untagged protein) and eisosomes, immobile patches at the cortex associated with endocytosis; sporulation and sphingolipid content are altered in mutants; has homologs SUR7 and YNL194C
YJR095W	0.385837	YAP3	YJR095W|SFC1|S000003856|Mitochondrial succinate-fumarate transporter, transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
YLR352W	0.383751	YAP3	YLR352W||S000004344|Putative protein of unknown function with similarity to F-box proteins; interacts with Skp1p and Cdc53p; YLR352W is not an essential gene
YDL214C	0.381146	YAP3	YDL214C|PRR2|S000002373|Serine/threonine protein kinase that inhibits pheromone induced signalling downstream of MAPK, possibly at the level of the Ste12p transcription factor
YLR273C	0.380104	YAP3	YLR273C|PIG1|S000004263|Putative targeting subunit for the type-1 protein phosphatase Glc7p that tethers it to the Gsy2p glycogen synthase
YHR125W	0.373356	YAP3	YHR125W||S000001167|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPR036W-A	0.371673	YAP3	YPR036W-A||S000028425|Protein of unknown function; transcription is regulated by Pdr1p
YJL089W	0.365366	YAP3	YJL089W|SIP4|S000003625|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
YJL005W	0.364173	YAP3	YJL005W|CYR1|S000003542|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
YER150W	0.36357	YAP3	YER150W|SPI1|S000000952|GPI-anchored cell wall protein involved in weak acid resistance; basal expression requires Msn2p/Msn4p; expression is induced under conditions of stress and during the diauxic shift; similar to Sed1p
YDL085W	0.355576	YAP3	YDL085W|NDE2|S000002243|Mitochondrial external NADH dehydrogenase, catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p are involved in providing the cytosolic NADH to the mitochondrial respiratory chain
YAL066W	0.353507	YAP3	YAL066W||S000000061|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YHL027W	0.352603	YAP3	YHL027W|RIM101|S000001019|Transcriptional repressor involved in response to pH and in cell wall construction; required for alkaline pH-stimulated haploid invasive growth and sporulation; activated by proteolytic processing; similar to A. nidulans PacC
YHR033W	0.348586	YAP3	YHR033W||S000001075|Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
YGR287C	0.348487	YAP3	YGR287C||S000003519|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; has similarity to alpha-D-glucosidase (maltase); authentic, non-tagged protein detected in purified mitochondria in high-throughput studies
YLR124W	0.342845	YAP3	YLR124W||S000004114|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YAL067C	0.342818	YAP3	YAL067C|SEO1|S000000062|Putative permease, member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
YLR296W	0.340293	YAP3	YLR296W||S000004287|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL025C	0.339518	YAP3	YNL025C|SSN8|S000004970|Cyclin-like component of the RNA polymerase II holoenzyme, involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression and telomere maintenance
YIL045W	0.338942	YAP3	YIL045W|PIG2|S000001307|Putative type-1 protein phosphatase targeting subunit that tethers Glc7p type-1 protein phosphatase to Gsy2p glycogen synthase
YDR461C-A	0.337754	YAP3	YDR461C-A||S000087209|Putative protein of unknown function
YIR040C	0.337496	YAP3	YIR040C||S000001479|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YKL107W	0.336504	YAP3	YKL107W||S000001590|Putative protein of unknown function
YKL124W	0.336267	YAP3	YKL124W|SSH4|S000001607|Specificity factor required for Rsp5p-dependent ubiquitination and sorting of cargo proteins at the multivesicular body; identified as a high-copy suppressor of a SHR3 deletion, increasing steady-state levels of amino acid permeases
YOR376W	0.336043	YAP3	YOR376W||S000005903|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YOR376W is not an essential gene.
YDR540C	0.334042	YAP3	YDR540C|IRC4|S000002948|Putative protein of unknown function; null mutant displays increased levels of spontaneous Rad52p foci; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YGR289C	0.333993	YAP3	YGR289C|MAL11|S000003521|Inducible high-affinity maltose transporter (alpha-glucoside transporter); encoded in the MAL1 complex locus; member of the 12 transmembrane domain superfamily of sugar transporters; broad substrate specificity that includes maltotriose
YDR077W	0.332329	YAP3	YDR077W|SED1|S000002484|Major stress-induced structural GPI-cell wall glycoprotein in stationary-phase cells, associates with translating ribosomes, possible role in mitochondrial genome maintenance; ORF contains two distinct variable minisatellites
YFL053W	0.33205	YAP3	YFL053W|DAK2|S000001841|Dihydroxyacetone kinase, required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
YJL130C	0.329948	YAP3	YJL130C|URA2|S000003666|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
YHR210C	0.328288	YAP3	YHR210C||S000001253|Putative protein of unknown function; non-essential gene; highly expressed under anaeorbic conditions; sequence similarity to aldose 1-epimerases such as GAL10
YLR121C	0.328027	YAP3	YLR121C|YPS3|S000004111|Aspartic protease, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
YDR141C	0.327414	YAP3	YDR141C|DOP1|S000002548|Protein of unknown function, essential for viability, involved in establishing cellular polarity and morphogenesis; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YPL258C	0.327237	YAP3	YPL258C|THI21|S000006179|Hydroxymethylpyrimidine phosphate kinase, involved in the last steps in thiamine biosynthesis; member of a gene family with THI20 and THI22; functionally redundant with Thi20p
YLR425W	0.324242	YAP3	YLR425W|TUS1|S000004417|Guanine nucleotide exchange factor (GEF) that functions to modulate Rho1p activity as part of the cell integrity signaling pathway; multicopy suppressor of tor2 mutation and ypk1 ypk2 double mutation; potential Cdc28p substrate
YGR292W	0.322215	YAP3	YGR292W|MAL12|S000003524|Maltase (alpha-D-glucosidase), inducible protein involved in maltose catabolism; encoded in the MAL1 complex locus
YDR171W	0.322127	YAP3	YDR171W|HSP42|S000002578|Small heat shock protein (sHSP) with chaperone activity; forms barrel-shaped oligomers that suppress unfolded protein aggregation; involved in cytoskeleton reorganization after heat shock
YBL067C	0.321317	YAP3	YBL067C|UBP13|S000000163|Putative ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease that cleaves ubiquitin-protein fusions
YFL033C	0.321159	YAP3	YFL033C|RIM15|S000001861|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
YCR091W	0.31849	YAP3	YCR091W|KIN82|S000000687|Putative serine/threonine protein kinase, most similar to cyclic nucleotide-dependent protein kinase subfamily and the protein kinase C subfamily
YNL037C	0.318009	YAP3	YNL037C|IDH1|S000004982|Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle
YCR021C	0.317562	YAP3	YCR021C|HSP30|S000000615|Hydrophobic plasma membrane localized, stress-responsive protein that negatively regulates the H(+)-ATPase Pma1p; induced by heat shock, ethanol treatment, weak organic acid, glucose limitation, and entry into stationary phase
YKL216W	0.314958	YAP3	YKL216W|URA1|S000001699|Dihydroorotate dehydrogenase, catalyzes the fourth enzymatic step in the de novo biosynthesis of pyrimidines, converting dihydroorotic acid into orotic acid
YML089C	0.31214	YAP3	YML089C||S000004554|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; expression induced by calcium shortage
YPL278C	0.308328	YAP3	YPL278C||S000006199|Putative protein of unknown function; gene expression regulated by copper levels
YGR039W	0.307801	YAP3	YGR039W||S000003271|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the Autonomously Replicating Sequence ARS722
YKL028W	0.307318	YAP3	YKL028W|TFA1|S000001511|TFIIE large subunit, involved in recruitment of RNA polymerase II to the promoter, activation of TFIIH, and promoter opening
YOR177C	0.306915	YAP3	YOR177C|MPC54|S000005703|Component of the meiotic outer plaque, a membrane-organizing center which is assembled on the cytoplasmic face of the spindle pole body during meiosis II and triggers the formation of the prospore membrane; potential Cdc28p substrate
YEL069C	0.30163	YAP3	YEL069C|HXT13|S000000795|Hexose transporter, induced in the presence of non-fermentable carbon sources, induced by low levels of glucose, repressed by high levels of glucose
YPR202W	0.300013	YAP3	YPR202W||S000006406|Putative protein of unknown function with similarity to telomere-encoded helicases; YPR202W is not an essential gene; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
YER187W	0.298852	YAP3	YER187W||S000000989|Putative protein of unknown function; induced in respiratory-deficient cells
YGR290W	0.296546	YAP3	YGR290W||S000003522|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; putative HLH protein; partially overlaps the verified ORF MAL11/YGR289C (a high-affinity maltose transporter)
YCR106W	0.296541	YAP3	YCR106W|RDS1|S000000703|Zinc cluster transcription factor involved in conferring resistance to cycloheximide
YOR192C	0.295439	YAP3	YOR192C|THI72|S000005718|Transporter of thiamine or related compound; shares sequence similarity with Thi7p
YPR010C-A	0.293856	YAP3	YPR010C-A||S000122558|Putative protein of unknown function; conserved among Saccharomyces sensu stricto species
YOR152C	0.292301	YAP3	YOR152C||S000005678|Putative protein of unknown function; has no similarity to any known protein; YOR152C is not an essential gene
YLR269C	0.292172	YAP3	YLR269C||S000004259|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOR386W	0.290226	YAP3	YOR386W|PHR1|S000005913|DNA photolyase involved in photoreactivation, repairs pyrimidine dimers in the presence of visible light; induced by DNA damage; regulated by transcriptional repressor Rph1p
YDR222W	0.28762	YAP3	YDR222W||S000002630|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YGL071W	0.286283	YAP3	YGL071W|AFT1|S000003039|Transcription factor involved in iron utilization and homeostasis; binds the consensus site PyPuCACCCPu and activates the expression of target genes in response to changes in iron availability
YGL163C	0.286033	YAP3	YGL163C|RAD54|S000003131|DNA-dependent ATPase, stimulates strand exchange by modifying the topology of double-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; member of the SWI/SNF family
YCR089W	0.284781	YAP3	YCR089W|FIG2|S000000685|Cell wall adhesin, expressed specifically during mating; may be involved in maintenance of cell wall integrity during mating
YKL115C	0.280129	YAP3	YKL115C||S000001598|Dubious open reading frame, unlikely to encode a protein; partially overlaps the verified gene PRR1
YPR064W	0.27996	YAP3	YPR064W||S000006268|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YLR456W	0.279543	YAP3	YLR456W||S000004448|Putative protein of unknown function; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
YPR145W	0.27826	YAP3	YPR145W|ASN1|S000006349|Asparagine synthetase, isozyme of Asn2p; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway
YHL045W	0.277401	YAP3	YHL045W||S000001037|Putative protein of unknown function; not an essential gene
YDR374W-A	0.277184	YAP3	YDR374W-A||S000113553|Putative protein of unknown function
YOR199W	0.274189	YAP3	YOR199W||S000005725|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL273W	0.273985	YAP3	YNL273W|TOF1|S000005217|Subunit of a replication-pausing checkpoint complex (Tof1p-Mrc1p-Csm3p) that acts at the stalled replication fork to promote sister chromatid cohesion after DNA damage, facilitating gap repair of damaged DNA; interacts with the MCM helicase
YCR066W	0.271655	YAP3	YCR066W|RAD18|S000000662|Protein involved in postreplication repair; binds single-stranded DNA and has single-stranded DNA dependent ATPase activity; forms heterodimer with Rad6p; contains RING-finger motif
YOL089C	0.269841	YAP3	YOL089C|HAL9|S000005449|Putative transcription factor containing a zinc finger; overexpression increases salt tolerance through increased expression of the ENA1 (Na+/Li+ extrusion pump) gene while gene disruption decreases both salt tolerance and ENA1 expression
YJL150W	0.26888	YAP3	YJL150W||S000003686|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YCR007C	0.267858	YAP3	YCR007C||S000000600|Putative integral membrane protein, member of DUP240 gene family; YCR007C is not an essential gene
YKL043W	0.267615	YAP3	YKL043W|PHD1|S000001526|Transcriptional activator that enhances pseudohyphal growth; regulates expression of FLO11, an adhesin required for pseudohyphal filament formation; similar to StuA, an A. nidulans developmental regulator; potential Cdc28p substrate
YMR082C	0.267076	YAP3	YMR082C||S000004687|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YLR297W	0.266194	YAP3	YLR297W||S000004288|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YLR297W is not an essential gene; induced by treatment with 8-methoxypsoralen and UVA irradiation
YPL282C	0.265579	YAP3	YPL282C|PAU22|S000006203|Hypothetical protein
YGR250C	0.261817	YAP3	YGR250C||S000003482|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YGL033W	0.260233	YAP3	YGL033W|HOP2|S000003001|Meiosis-specific protein that localizes to chromosomes, preventing synapsis between nonhomologous chromosomes and ensuring synapsis between homologs; complexes with Mnd1p to promote homolog pairing and meiotic double-strand break repair
YJL135W	0.258513	YAP3	YJL135W||S000003671|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL134W/LCB3
YCL065W	0.255772	YAP3	YCL065W||S000000570|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps HMLALPHA1
YNR049C	0.25337	YAP3	YNR049C|MSO1|S000005332|Probable component of the secretory vesicle docking complex, acts at a late step in secretion; shows genetic and physical interactions with Sec1p and is enriched in microsomal membrane fractions; required for sporulation
YNL282W	0.249271	YAP3	YNL282W|POP3|S000005226|Subunit of both RNase MRP, which cleaves pre-rRNA, and nuclear RNase P, which cleaves tRNA precursors to generate mature 5' ends
YDL049C	0.249036	YAP3	YDL049C|KNH1|S000002207|Protein with similarity to Kre9p, which is involved in cell wall beta 1,6-glucan synthesis; overproduction suppresses growth defects of a kre9 null mutant
YMR103C	0.247372	YAP3	YMR103C||S000004709|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDL215C	0.24488	YAP3	YDL215C|GDH2|S000002374|NAD(+)-dependent glutamate dehydrogenase, degrades glutamate to ammonia and alpha-ketoglutarate; expression sensitive to nitrogen catabolite repression and intracellular ammonia levels
YLR149C	0.24474	YAP3	YLR149C||S000004139|Putative protein of unknown function; YLR149C is not an essential gene
YJL194W	0.242738	YAP3	YJL194W|CDC6|S000003730|Essential ATP-binding protein required for DNA replication, component of the pre-replicative complex (pre-RC) which requires ORC to associate with chromatin and is in turn required for Mcm2-7p DNA association; homologous to S. pombe Cdc18p
YFR030W	0.242575	YAP3	YFR030W|MET10|S000001926|Subunit alpha of assimilatory sulfite reductase, which is responsible for the conversion of sulfite into sulfide
YJL149W	0.24213	YAP3	YJL149W|DAS1|S000003685|Putative SCF ubiquitin ligase F-box protein; interacts physically with both Cdc53p and Skp1 and genetically with CDC34; similar to putative F-box protein YDR131C; null mutant suppresses dst1delta sensitivity for 6-azauracil
YOR387C	0.239863	YAP3	YOR387C||S000005914|Putative protein of unknown function; regulated by the metal-responsive Aft1p transcription factor; highly inducible in zinc-depleted conditions; localizes to the soluble fraction
YBR054W	0.239595	YAP3	YBR054W|YRO2|S000000258|Putative protein of unknown function; the authentic, non-tagged protein is detected in a phosphorylated state in highly purified mitochondria in high-throughput studies; transcriptionally regulated by Haa1p
YOR186W	0.238359	YAP3	YOR186W||S000005712|Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent
YOR245C	0.237954	YAP3	YOR245C|DGA1|S000005771|Diacylglycerol acyltransferase, catalyzes the terminal step of triacylglycerol (TAG) formation, acylates diacylglycerol using acyl-CoA as an acyl donor, localized to lipid particles
YCL025C	0.237565	YAP3	YCL025C|AGP1|S000000530|Low-affinity amino acid permease with broad substrate range, involved in uptake of asparagine, glutamine, and other amino acids; expression is regulated by the SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p)
YOR235W	0.237543	YAP3	YOR235W|IRC13|S000005761|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
YIR039C	0.236805	YAP3	YIR039C|YPS6|S000001478|Putative GPI-anchored aspartic protease
YER053C	0.236395	YAP3	YER053C|PIC2|S000000855|Mitochondrial phosphate carrier, imports inorganic phosphate into mitochondria; functionally redundant with Mir1p but less abundant than Mir1p under normal conditions; expression is induced at high temperature
YPR201W	0.235426	YAP3	YPR201W|ARR3|S000006405|Arsenite transporter of the plasma membrane, required for resistance to arsenic compounds; transcription is activated by Arr1p in the presence of arsenite
YLL029W	0.235044	YAP3	YLL029W|FRA1|S000003952|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
YOR343C	0.234163	YAP3	YOR343C||S000005870|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YJL222W-A	0.232595	YAP3	YJL222W-A||S000028663|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGR088W	0.231689	YAP3	YGR088W|CTT1|S000003320|Cytosolic catalase T, has a role in protection from oxidative damage by hydrogen peroxide
YNL278W	0.231619	YAP3	YNL278W|CAF120|S000005222|Part of the evolutionarily-conserved CCR4-NOT transcriptional regulatory complex involved in controlling mRNA initiation, elongation, and degradation
YDR014W-A	0.231475	YAP3	YDR014W-A|HED1|S000113613|Meiosis-specific protein that down-regulates Rad51p-mediated mitotic recombination when the meiotic recombination machinery is impaired; early meiotic gene, transcribed specifically during meiotic prophase
YLR047C	0.230902	YAP3	YLR047C|FRE8|S000004037|Protein with sequence similarity to iron/copper reductases, involved in iron homeostasis; deletion mutant has iron deficiency/accumulation growth defects; expression increased in the absence of copper-responsive transcription factor Mac1p
YNL063W	0.228679	YAP3	YNL063W|MTQ1|S000005007|S-adenosylmethionine-dependent methyltransferase; methylates translational release factor Mrf1p; similar to E.coli PrmC; is not an essential gene
YML020W	0.2271	YAP3	YML020W||S000004482|Putative protein of unknown function
YEL009C	0.224557	YAP3	YEL009C|GCN4|S000000735|Transcriptional activator of amino acid biosynthetic genes in response to amino acid starvation; expression is tightly regulated at both the transcriptional and translational levels
YDL020C	0.224296	YAP3	YDL020C|RPN4|S000002178|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
YHR104W	0.224211	YAP3	YHR104W|GRE3|S000001146|Aldose reductase involved in methylglyoxal, d-xylose and arabinose metabolism; stress induced (osmotic, ionic, oxidative, heat shock, starvation and heavy metals); regulated by the HOG pathway
YBR212W	0.224138	YAP3	YBR212W|NGR1|S000000416|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; expressed in stationary phase
YLR127C	0.22383	YAP3	YLR127C|APC2|S000004117|Subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C), which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition; similar to cullin Cdc53p
YML047C	0.22203	YAP3	YML047C|PRM6|S000004510|Pheromone-regulated protein, predicted to have 2 transmembrane segments; regulated by Ste12p during mating
YJL166W	0.221196	YAP3	YJL166W|QCR8|S000003702|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
YGR258C	0.219669	YAP3	YGR258C|RAD2|S000003490|Single-stranded DNA endonuclease, cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein
YJL137C	0.219577	YAP3	YJL137C|GLG2|S000003673|Self-glucosylating initiator of glycogen synthesis, also glucosylates n-dodecyl-beta-D-maltoside; similar to mammalian glycogenin
YLR295C	0.218995	YAP3	YLR295C|ATP14|S000004286|Subunit h of the F0 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis
YDR055W	0.216968	YAP3	YDR055W|PST1|S000002462|Cell wall protein that contains a putative GPI-attachment site; secreted by regenerating protoplasts; up-regulated by activation of the cell integrity pathway, as mediated by Rlm1p; upregulated by cell wall damage via disruption of FKS1
YPR013C	0.215843	YAP3	YPR013C||S000006217|Putative zinc finger protein; YPR013C is not an essential gene
YJL107C	0.213871	YAP3	YJL107C||S000003643|Putative protein of unknown function; expression is induced by activation of the HOG1 mitogen-activated signaling pathway and this induction is Hog1p/Pbs2p dependent; YJL107C and adjacent ORF, YJL108C are merged in related fungi
YLR205C	0.21378	YAP3	YLR205C|HMX1|S000004195|ER localized, heme-binding peroxidase involved in the degradation of heme; does not exhibit heme oxygenase activity despite similarity to heme oxygenases; expression regulated by AFT1
YER132C	0.213641	YAP3	YER132C|PMD1|S000000934|Protein with an N-terminal kelch-like domain, putative negative regulator of early meiotic gene expression; required, with Mds3p, for growth under alkaline conditions
YHR155W	0.211297	YAP3	YHR155W|YSP1|S000001198|Mitochondrial protein with a potential role in promoting mitochondrial fragmentation during programmed cell death in response to high levels of alpha-factor mating pheromone or the drug amiodarone
YHL043W	0.210272	YAP3	YHL043W|ECM34|S000001035|Putative protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YMR261C	0.209226	YAP3	YMR261C|TPS3|S000004874|Regulatory subunit of trehalose-6-phosphate synthase/phosphatase complex, which synthesizes the storage carbohydrate trehalose; expression is induced by stress conditions and repressed by the Ras-cAMP pathway
YBR025C	0.208625	YAP3	YBR025C|OLA1|S000000229|P-loop ATPase with similarity to human OLA1 and bacterial YchF; identified as specifically interacting with the proteasome; protein levels are induced by hydrogen peroxide
YPR196W	0.206685	YAP3	YPR196W||S000006400|Putative maltose activator
YOL082W	0.206685	YAP3	YOL082W|ATG19|S000005442|Receptor protein for the cytoplasm-to-vacuole targeting (Cvt) pathway; recognizes cargo proteins aminopeptidase I (Lap4p) and alpha-mannosidase (Ams1p) and delivers them to the preautophagosomal structure for packaging into Cvt vesicles
YFL021W	0.204657	YAP3	YFL021W|GAT1|S000001873|Transcriptional activator of genes involved in nitrogen catabolite repression; contains a GATA-1-type zinc finger DNA-binding motif; activity and localization regulated by nitrogen limitation and Ure2p
YNL250W	0.203222	YAP3	YNL250W|RAD50|S000005194|Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining
YLR334C	0.20281	YAP3	YLR334C||S000004326|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps a stand-alone long terminal repeat sequence whose presence indicates a retrotransposition event occurred here
YPL054W	0.202409	YAP3	YPL054W|LEE1|S000005975|Zinc-finger protein of unknown function
YDR242W	0.20161	YAP3	YDR242W|AMD2|S000002650|Putative amidase
YLL019C	0.200664	YAP3	YLL019C|KNS1|S000003942|Nonessential putative protein kinase of unknown cellular role; member of the LAMMER family of protein kinases, which are serine/threonine kinases also capable of phosphorylating tyrosine residues
YLR260W	0.200529	YAP3	YLR260W|LCB5|S000004250|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
YKR097W	0.199828	YAP3	YKR097W|PCK1|S000001805|Phosphoenolpyruvate carboxykinase, key enzyme in gluconeogenesis, catalyzes early reaction in carbohydrate biosynthesis, glucose represses transcription and accelerates mRNA degradation, regulated by Mcm1p and Cat8p, located in the cytosol
YPL026C	0.199031	YAP3	YPL026C|SKS1|S000005947|Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway
YDL156W	0.198767	YAP3	YDL156W||S000002315|Putative protein of unknown function; protein sequence contains three WD domains (WD-40 repeat); green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YNL105W	0.198245	YAP3	YNL105W||S000005049|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene INP52
YJL197W	0.1971	YAP3	YJL197W|UBP12|S000003733|Ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease present in the nucleus and cytoplasm that cleaves ubiquitin from ubiquitinated proteins
YJR152W	0.195968	YAP3	YJR152W|DAL5|S000003913|Allantoin permease; ureidosuccinate permease; expression is constitutive but sensitive to nitrogen catabolite repression
YDR034C	0.195366	YAP3	YDR034C|LYS14|S000002441|Transcriptional activator involved in regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
YPR200C	0.193823	YAP3	YPR200C|ARR2|S000006404|Arsenate reductase required for arsenate resistance; converts arsenate to arsenite which can then be exported from cells by Arr3p
YPL024W	0.193487	YAP3	YPL024W|RMI1|S000005945|Involved in response to DNA damage; null mutants have increased rates of recombination and delayed S phase; interacts physically and genetically with Sgs1p (RecQ family member) and Top3p (topoisomerase III)
YOR231W	0.191678	YAP3	YOR231W|MKK1|S000005757|Mitogen-activated kinase kinase involved in protein kinase C signaling pathway that controls cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk2p
YOR022C	0.190317	YAP3	YOR022C||S000005548|Protein with similarity to bovine phospholipase A1; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDR386W	0.190176	YAP3	YDR386W|MUS81|S000002794|Helix-hairpin-helix protein, involved in DNA repair and replication fork stability; functions as an endonuclease in complex with Mms4p; interacts with Rad54p
YBR072W	0.19	YAP3	YBR072W|HSP26|S000000276|Small heat shock protein (sHSP) with chaperone activity; forms hollow, sphere-shaped oligomers that suppress unfolded proteins aggregation; oligomer activation requires a heat-induced conformational change; not expressed in unstressed cells
YKR102W	0.189054	YAP3	YKR102W|FLO10|S000001810|Lectin-like protein with similarity to Flo1p, thought to be involved in flocculation
YGR032W	0.188802	YAP3	YGR032W|GSC2|S000003264|Catalytic subunit of 1,3-beta-glucan synthase, involved in formation of the inner layer of the spore wall; activity positively regulated by Rho1p and negatively by Smk1p; has similarity to an alternate catalytic subunit, Fks1p (Gsc1p)
YIL105C	0.1883	YAP3	YIL105C|SLM1|S000001367|Phosphoinositide PI4,5P(2) binding protein, forms a complex with Slm2p; acts downstream of Mss4p in a pathway regulating actin cytoskeleton organization in response to stress; subunit of and phosphorylated by the TORC2 complex
YDR525W-A	0.188025	YAP3	YDR525W-A|SNA2|S000007236|Protein of unknown function, has similarity to Pmp3p, which is involved in cation transport; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YCR015C	0.18738	YAP3	YCR015C||S000000608|Putative protein of unknown function; YCR015C is not an essential gene
YOR227W	0.186624	YAP3	YOR227W||S000005753|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDR191W	0.186456	YAP3	YDR191W|HST4|S000002599|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
YBL103C	0.186015	YAP3	YBL103C|RTG3|S000000199|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
YNL180C	0.185134	YAP3	YNL180C|RHO5|S000005124|Non-essential small GTPase of the Rho/Rac subfamily of Ras-like proteins, likely involved in protein kinase C (Pkc1p)-dependent signal transduction pathway that controls cell integrity
YLR125W	0.185053	YAP3	YLR125W||S000004115|Putative protein of unknown function; mutant has decreased Ty3 transposition; YLR125W is not an essential gene
YAL039C	0.184644	YAP3	YAL039C|CYC3|S000000037|Cytochrome c heme lyase (holocytochrome c synthase), attaches heme to apo-cytochrome c (Cyc1p or Cyc7p) in the mitochondrial intermembrane space; human ortholog may have a role in microphthalmia with linear skin defects (MLS)
YDR440W	0.182884	YAP3	YDR440W|DOT1|S000002848|Nucleosomal histone H3-Lys79 methylase, associates with transcriptionally active genes, functions in gene silencing at telomeres, most likely by directly modulating chromatin structure and Sir protein localization
YJR096W	0.179576	YAP3	YJR096W||S000003857|Putative xylose and arabinose reductase; member of the aldo-keto reductase (AKR) family; GFP-fusion protein is induced in response to the DNA-damaging agent MMS
YDL013W	0.179512	YAP3	YDL013W|SLX5|S000002171|Subunit of the Slx5-Slx8 substrate-specific ubiquitin ligase complex; stimulated by prior attachment of SUMO to the substrate
YLR014C	0.17818	YAP3	YLR014C|PPR1|S000004004|Zinc finger transcription factor containing a Zn(2)-Cys(6) binuclear cluster domain, positively regulates transcription of genes involved in uracil biosynthesis; activity may be modulated by interaction with Tup1p
YDR541C	0.177495	YAP3	YDR541C||S000002949|Putative dihydrokaempferol 4-reductase
YMR067C	0.176688	YAP3	YMR067C|UBX4|S000004671|UBX (ubiquitin regulatory X) domain-containing protein that interacts with Cdc48p
YKL217W	0.175934	YAP3	YKL217W|JEN1|S000001700|Lactate transporter, required for uptake of lactate and pyruvate; phosphorylated; expression is derepressed by transcriptional activator Cat8p during respiratory growth, and repressed in the presence of glucose, fructose, and mannose
YDR096W	0.175807	YAP3	YDR096W|GIS1|S000002503|JmjC domain-containing histone demethylase; transcription factor involved in the expression of genes during nutrient limitation; also involved in the negative regulation of DPP1 and PHR1
YJR052W	0.175737	YAP3	YJR052W|RAD7|S000003813|Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad16p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
YCR033W	0.175452	YAP3	YCR033W|SNT1|S000000629|Subunit of the Set3C deacetylase complex that interacts directly with the Set3C subunit, Sif2p; putative DNA-binding protein
YNL042W-B	0.173926	YAP3	YNL042W-B||S000028850|Putative protein of unknown function
YPL179W	0.172579	YAP3	YPL179W|PPQ1|S000006100|Putative protein serine/threonine phosphatase; null mutation enhances efficiency of translational suppressors
YCL014W	0.171685	YAP3	YCL014W|BUD3|S000000520|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
YGL037C	0.171008	YAP3	YGL037C|PNC1|S000003005|Nicotinamidase that converts nicotinamide to nicotinic acid as part of the NAD(+) salvage pathway, required for life span extension by calorie restriction; PNC1 expression responds to all known stimuli that extend replicative life span
YLR259C	0.170946	YAP3	YLR259C|HSP60|S000004249|Tetradecameric mitochondrial chaperonin required for ATP-dependent folding of precursor polypeptides and complex assembly; prevents aggregation and mediates protein refolding after heat shock; role in mtDNA transmission; phosphorylated
YOR005C	0.169121	YAP3	YOR005C|DNL4|S000005531|DNA ligase required for nonhomologous end-joining (NHEJ), forms stable heterodimer with required cofactor Lif1p, interacts with Nej1p; involved in meiosis, not essential for vegetative growth
YJL155C	0.165457	YAP3	YJL155C|FBP26|S000003691|Fructose-2,6-bisphosphatase, required for glucose metabolism
YEL070W	0.163988	YAP3	YEL070W|DSF1|S000000796|Deletion suppressor of mpt5 mutation
YPL147W	0.162932	YAP3	YPL147W|PXA1|S000006068|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 and ALD-related proteins
YJL036W	0.161566	YAP3	YJL036W|SNX4|S000003573|Sorting nexin, involved in the retrieval of late-Golgi SNAREs from the post-Golgi endosome to the trans-Golgi network and in cytoplasm to vacuole transport; contains a PX domain; forms complexes with Snx41p and with Atg20p
YEL009C-A	0.160512	YAP3	YEL009C-A||S000028741|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL072C	0.160361	YAP3	YGL072C||S000003040|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
YCR097W-A	0.159386	YAP3	YCR097W-A||S000007632|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; identified by homology to a hemiascomycetous yeast protein
YNL297C	0.158939	YAP3	YNL297C|MON2|S000005241|Peripheral membrane protein with a role in endocytosis and vacuole integrity, interacts with Arl1p and localizes to the endosome; member of the Sec7p family of proteins
YER158C	0.158188	YAP3	YER158C||S000000960|Protein of unknown function, has similarity to Afr1p; potentially phosphorylated by Cdc28p
YCR067C	0.157874	YAP3	YCR067C|SED4|S000000663|Integral endoplasmic reticulum membrane protein, functions as a positive regulator of Sar1p probably through inhibition of GTPase activation by Sec23p; binds Sec16p, participates in vesicle formation, similar to Sec12p
YNL106C	0.157809	YAP3	YNL106C|INP52|S000005050|Polyphosphatidylinositol phosphatase, dephosphorylates a number of phosphatidylinositols (PIs) to PI; involved in endocytosis; hyperosmotic stress causes translocation to actin patches; synaptojanin-like protein with a Sac1 domain
YNL296W	0.157599	YAP3	YNL296W||S000005240|Dubious open reading frame unlikely to encode a functional protein; deletion adversely affects sporulation; deletion mutant exhibits synthetic phenotype under expression of mutant huntingtin fragment, but gene does not have human ortholog
YLR337C	0.15685	YAP3	YLR337C|VRP1|S000004329|Proline-rich actin-associated protein involved in cytoskeletal organization and cytokinesis; related to mammalian Wiskott-Aldrich syndrome protein (WASP)-interacting protein (WIP)
YHR205W	0.156721	YAP3	YHR205W|SCH9|S000001248|Protein kinase involved in transcriptional activation of osmostress-responsive genes; regulates G1 progression, cAPK activity, nitrogen activation of the FGM pathway; involved in life span regulation; homologous to mammalian Akt/PKB
YKL103C	0.156397	YAP3	YKL103C|LAP4|S000001586|Vacuolar aminopeptidase, often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway
YBL102W	0.156253	YAP3	YBL102W|SFT2|S000000198|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
YCR025C	0.153426	YAP3	YCR025C||S000000620|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YCR025C is not an essential gene
YKL046C	0.153372	YAP3	YKL046C|DCW1|S000001529|Putative mannosidase, GPI-anchored membrane protein required for cell wall biosynthesis in bud formation;homologous to Dfg5p
YGL165C	0.152782	YAP3	YGL165C||S000003133|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CUP2/YGL166W
YIL125W	0.152444	YAP3	YIL125W|KGD1|S000001387|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
YJR154W	0.152301	YAP3	YJR154W||S000003915|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YAL005C	0.151987	YAP3	YAL005C|SSA1|S000000004|ATPase involved in protein folding and nuclear localization signal (NLS)-directed nuclear transport; member of heat shock protein 70 (HSP70) family; forms a chaperone complex with Ydj1p; localized to the nucleus, cytoplasm, and cell wall
YOR129C	0.151226	YAP3	YOR129C|AFI1|S000005655|Arf3p polarization-specific docking factor, required for the polarized distribution of the ADP-ribosylation factor, Arf3p; participates in polarity development and maintenance of a normal haploid budding pattern; interacts with Cnm7p
YML091C	0.15121	YAP3	YML091C|RPM2|S000004556|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
YGR288W	0.151052	YAP3	YGR288W|MAL13|S000003520|MAL-activator protein, part of complex locus MAL1; nonfunctional in genomic reference strain S288C
YNL295W	0.151007	YAP3	YNL295W||S000005239|Putative protein of unknown function
YML090W	0.149003	YAP3	YML090W||S000004555|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
YNL192W	0.148656	YAP3	YNL192W|CHS1|S000005136|Chitin synthase I, requires activation from zymogenic form in order to catalyze the transfer of N-acetylglucosamine (GlcNAc) to chitin; required for repairing the chitin septum during cytokinesis; transcription activated by mating factor
YFL051C	0.147186	YAP3	YFL051C||S000001843|Putative protein of unknown function; YFL051C is not an essential gene
YPL249C	0.147071	YAP3	YPL249C|GYP5|S000006170|GTPase-activating protein (GAP) for yeast Rab family members, involved in ER to Golgi trafficking; exhibits GAP activity toward Ypt1p that is stimulated by Gyl1p, also acts on Sec4p; interacts with Gyl1p, Rvs161p and Rvs167p
YPR042C	0.146679	YAP3	YPR042C|PUF2|S000006246|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 membrane-associated proteins
YNL179C	0.146209	YAP3	YNL179C||S000005123|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; deletion in cyr1 mutant results in loss of stress resistance
YDR542W	0.145657	YAP3	YDR542W|PAU10|S000002950|Hypothetical protein
YGL167C	0.145078	YAP3	YGL167C|PMR1|S000003135|High affinity Ca2+/Mn2+ P-type ATPase required for Ca2+ and Mn2+ transport into Golgi; involved in Ca2+ dependent protein sorting and processing; mutations in human homolog ATP2C1 cause acantholytic skin condition Hailey-Hailey disease
YDR405W	0.143603	YAP3	YDR405W|MRP20|S000002813|Mitochondrial ribosomal protein of the large subunit
YER096W	0.143258	YAP3	YER096W|SHC1|S000000898|Sporulation-specific activator of Chs3p (chitin synthase III), required for the synthesis of the chitosan layer of ascospores; has similarity to Skt5p, which activates Chs3p during vegetative growth; transcriptionally induced at alkaline pH
YGR291C	0.141994	YAP3	YGR291C||S000003523|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR022C	0.141854	YAP3	YDR022C|CIS1|S000002429|Autophagy-specific protein required for autophagosome formation; may form a complex with Atg17p and Atg29p that localizes other proteins to the pre-autophagosomal structure; high-copy suppressor of CIK1 deletion
YJR021C	0.141488	YAP3	YJR021C|REC107|S000003782|Protein involved in early stages of meiotic recombination; involved in coordination between the initiation of recombination and the first division of meiosis; part of a complex (Rec107p-Mei4p-Rec114p) required for ds break formation
YDR218C	0.141475	YAP3	YDR218C|SPR28|S000002626|Sporulation-specific homolog of the yeast CDC3/10/11/12 family of bud neck microfilament genes; meiotic septin expressed at high levels during meiotic divisions and ascospore formation
YNL064C	0.140687	YAP3	YNL064C|YDJ1|S000005008|Protein chaperone involved in regulation of the HSP90 and HSP70 functions; involved in protein translocation across membranes; member of the DnaJ family
YLR342W	0.14024	YAP3	YLR342W|FKS1|S000004334|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
YGL187C	0.139647	YAP3	YGL187C|COX4|S000003155|Subunit IV of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; N-terminal 25 residues of precursor are cleaved during mitochondrial import; phosphorylated
YPL194W	0.139458	YAP3	YPL194W|DDC1|S000006115|DNA damage checkpoint protein, part of a PCNA-like complex required for DNA damage response, required for pachytene checkpoint to inhibit cell cycle in response to unrepaired recombination intermediates; potential Cdc28p substrate
YGL118C	0.138437	YAP3	YGL118C||S000003086|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YEL011W	0.137578	YAP3	YEL011W|GLC3|S000000737|Glycogen branching enzyme, involved in glycogen accumulation; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YBL001C	0.137464	YAP3	YBL001C|ECM15|S000000097|Non-essential protein of unknown function, likely exists as tetramer, may be regulated by the binding of small-molecule ligands (possibly sulfate ions), may have a role in yeast cell-wall biogenesis
YCL054W	0.137218	YAP3	YCL054W|SPB1|S000000559|AdoMet-dependent methyltransferase involved in rRNA processing and 60S ribosomal subunit maturation; methylates G2922 in the tRNA docking site of the large subunit rRNA and in the absence of snR52, U2921; suppressor of PAB1 mutants
YFL034W	0.136307	YAP3	YFL034W||S000001860|Putative integral membrane protein that interacts with Rpp0p, which is a component of the ribosomal stalk
YER111C	0.136134	YAP3	YER111C|SWI4|S000000913|DNA binding component of the SBF complex (Swi4p-Swi6p), a transcriptional activator that in concert with MBF (Mbp1-Swi6p) regulates late G1-specific transcription of targets including cyclins and genes required for DNA synthesis and repair
YPR106W	0.136088	YAP3	YPR106W|ISR1|S000006310|Predicted protein kinase, overexpression causes sensitivity to staurosporine, which is a potent inhibitor of protein kinase C
YDR335W	0.135786	YAP3	YDR335W|MSN5|S000002743|Karyopherin involved in nuclear import and export; shown to be responsible for nuclear import of replication protein A and for export of several proteins including Swi6p, Far1p, and Pho4p; cargo dissociation involves binding to RanGTP
YGR278W	0.135041	YAP3	YGR278W|CWC22|S000003510|Essential protein, component of a complex containing Cef1p, has similarity to S. pombe Cwf22p; putative spliceosomal component, based on computational analysis of large-scale protein-protein interaction data
YNL018C	0.134771	YAP3	YNL018C||S000004963|Putative protein of unknown function
YDR505C	0.134432	YAP3	YDR505C|PSP1|S000002913|Asn and gln rich protein of unknown function; high-copy suppressor of POL1 (DNA polymerase alpha) and partial suppressor of CDC2 (polymerase delta) and CDC6 (pre-RC loading factor) mutations; overexpression results in growth inhibition
YNL008C	0.134262	YAP3	YNL008C|ASI3|S000004953|Putative integral membrane E3 ubiquitin ligase; acts with Asi1p and Asi2p to ensure the fidelity of SPS-sensor signalling by maintaining the dormant repressed state of gene expression in the absence of inducing signals
YKL088W	0.133055	YAP3	YKL088W||S000001571|Predicted phosphopantothenoylcysteine decarboxylase, may be involved in coenzyme A biosynthesis; interacts with Sis2p and Vhs3p
YJL112W	0.131746	YAP3	YJL112W|MDV1|S000003648|Peripheral protein of the cytosolic face of the mitochondrial outer membrane, required for mitochondrial fission; interacts with Fis1p and with the dynamin-related GTPase Dnm1p; contains WD repeats
YPR078C	0.131303	YAP3	YPR078C||S000006282|Putative protein of unknown function; possible role in DNA metabolism and/or in genome stability; expression is heat-inducible
YMR196W	0.131224	YAP3	YMR196W||S000004809|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR196W is not an essential gene
YJL142C	0.131185	YAP3	YJL142C|IRC9|S000003678|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene YJL141C; null mutant displays increased levels of spontaneous Rad52p foci
YDR293C	0.13106	YAP3	YDR293C|SSD1|S000002701|Protein with a role in maintenance of cellular integrity, interacts with components of the TOR pathway; ssd1 mutant of a clinical S. cerevisiae strain displays elevated virulence
YDL128W	0.130979	YAP3	YDL128W|VCX1|S000002286|Vacuolar H+/Ca2+ exchanger involved in control of cytosolic Ca2+ concentration; has similarity to sodium/calcium exchangers, including the bovine Na+/Ca2+,K+ antiporter
YKL204W	0.128701	YAP3	YKL204W|EAP1|S000001687|eIF4E-associated protein, binds eIF4E and inhibits cap-dependent translation, also functions independently of eIF4E to maintain genetic stability; plays a role in cell growth, implicated in the TOR signaling cascade
YOR066W	0.128137	YAP3	YOR066W|MSA1|S000005592|Activator of G1-specific transcription factors, MBF and SBF, that regulates both the timing of G1-specific gene transcription, and cell cycle initiation; potential Cdc28p substrate
YDL210W	0.127516	YAP3	YDL210W|UGA4|S000002369|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
YDR528W	0.1275	YAP3	YDR528W|HLR1|S000002936|Protein involved in regulation of cell wall composition and integrity and response to osmotic stress; overproduction suppresses a lysis sensitive PKC mutation; similar to Lre1p, which functions antagonistically to protein kinase A
YPR023C	0.126882	YAP3	YPR023C|EAF3|S000006227|Esa1p-associated factor, nonessential component of the NuA4 acetyltransferase complex, homologous to Drosophila dosage compensation protein MSL3; plays a role in regulating Ty1 transposition
YKL095W	0.126812	YAP3	YKL095W|YJU2|S000001578|Essential protein required for pre-mRNA splicing; associates transiently with the spliceosomal NTC ("nineteen complex") and acts after Prp2p to promote the first catalytic reaction of splicing
YPR160W	0.126716	YAP3	YPR160W|GPH1|S000006364|Non-essential glycogen phosphorylase required for the mobilization of glycogen, activity is regulated by cyclic AMP-mediated phosphorylation, expression is regulated by stress-response elements and by the HOG MAP kinase pathway
YFL058W	0.126712	YAP3	YFL058W|THI5|S000001836|Protein involved in synthesis of the thiamine precursor hydroxymethylpyrimidine (HMP); member of a subtelomeric gene family including THI5, THI11, THI12, and THI13
YGL190C	0.126311	YAP3	YGL190C|CDC55|S000003158|Non-essential regulatory subunit B of protein phosphatase 2A, which has multiple roles in mitosis and protein biosynthesis; involved in regulation of mitotic exit; found in the nucleus of most cells, also at the bud neck and at the bud tip
YIL109C	0.125894	YAP3	YIL109C|SEC24|S000001371|Component of the Sec23p-Sec24p heterodimeric complex of the COPII vesicle coat; involved in ER to Golgi transport, cargo selection and autophagy; required for the binding of the Sec13 complex to ER membranes; homologous to Lst1p and Lss1p
YPL150W	0.125858	YAP3	YPL150W||S000006071|Putative protein kinase of unknown cellular role
YDR213W	0.125145	YAP3	YDR213W|UPC2|S000002621|Sterol regulatory element binding protein, induces transcription of sterol transport and biosynthetic genes; involved in the anaerobic induction of DAN/TIR mannoproteins and seripauperins; binucleate zinc cluster protein; Ecm22p homolog
YOR072W-A	0.124288	YAP3	YOR072W-A||S000028582|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YOR072W; originally identified by fungal homology and RT-PCR
YOR156C	0.123811	YAP3	YOR156C|NFI1|S000005682|SUMO ligase, catalyzes the covalent attachment of SUMO (Smt3p) to proteins; involved in maintenance of proper telomere length
YPL250C	0.123234	YAP3	YPL250C|ICY2|S000006171|Protein of unknown function; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate
YGR023W	0.122149	YAP3	YGR023W|MTL1|S000003255|Protein with both structural and functional similarity to Mid2p, which is a plasma membrane sensor required for cell integrity signaling during pheromone-induced morphogenesis; suppresses rgd1 null mutations
YPL190C	0.121302	YAP3	YPL190C|NAB3|S000006111|Single stranded RNA binding protein; acidic ribonucleoprotein; required for termination of non-poly(A) transcripts and efficient splicing; interacts with Nrd1p
YHR112C	0.120482	YAP3	YHR112C||S000001154|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YGL133W	0.120284	YAP3	YGL133W|ITC1|S000003101|Component 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
YCR018C-A	0.118634	YAP3	YCR018C-A||S000007230|Putative protein of unknown function; encoded opposite a Ty1 LTR
YOL083W	0.11817	YAP3	YOL083W||S000005443|Hypothetical protein
YER015W	0.117957	YAP3	YER015W|FAA2|S000000817|Long chain fatty acyl-CoA synthetase; accepts a wider range of acyl chain lengths than Faa1p, preferring C9:0-C13:0; involved in the activation of endogenous pools of fatty acids
YDR403W	0.117783	YAP3	YDR403W|DIT1|S000002811|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
YGL073W	0.117336	YAP3	YGL073W|HSF1|S000003041|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
YIL070C	0.116306	YAP3	YIL070C|MAM33|S000001332|Acidic protein of the mitochondrial matrix involved in oxidative phosphorylation; related to the human complement receptor gC1q-R
YPL240C	0.116122	YAP3	YPL240C|HSP82|S000006161|Hsp90 chaperone required for pheromone signaling and negative regulation of Hsf1p; docks with Tom70p for mitochondrial preprotein delivery; promotes telomerase DNA binding and nucleotide addition; interacts with Cns1p, Cpr6p, Cpr7p, Sti1p
YJL222W	0.116043	YAP3	YJL222W|VTH2|S000003758|Putative membrane glycoprotein with strong similarity to Vth1p and Pep1p/Vps10p, may be involved in vacuolar protein sorting
YLR461W	0.115169	YAP3	YLR461W|PAU4|S000004453|Part of 23-member seripauperin multigene family encoded mainly in subtelomeric regions, active during alcoholic fermentation, regulated by anaerobiosis, negatively regulated by oxygen, repressed by heme
YHR118C	0.114292	YAP3	YHR118C|ORC6|S000001160|Subunit of the origin recognition complex, which directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; phosphorylated by Cdc28p
YDL110C	0.113941	YAP3	YDL110C|TMA17|S000002268|Protein of unknown function that associates with ribosomes
YKL001C	0.113689	YAP3	YKL001C|MET14|S000001484|Adenylylsulfate kinase, required for sulfate assimilation and involved in methionine metabolism
YDL206W	0.113486	YAP3	YDL206W||S000002365|Putative protein of unknown function; YDL206W is not an essential protein
YHL046C	0.112913	YAP3	YHL046C|PAU13|S000001038|Putative protein of unknown function; not an essential gene
YPR127W	0.112709	YAP3	YPR127W||S000006331|Putative protein of unknown function; expression is activated by transcription factor YRM1/YOR172W; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
YBR218C	0.111663	YAP3	YBR218C|PYC2|S000000422|Pyruvate carboxylase isoform, cytoplasmic enzyme that converts pyruvate to oxaloacetate; highly similar to isoform Pyc1p but differentially regulated; mutations in the human homolog are associated with lactic acidosis
YIL089W	0.111491	YAP3	YIL089W||S000001351|Putative protein of unknown function
YOR147W	0.111271	YAP3	YOR147W|MDM32|S000005673|Mitochondrial inner membrane protein with similarity to Mdm31p, required for normal mitochondrial morphology and inheritance; interacts genetically with MMM1, MDM10, MDM12, and MDM34
YLR308W	0.111152	YAP3	YLR308W|CDA2|S000004299|Chitin deacetylase, together with Cda1p involved in the biosynthesis ascospore wall component, chitosan; required for proper rigidity of the ascospore wall
YHR138C	0.111075	YAP3	YHR138C||S000001180|Putative protein of unknown function; has similarity to Pbi2p; double null mutant lacking Pbi2p and Yhr138p exhibits highly fragmented vacuoles
YPL134C	0.111045	YAP3	YPL134C|ODC1|S000006055|Mitochondrial inner membrane transporter, exports 2-oxoadipate and 2-oxoglutarate from the mitochondrial matrix to the cytosol for lysine and glutamate biosynthesis and lysine catabolism; suppresses, in multicopy, an fmc1 null mutation
YMR279C	0.110978	YAP3	YMR279C||S000004892|Putative protein of unknown function; identified as a heat-induced gene in a high-throughout screen; YMR279C is not an essential gene
YBR157C	0.110373	YAP3	YBR157C|ICS2|S000000361|Protein of unknown function; null mutation does not confer any obvious defects in growth, spore germination, viability, or carbohydrate utilization
YMR017W	0.110278	YAP3	YMR017W|SPO20|S000004619|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
YEL028W	0.110041	YAP3	YEL028W||S000000754|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YEL012W	0.109789	YAP3	YEL012W|UBC8|S000000738|Ubiquitin-conjugating enzyme that negatively regulates gluconeogenesis by mediating the glucose-induced ubiquitination of fructose-1,6-bisphosphatase (FBPase); cytoplasmic enzyme that catalyzes the ubiquitination of histones in vitro
YJL127C-B	0.108849	YAP3	YJL127C-B||S000028522|Putative protein of unknown function; identified based on homology to the filamentous fungus, Ashbya gossypii
YHR184W	0.108125	YAP3	YHR184W|SSP1|S000001227|Protein involved in the control of meiotic nuclear division and coordination of meiosis with spore formation; transcription is induced midway through meiosis
YJR160C	0.1077	YAP3	YJR160C|MPH3|S000003921|Alpha-glucoside permease, transports maltose, maltotriose, alpha-methylglucoside, and turanose; identical to Mph2p; encoded in a subtelomeric position in a region likely to have undergone duplication
YMR014W	0.10663	YAP3	YMR014W|BUD22|S000004616|Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
YNL332W	0.106605	YAP3	YNL332W|THI12|S000005276|Protein involved in synthesis of the thiamine precursor hydroxymethylpyrimidine (HMP); member of a subtelomeric gene family including THI5, THI11, THI12, and THI13
YKL067W	0.106247	YAP3	YKL067W|YNK1|S000001550|Nucleoside diphosphate kinase, catalyzes the transfer of gamma phosphates from nucleoside triphosphates, usually ATP, to nucleoside diphosphates by a mechanism that involves formation of an autophosphorylated enzyme intermediate
YGR009C	0.104902	YAP3	YGR009C|SEC9|S000003241|t-SNARE protein important for fusion of secretory vesicles with the plasma membrane; similar to but not functionally redundant with Spo20p; SNAP-25 homolog
YEL010W	0.104566	YAP3	YEL010W||S000000736|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJR115W	0.103828	YAP3	YJR115W||S000003876|Putative protein of unknown function
YMR096W	0.103796	YAP3	YMR096W|SNZ1|S000004702|Protein involved in vitamin B6 biosynthesis; member of a stationary phase-induced gene family; coregulated with SNO1; interacts with Sno1p and with Yhr198p, perhaps as a multiprotein complex containing other Snz and Sno proteins
YPL196W	0.103062	YAP3	YPL196W|OXR1|S000006117|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 but not in prokaryotes
YPR151C	0.103013	YAP3	YPR151C|SUE1|S000006355|Mitochondrial protein required for degradation of unstable forms of cytochrome c
YER004W	0.102217	YAP3	YER004W|FMP52|S000000806|Protein of unknown function, localized to the mitochondrial outer membrane; induced by treatment with 8-methoxypsoralen and UVA irradiation
YMR317W	0.101878	YAP3	YMR317W||S000004936|Putative protein of unknown function with some similarity to sialidase from Trypanosoma; YMR317W is not an essential gene
YML029W	0.100922	YAP3	YML029W|USA1|S000004491|Protein involved in ER-associated protein degradation (ERAD); component of the Hrd1p complex; interacts with the U1 snRNP-specific protein, Snp1p
YDR533C	0.100836	YAP3	YDR533C|HSP31|S000002941|Possible chaperone and cysteine protease with 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
YIR023W	0.100414	YAP3	YIR023W|DAL81|S000001462|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
YOR308C	0.0999208	YAP3	YOR308C|SNU66|S000005835|Component of the U4/U6.U5 snRNP complex involved in pre-mRNA splicing via spliceosome; has homology to human SART-1 and to an S. pombe protein; snu66 null mutation confers cold-sensitivity but is not lethal at normal growth temperatures
YJL016W	0.0998291	YAP3	YJL016W||S000003553|Putative protein of unknown function; GFP-fusion protein localizes to the cytoplasm; conserved in closely related Saccharomyces species
YCL001W-B	0.0995624	YAP3	YCL001W-B||S000007596|Putative protein of unknown function; identified by homology
YDR036C	0.0994431	YAP3	YDR036C|EHD3|S000002443|3-hydroxyisobutyryl-CoA hydrolase, member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis
YOR358W	0.0993795	YAP3	YOR358W|HAP5|S000005885|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
YAR027W	0.0993362	YAP3	YAR027W|UIP3|S000000075|Putative integral membrane protein of unknown function; interacts with Ulp1p at the nuclear periphery; member of DUP240 gene family
YLR457C	0.099241	YAP3	YLR457C|NBP1|S000004449|Spindle pole body (SPB) component, required for the insertion of the duplication plaque into the nuclear membrane during SPB duplication; essential for bipolar spindle formation; component of the Mps2p-Bbp1p complex
YDL246C	0.0986448	YAP3	YDL246C|SOR2|S000002405|Protein of unknown function, computational analysis of large-scale protein-protein interaction data suggests a possible role in fructose or mannose metabolism
YER046W	0.0984855	YAP3	YER046W|SPO73|S000000848|Meiosis-specific protein of unknown function, required for spore wall formation during sporulation; dispensible for both nuclear divisions during meiosis
YOL159C	0.0974771	YAP3	YOL159C||S000005519|Soluble protein of unknown function; deletion mutants are viable and have elevated levels of Ty1 retrotransposition and Ty1 cDNA
YBR201C-A	0.0967082	YAP3	YBR201C-A||S000087085|Putative protein of unknown function
YGR022C	0.0966494	YAP3	YGR022C||S000003254|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF MTL1/YGR023W
YLL060C	0.0965793	YAP3	YLL060C|GTT2|S000003983|Glutathione S-transferase capable of homodimerization; functional overlap with Gtt2p, Grx1p, and Grx2p
YOR344C	0.0965225	YAP3	YOR344C|TYE7|S000005871|Serine-rich protein that contains a basic-helix-loop-helix (bHLH) DNA binding motif; binds E-boxes of glycolytic genes and contributes to their activation; may function as a transcriptional activator in Ty1-mediated gene expression
YHR082C	0.0963117	YAP3	YHR082C|KSP1|S000001124|Nonessential putative serine/threonine protein kinase of unknown cellular role; overproduction causes allele-specific suppression of the prp20-10 mutation
YHR079C-A	0.0960208	YAP3	YHR079C-A|SAE3|S000001957|Meiosis specific protein involved in DMC1-dependent meiotic recombination, forms heterodimer with Mei5p; proposed to be an assembly factor for Dmc1p
YAL051W	0.0950416	YAP3	YAL051W|OAF1|S000000048|Oleate-activated transcription factor, acts alone and as a heterodimer with Pip2p; activates genes involved in beta-oxidation of fatty acids and peroxisome organization and biogenesis
YJL045W	0.0949242	YAP3	YJL045W||S000003581|Minor succinate dehydrogenase isozyme; homologous to Sdh1p, the major isozyme reponsible for the oxidation of succinate and transfer of electrons to ubiquinone; induced during the diauxic shift in a Cat8p-dependent manner
YGL258W-A	0.0946784	YAP3	YGL258W-A||S000007607|Putative protein of unknown function
YML118W	0.0935958	YAP3	YML118W|NGL3|S000004587|Putative endonuclease, has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; similar to Ngl1p and Ngl2p
YIL107C	0.0935131	YAP3	YIL107C|PFK26|S000001369|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
YFL030W	0.0932806	YAP3	YFL030W|AGX1|S000001864|Alanine:glyoxylate aminotransferase (AGT), catalyzes the synthesis of glycine from glyoxylate, which is one of three pathways for glycine biosynthesis in yeast; has similarity to mammalian and plant alanine:glyoxylate aminotransferases
YLR039C	0.0932205	YAP3	YLR039C|RIC1|S000004029|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
YJL006C	0.0930305	YAP3	YJL006C|CTK2|S000003543|Beta subunit of C-terminal domain kinase I (CTDK-I), which phosphorylates the C-terminal repeated domain of the RNA polymerase II large subunit (Rpo21p) to affect both transcription and pre-mRNA 3' end processing; has similarity to cyclins
YKL102C	0.0924135	YAP3	YKL102C||S000001585|Dubious open reading frame unlikely to encode a functional protein; deletion confers sensitivity to citric acid; predicted protein would include a thiol-disulfide oxidoreductase active site
YLR015W	0.0922259	YAP3	YLR015W|BRE2|S000004005|Subunit of the COMPASS (Set1C) complex, which methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; involved in telomere maintenance; similar to trithorax-group protein ASH2L
YLL054C	0.092091	YAP3	YLL054C||S000003977|Putative protein of unknown function with similarity to Pip2p, an oleate-specific transcriptional activator of peroxisome proliferation; YLL054C is not an essential gene
YPL025C	0.091919	YAP3	YPL025C||S000005946|Hypothetical protein
YBL030C	0.0918661	YAP3	YBL030C|PET9|S000000126|Major ADP/ATP carrier of the mitochondrial inner membrane, exchanges cytosolic ADP for mitochondrially synthesized ATP; phosphorylated; required for viability in many common lab strains carrying a mutation in the polymorphic SAL1 gene
YMR182C	0.0915047	YAP3	YMR182C|RGM1|S000004794|Putative transcriptional repressor with proline-rich zinc fingers; overproduction impairs cell growth
YDR301W	0.090833	YAP3	YDR301W|CFT1|S000002709|RNA-binding subunit of the mRNA cleavage and polyadenylation factor; involved in poly(A) site recognition and required for both pre-mRNA cleavage and polyadenylation, 51% sequence similarity with mammalian AAUAA-binding subunit of CPSF
YLR184W	0.0903542	YAP3	YLR184W||S000004174|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGR110W	0.0897347	YAP3	YGR110W||S000003342|Putative protein of unknown function; transcription is increased in response to genotoxic stress; plays a role in restricting Ty1 transposition
YMR254C	0.089523	YAP3	YMR254C||S000004867|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR164W	0.0893118	YAP3	YLR164W||S000004154|Mitochondrial inner membrane of unknown function; similar to Tim18p and Sdh4p; expression induced by nitrogen limitation in a GLN3, GAT1-dependent manner
YLR326W	0.0893077	YAP3	YLR326W||S000004318|Hypothetical protein
YBR016W	0.0892197	YAP3	YBR016W||S000000220|Plasma membrane protein of unknown function; has similarity to hydrophilins, which are hydrophilic, glycine-rich proteins involved in the adaptive response to hyperosmotic conditions
YHR004C	0.0888406	YAP3	YHR004C|NEM1|S000001046|Catalytic subunit of Nem1p-Spo7p phosphatase holoenzyme, which regulates nuclear growth by controlling recruitment of Pah1p onto promoters of phospholipid biosynthetic genes; required for normal nuclear envelope morphology and sporulation
YPL161C	0.0888313	YAP3	YPL161C|BEM4|S000006082|Protein involved in establishment of cell polarity and bud emergence; interacts with the Rho1p small GTP-binding protein and with the Rho-type GTPase Cdc42p; involved in maintenance of proper telomere length
YBR280C	0.0883949	YAP3	YBR280C|SAF1|S000000484|F-Box protein involved in proteasome-dependent degradation of Aah1p during entry of cells into quiescence; interacts with Skp1
YMR316C-A	0.0880185	YAP3	YMR316C-A||S000004933|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified gene DIA1/YMR316W
YHR209W	0.0876478	YAP3	YHR209W|CRG1|S000001252|Putative S-adenosylmethionine-dependent methyltransferase; mediates cantharidin resistance
YEL059C-A	0.0865037	YAP3	YEL059C-A|SOM1|S000002954|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
YGL074C	0.0856115	YAP3	YGL074C||S000003042|Dubious open reading frame unlikely to encode a functional protein; overlaps 5' end of essential HSF1 gene encoding heat shock transcription factor
YFL052W	0.0846426	YAP3	YFL052W||S000001842|Putative zinc cluster protein that contains a DNA binding domain; null mutant sensitive to calcofluor white, low osmolarity and heat, suggesting a role for YFL052Wp in cell wall integrity
YOR319W	0.0846058	YAP3	YOR319W|HSH49|S000005846|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)
YMR316C-B	0.0836819	YAP3	YMR316C-B||S000004934|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOL050C	0.0835123	YAP3	YOL050C||S000005410|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps verified gene GAL11; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
YOR371C	0.0831817	YAP3	YOR371C|GPB1|S000005898|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; homolog of Gpb2p
YNL214W	0.0829908	YAP3	YNL214W|PEX17|S000005158|Peroxisomal membrane peroxin and subunit of the docking complex that facilitates the import of peroxisomal matrix proteins; required for peroxisome biogenesis
YGL166W	0.0829589	YAP3	YGL166W|CUP2|S000003134|Copper-binding transcription factor; activates transcription of the metallothionein genes CUP1-1 and CUP1-2 in response to elevated copper concentrations
YPR024W	0.0829245	YAP3	YPR024W|YME1|S000006228|Subunit, with Mgr1p, of the mitochondrial inner membrane i-AAA protease complex, which is responsible for degradation of unfolded or misfolded mitochondrial gene products; mutation causes an elevated rate of mitochondrial turnover
YCR101C	0.0827413	YAP3	YCR101C||S000000698|Putative protein of unknown function; localizes to the membrane fraction; YCR101C is not an essential gene
YDR334W	0.0811004	YAP3	YDR334W|SWR1|S000002742|Swi2/Snf2-related ATPase that is the structural component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A
YNL285W	0.0810598	YAP3	YNL285W||S000005229|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGR233C	0.0806194	YAP3	YGR233C|PHO81|S000003465|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
YCR076C	0.0805962	YAP3	YCR076C||S000000672|Putative protein of unknown function; YCR076C is not an essential gene
YJL060W	0.0803797	YAP3	YJL060W|BNA3|S000003596|Kynurenine aminotransferase, catalyzes formation of kynurenic acid from kynurenine; potential Cdc28p substrate
YCL016C	0.0803386	YAP3	YCL016C|DCC1|S000000521|Subunit of a complex with Ctf8p and Ctf18p that shares some components with Replication Factor C, required for sister chromatid cohesion and telomere length maintenance
YPL016W	0.0800366	YAP3	YPL016W|SWI1|S000005937|Subunit of the SWI/SNF chromatin remodeling complex, which regulates transcription by remodeling chromosomes; required for transcription of many genes, including ADH1, ADH2, GAL1, HO, INO1 and SUC2; can become prion [SWI+]
YNL283C	0.0799843	YAP3	YNL283C|WSC2|S000005227|Partially redundant sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway involved in maintenance of cell wall integrity and recovery from heat shock; secretory pathway Wsc2p is required for the arrest of secretion response
YNL197C	0.0799432	YAP3	YNL197C|WHI3|S000005141|RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start
YOL128C	0.0798119	YAP3	YOL128C|YGK3|S000005488|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
YOR065W	0.0794577	YAP3	YOR065W|CYT1|S000005591|Cytochrome c1, component of the mitochondrial respiratory chain; expression is regulated by the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex
YOR378W	0.0793456	YAP3	YOR378W||S000005905|Putative protein of unknown function; belongs to the DHA2 family of drug:H+ antiporters; YOR378W is not an essential gene
YER059W	0.0792461	YAP3	YER059W|PCL6|S000000861|Pho85p cyclin of the Pho80p subfamily; forms the major Glc8p kinase together with Pcl7p and Pho85p; involved in the control of glycogen storage by Pho85p; stabilized by Elongin C binding
YDR122W	0.078824	YAP3	YDR122W|KIN1|S000002529|Serine/threonine protein kinase involved in regulation of exocytosis; localizes to the cytoplasmic face of the plasma membrane; closely related to Kin2p
YPL106C	0.0785569	YAP3	YPL106C|SSE1|S000006027|ATPase that is a component of the heat shock protein Hsp90 chaperone complex; binds unfolded proteins; member of the heat shock protein 70 (HSP70) family; localized to the cytoplasm
YDL113C	0.0783507	YAP3	YDL113C|ATG20|S000002271|Sorting nexin family member required for the cytoplasm-to-vacuole targeting (Cvt) pathway and for endosomal sorting; has a Phox homology domain that binds phosphatidylinositol-3-phosphate; interacts with Snx4p; potential Cdc28p substrate
YOL034W	0.078017	YAP3	YOL034W|SMC5|S000005394|Structural maintenance of chromosomes (SMC) protein; essential subunit of the Mms21-Smc5-Smc6 complex; required for growth and DNA repair; S. pombe homolog forms a heterodimer with S. pombe Rad18p that is involved in DNA repair
YOR193W	0.0779261	YAP3	YOR193W|PEX27|S000005719|Peripheral peroxisomal membrane protein involved in controlling peroxisome size and number, interacts with homologous protein Pex25p
YLR315W	0.0777242	YAP3	YLR315W|NKP2|S000004307|Non-essential kinetochore protein, subunit of the Ctf19 central kinetochore complex (Ctf19p-Mcm21p-Okp1p-Mcm22p-Mcm16p-Ctf3p-Chl4p-Mcm19p-Nkp1p-Nkp2p-Ame1p-Mtw1p)
YGL004C	0.0771944	YAP3	YGL004C|RPN14|S000002972|Putative non-ATPase subunit of the 19S regulatory particle of the 26S proteasome; localized to the cytoplasm
YPL279C	0.0767833	YAP3	YPL279C||S000006200|Putative protein of unknown function
YOR137C	0.0765669	YAP3	YOR137C|SIA1|S000005663|Protein of unassigned function involved in activation of the Pma1p plasma membrane H+-ATPase by glucose
YDR473C	0.0757469	YAP3	YDR473C|PRP3|S000002881|Splicing factor, component of the U4/U6-U5 snRNP complex
YLL058W	0.075092	YAP3	YLL058W||S000003981|Putative protein of unknown function with similarity to Str2p, which is a cystathionine gamma-synthase important in sulfur metabolism; YLL058W is not an essential gene
YPL123C	0.0750378	YAP3	YPL123C|RNY1|S000006044|RNAse; member of the T(2) family of endoribonucleases
YHR022C	0.0749538	YAP3	YHR022C||S000001064|Putative protein of unknown function; YHR022C is not an essential gene.
YER158W-A	0.0748887	YAP3	YER158W-A||S000028624|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YNL172W	0.074688	YAP3	YNL172W|APC1|S000005116|Largest subunit of the Anaphase-Promoting Complex/Cyclosome (APC/C), which is a ubiquitin-protein ligase required for degradation of anaphase inhibitors, including mitotic cyclins, during the metaphase/anaphase transition
YMR253C	0.0744253	YAP3	YMR253C||S000004866|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YMR253C is not an essential gene
YKL017C	0.0741164	YAP3	YKL017C|HCS1|S000001500|Hexameric DNA polymerase alpha-associated DNA helicase A involved in lagging strand DNA synthesis; contains single-stranded DNA stimulated ATPase and dATPase activities; replication protein A stimulates helicase and ATPase activities
YBR291C	0.0737573	YAP3	YBR291C|CTP1|S000000495|Mitochondrial inner membrane citrate transporter, member of the mitochondrial carrier family
YLR304C	0.0733829	YAP3	YLR304C|ACO1|S000004295|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
YGR137W	0.0723626	YAP3	YGR137W||S000003369|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHR151C	0.0722203	YAP3	YHR151C|MTC6|S000001194|Putative protein of unknown function; YHR151C is synthetically sick with cdc13-1
YIR003W	0.0721128	YAP3	YIR003W|AIM21|S000001442|Protein of unknown function; may interact with ribosomes; GFP-fusion protein colocalizes with Sac1p to the actin cytoskeleton; null mutant displays increased frequency of mitochondrial genome loss (petite formation)
YHR021W-A	0.0720062	YAP3	YHR021W-A|ECM12|S000003531|Non-essential protein of unknown function
YDR442W	0.0720017	YAP3	YDR442W||S000002850|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPL141C	0.0712385	YAP3	YPL141C||S000006062|Putative protein kinase; similar to Kin4p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL141C is not an essential gene
YMR095C	0.0710738	YAP3	YMR095C|SNO1|S000004701|Protein of unconfirmed function, involved in pyridoxine metabolism; expression is induced during stationary phase; forms a putative glutamine amidotransferase complex with Snz1p, with Sno1p serving as the glutaminase
YER071C	0.0709129	YAP3	YER071C||S000000873|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YMR311C	0.070848	YAP3	YMR311C|GLC8|S000004928|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
YGL144C	0.0706776	YAP3	YGL144C|ROG1|S000003112|Protein with putative serine active lipase domain
YHR080C	0.0701304	YAP3	YHR080C||S000001122|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDL037C	0.0693933	YAP3	YDL037C|BSC1|S000002195|Protein of unconfirmed function, similar to cell surface flocculin Muc1p; ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
YDL224C	0.0693695	YAP3	YDL224C|WHI4|S000002383|Putative RNA binding protein and partially redundant Whi3p homolog that regulates the cell size requirement for passage through Start and commitment to cell division
YFL024C	0.0688145	YAP3	YFL024C|EPL1|S000001870|Component of NuA4, which is an essential histone H4/H2A acetyltransferase complex; homologous to Drosophila Enhancer of Polycomb
YOL035C	0.0687183	YAP3	YOL035C||S000005395|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YNL047C	0.0686456	YAP3	YNL047C|SLM2|S000004992|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; subunit of and phosphorylated by the TORC2 complex
YLR001C	0.0684279	YAP3	YLR001C||S000003991|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR001C is not an essential gene
YGL104C	0.0678915	YAP3	YGL104C|VPS73|S000003072|Mitochondrial protein; mutation affects vacuolar protein sorting; putative transporter; member of the sugar porter family
YOR128C	0.0678686	YAP3	YOR128C|ADE2|S000005654|Phosphoribosylaminoimidazole carboxylase, catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway; red pigment accumulates in mutant cells deprived of adenine
YDR114C	0.0676465	YAP3	YDR114C||S000002521|Putative protein of unknown function; deletion mutant exhibits poor growth at elevated pH and calcium
YJR146W	0.0674605	YAP3	YJR146W||S000003907|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HMS2
YFR013W	0.067386	YAP3	YFR013W|IOC3|S000001909|Member of a complex (Isw1a) with Isw1p that has nucleosome-stimulated ATPase activity and represses transcription initiation by specific positioning of a promoter proximal dinucleosome; has homology to Esc8p, which is involved in silencing
YHR023W	0.0672902	YAP3	YHR023W|MYO1|S000001065|Type II myosin heavy chain, required for wild-type cytokinesis and cell separation; localizes to the actomyosin ring; binds to myosin light chains Mlc1p and Mlc2p through its IQ1 and IQ2 motifs respectively
YGR134W	0.0671006	YAP3	YGR134W|CAF130|S000003366|Part of the evolutionarily-conserved CCR4-NOT transcriptional regulatory complex involved in controlling mRNA initiation, elongation, and degradation
YBR128C	0.0670071	YAP3	YBR128C|ATG14|S000000332|Autophagy-specific subunit of phosphatidylinositol 3-kinase complex I (with Vps34p, Vps15p, and Vps30p); Atg14p targets complex I to the pre-autophagosomal structure (PAS); required for localizing additional ATG proteins to the PAS
YER159C	0.066854	YAP3	YER159C|BUR6|S000000961|Subunit of a heterodimeric NC2 transcription regulator complex with Ncb2p; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2alpha
YPR169W-A	0.0662455	YAP3	YPR169W-A||S000028591|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps two other dubious ORFs: YPR170C and YPR170W-B
YOR298C-A	0.0661517	YAP3	YOR298C-A|MBF1|S000007253|Transcriptional coactivator that bridges the DNA-binding region of Gcn4p and TATA-binding protein Spt15p; suppressor of frameshift mutations
YMR117C	0.0654969	YAP3	YMR117C|SPC24|S000004723|Component of the evolutionarily conserved kinetochore-associated Ndc80 complex (Ndc80p-Nuf2p-Spc24p-Spc25p); involved in chromosome segregation, spindle checkpoint activity and kinetochore clustering
YOR390W	0.0653556	YAP3	YOR390W||S000005917|Putative protein of unknown function
YBR082C	0.0652589	YAP3	YBR082C|UBC4|S000000286|Ubiquitin-conjugating enzyme (E2), mediates degradation of short-lived and abnormal proteins; interacts with E3-CaM in ubiquitinating calmodulin; interacts with many SCF ubiquitin protein ligases; component of the cellular stress response
YOR389W	0.0652489	YAP3	YOR389W||S000005916|Putative protein of unknown function; expression regulated by copper levels
YPL236C	0.0650175	YAP3	YPL236C||S000006157|Putative protein kinase that exhibits Akr1p-dependent palmitoylation
YNL017C	0.0642616	YAP3	YNL017C||S000004962|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the tRNA ORF tI(AAU)N2
YBR132C	0.0639433	YAP3	YBR132C|AGP2|S000000336|High affinity polyamine permease, preferentially uses spermidine over putrescine; expression is down-regulated by osmotic stress; plasma membrane carnitine transporter, also functions as a low-affinity amino acid permease
YKL015W	0.0637221	YAP3	YKL015W|PUT3|S000001498|Transcriptional activator of proline utilization genes, constitutively binds PUT1 and PUT2 promoter sequences and undergoes a conformational change to form the active state; has a Zn(2)-Cys(6) binuclear cluster domain
YML122C	0.063697	YAP3	YML122C||S000004591|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGL222C	0.0636542	YAP3	YGL222C|EDC1|S000003190|RNA-binding protein, activates mRNA decapping directly by binding to the mRNA substrate and enhancing the activity of the decapping proteins Dcp1p and Dcp2p
YCR032W	0.0633793	YAP3	YCR032W|BPH1|S000000628|PProtein homologous to human Chediak-Higashi syndrome and murine Beige proteins, which are implicated in disease syndromes due to defective lysosomal trafficking; mutant phenotype and genetic interactions suggest a role in protein sorting
YOR113W	0.0633615	YAP3	YOR113W|AZF1|S000005639|Zinc-finger transcription factor, involved in induction of CLN3 transcription in response to glucose; genetic and physical interactions indicate a possible role in mitochondrial transcription or genome maintenance
YDL054C	0.0633283	YAP3	YDL054C|MCH1|S000002212|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
YGR286C	0.0629778	YAP3	YGR286C|BIO2|S000003518|Biotin synthase, catalyzes the conversion of dethiobiotin to biotin, which is the last step of the biotin biosynthesis pathway; complements E. coli bioB mutant
YGL059W	0.0627525	YAP3	YGL059W|PKP2|S000003027|Mitochondrial protein kinase that negatively regulates activity of the pyruvate dehydrogenase complex by phosphorylating the ser-133 residue of the Pda1p subunit; acts in concert with kinase Pkp1p and phosphatases Ptc5p and Ptc6p
YGR011W	0.0627142	YAP3	YGR011W||S000003243|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDL124W	0.0622931	YAP3	YDL124W||S000002282|NADPH-dependent alpha-keto amide reductase; reduces aromatic alpha-keto amides, aliphatic alpha-keto esters, and aromatic alpha-keto esters; member of the aldo-keto reductase (AKR) family
YCL040W	0.0620956	YAP3	YCL040W|GLK1|S000000545|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
YBR059C	0.0620578	YAP3	YBR059C|AKL1|S000000263|Ser-Thr protein kinase, member (with Ark1p and Prk1p) of the Ark kinase family; involved in endocytosis and actin cytoskeleton organization
YDR537C	0.0618886	YAP3	YDR537C||S000002945|Dubious open reading frame unlikely to encode a protein, almost completely overlaps verified ORF PAD1/YDR538W
YIR002C	0.0614163	YAP3	YIR002C|MPH1|S000001441|Member of the DEAH family of helicases, functions in an error-free DNA damage bypass pathway that involves homologous recombination, mutations confer a mutator phenotype
YIL031W	0.0612099	YAP3	YIL031W|ULP2|S000001293|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
YOR346W	0.0611292	YAP3	YOR346W|REV1|S000005873|Deoxycytidyl transferase, forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p; involved in repair of abasic sites in damaged DNA
YHR172W	0.0609542	YAP3	YHR172W|SPC97|S000001215|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
YDR228C	0.0607274	YAP3	YDR228C|PCF11|S000002636|mRNA 3' end processing factor, essential component of cleavage and polyadenylation factor IA (CF IA), involved in pre-mRNA 3' end processing and in transcription termination; binds C-terminal domain of largest subunit of RNA pol II (Rpo21p)
YDR513W	0.0606253	YAP3	YDR513W|GRX2|S000002921|Cytoplasmic glutaredoxin, thioltransferase, glutathione-dependent disulfide oxidoreductase involved in maintaining redox state of target proteins, also exhibits glutathione peroxidase activity, expression induced in response to stress
YNL164C	0.0604072	YAP3	YNL164C|IBD2|S000005108|Component of the BUB2-dependent spindle checkpoint pathway, interacts with Bfa1p and functions upstream of Bub2p and Bfa1p
YLR433C	0.0602458	YAP3	YLR433C|CNA1|S000004425|Calcineurin A; one isoform (the other is CMP2) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1
YDR446W	0.0600898	YAP3	YDR446W|ECM11|S000002854|Non-essential protein apparently involved in meiosis, GFP fusion protein is present in discrete clusters in the nucleus throughout mitosis; may be involved in maintaining chromatin structure
YFR015C	0.0595704	YAP3	YFR015C|GSY1|S000001911|Glycogen synthase with similarity to Gsy2p, the more highly expressed yeast homolog; expression induced by glucose limitation, nitrogen starvation, environmental stress, and entry into stationary phase
YER186C	0.0594876	YAP3	YER186C||S000000988|Putative protein of unknown function
YPR121W	0.0592553	YAP3	YPR121W|THI22|S000006325|Protein with similarity to hydroxymethylpyrimidine phosphate kinases; member of a gene family with THI20 and THI21; not required for thiamine biosynthesis
YMR120C	0.0589033	YAP3	YMR120C|ADE17|S000004727|Enzyme of 'de novo' purine biosynthesis containing both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities, isozyme of Ade16p; ade16 ade17 mutants require adenine and histidine
YBR230C	0.0586936	YAP3	YBR230C|OM14|S000000434|Integral mitochondrial outer membrane protein; abundance is decreased in cells grown in glucose relative to other carbon sources; appears to contain 3 alpha-helical transmembrane segments; ORF encodes a 97-basepair intron
YEL041W	0.0585763	YAP3	YEL041W|YEF1|S000000767|ATP-NADH kinase; phosphorylates both NAD and NADH; homooctameric structure consisting of 60-kDa subunits; sequence similarity to Utr1p and Pos5p; overexpression complements certain pos5 phenotypes
YPL148C	0.0585123	YAP3	YPL148C|PPT2|S000006069|Phosphopantetheine:protein transferase (PPTase), activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation
YGL193C	0.058476	YAP3	YGL193C||S000003161|Haploid-specific gene repressed by a1-alpha2, turned off in sir3 null strains, absence enhances the sensitivity of rad52-327 cells to campothecin almost 100-fold
YBR060C	0.0582466	YAP3	YBR060C|ORC2|S000000264|Subunit of the origin recognition complex, which directs DNA replication by binding to replication origins and is also involved in transcriptional silencing; phosphorylated by Cdc28p
YCR098C	0.05786	YAP3	YCR098C|GIT1|S000000695|Plasma membrane permease, mediates uptake of glycerophosphoinositol and glycerophosphocholine as sources of the nutrients inositol and phosphate; expression and transport rate are regulated by phosphate and inositol availability
YJL043W	0.0578115	YAP3	YJL043W||S000003579|Putative protein of unknown function; YJL043W is a non-essential gene
YCL044C	0.0577801	YAP3	YCL044C|MGR1|S000000549|Subunit, with Yme1p, of the mitochondrial inner membrane i-AAA protease complex, which is responsible for degradation of unfolded or misfolded mitochondrial gene products; required for growth of cells lacking the mitochondrial genome
YJL047C	0.0576313	YAP3	YJL047C|RTT101|S000003583|Cullin subunit of a Roc1p-dependent E3 ubiquitin ligase complex; deletion phenotype suggests a role in anaphase progression; interacts with Mms22p and implicated in Mms22-dependent DNA repair; modified by the ubiquitin-like protein, Rub1p
YKL210W	0.0567734	YAP3	YKL210W|UBA1|S000001693|Ubiquitin activating enzyme (E1), involved in ubiquitin-mediated protein degradation and essential for viability
YBL108W	0.0564827	YAP3	YBL108W||S000000204|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YBR230W-A	0.0564198	YAP3	YBR230W-A||S000029722|Putative protein of unknown function
YMR304W	0.0563205	YAP3	YMR304W|UBP15|S000004920|Ubiquitin-specific protease that may play a role in ubiquitin precursor processing
YOR211C	0.056071	YAP3	YOR211C|MGM1|S000005737|Mitochondrial GTPase related to dynamin, present in a complex containing Ugo1p and Fzo1p; required for normal morphology of cristae and for stability of Tim11p; homolog of human OPA1 involved in autosomal dominant optic atrophy
YML055W	0.0556253	YAP3	YML055W|SPC2|S000004519|Subunit of signal peptidase complex (Spc1p, Spc2p, Spc3p, Sec11p), which catalyzes cleavage of N-terminal signal sequences of proteins targeted to the secretory pathway; homologous to mammalian SPC25
YFL003C	0.0555826	YAP3	YFL003C|MSH4|S000001891|Protein involved in meiotic recombination, required for normal levels of crossing over, colocalizes with Zip2p to discrete foci on meiotic chromosomes, has homology to bacterial MutS protein
YEL024W	0.055355	YAP3	YEL024W|RIP1|S000000750|Ubiquinol-cytochrome-c reductase, a Rieske iron-sulfur protein of the mitochondrial cytochrome bc1 complex; transfers electrons from ubiquinol to cytochrome c1 during respiration
YCR001W	0.05509	YAP3	YCR001W||S000000594|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YCR001W is not an essential gene
YLR434C	0.0548605	YAP3	YLR434C||S000004426|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TSR2/YLR435W
YKL139W	0.054616	YAP3	YKL139W|CTK1|S000001622|Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I), which phosphorylates the C-terminal repeated domain of the RNA polymerase II large subunit (Rpo21p) to affect both transcription and pre-mRNA 3' end processing
YOR236W	0.0541805	YAP3	YOR236W|DFR1|S000005762|Dihydrofolate reductase, part of the dTTP biosynthetic pathway, involved in folate metabolism, possibly required for mitochondrial function
YDR445C	0.0541751	YAP3	YDR445C||S000002853|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YLR151C	0.0534091	YAP3	YLR151C|PCD1|S000004141|Peroxisomal nudix 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
YDR369C	0.0533947	YAP3	YDR369C|XRS2|S000002777|Protein required for DNA repair; component of the Mre11 complex, which is involved in double strand breaks, meiotic recombination, telomere maintenance, and checkpoint signaling
YGL192W	0.0533182	YAP3	YGL192W|IME4|S000003160|Probable mRNA N6-adenosine methyltransferase that is required for IME1 transcript accumulation and for sporulation; expression is induced in starved MATa/MAT alpha diploid cells
YKR089C	0.0532015	YAP3	YKR089C|TGL4|S000001797|Triacylglycerol lipase involved in triacylglycerol mobilization and degradation; found in lipid particles; potential Cdc28p substrate
YDL067C	0.0530194	YAP3	YDL067C|COX9|S000002225|Subunit VIIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YLR152C	0.0530134	YAP3	YLR152C||S000004142|Putative protein of unknown function; YLR152C is not an essential gene
YGL158W	0.0529229	YAP3	YGL158W|RCK1|S000003126|Protein kinase involved in the response to oxidative stress; identified as suppressor of S. pombe cell cycle checkpoint mutations
YGR043C	0.0527985	YAP3	YGR043C|NQM1|S000003275|Protein of unknown function; transcription is repressed by Mot1p and induced by alpha-factor and during diauxic shift; null mutant non-quiescent cells exhibit reduced reproductive capacity
YHR119W	0.0524685	YAP3	YHR119W|SET1|S000001161|Histone methyltransferase, subunit of the COMPASS (Set1C) complex which methylates histone H3 on lysine 4; required in transcriptional silencing near telomeres and at the silent mating type loci; contains a SET domain
YDR530C	0.0522349	YAP3	YDR530C|APA2|S000002938|Diadenosine 5',5''-P1,P4-tetraphosphate phosphorylase II (AP4A phosphorylase), involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; has similarity to Apa1p
YKL109W	0.0520211	YAP3	YKL109W|HAP4|S000001592|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
YGL177W	0.0519493	YAP3	YGL177W||S000003145|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YBR144C	0.0516887	YAP3	YBR144C||S000000348|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YBR144C is not an essential gene
YOR385W	0.0515569	YAP3	YOR385W||S000005912|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YOR385W is not an essential gene
YGL075C	0.0515333	YAP3	YGL075C|MPS2|S000003043|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
YMR284W	0.0508615	YAP3	YMR284W|YKU70|S000004897|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
YJL213W	0.0508458	YAP3	YJL213W||S000003749|Protein of unknown function that may interact with ribosomes; periodically expressed during the yeast metabolic cycle; phosphorylated in vitro by the mitotic exit network (MEN) kinase complex, Dbf2p/Mob1p
YPL219W	0.0507876	YAP3	YPL219W|PCL8|S000006140|Cyclin, interacts with Pho85p cyclin-dependent kinase (Cdk) to phosphorylate and regulate glycogen synthase, also activates Pho85p for Glc8p phosphorylation
YOL105C	0.0506462	YAP3	YOL105C|WSC3|S000005465|Partially redundant sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway involved in maintenance of cell wall integrity; involved in the response to heat shock and other stressors; regulates 1,3-beta-glucan synthesis
YDR402C	0.0505392	YAP3	YDR402C|DIT2|S000002810|N-formyltyrosine oxidase, sporulation-specific microsomal enzyme involved in the production of N,N-bisformyl dityrosine required for spore wall maturation, homologous to cytochrome P-450s
YDR006C	0.0503373	YAP3	YDR006C|SOK1|S000002413|Protein whose overexpression suppresses the growth defect of mutants lacking protein kinase A activity; involved in cAMP-mediated signaling; localized to the nucleus; similar to the mouse testis-specific protein PBS13
YOR318C	0.0502867	YAP3	YOR318C||S000005845|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
YGL096W	0.0501601	YAP3	YGL096W|TOS8|S000003064|Homeodomain-containing transcription factor; SBF regulated target gene that in turn regulates expression of genes involved in G1/S phase events such as bud site selection, bud emergence and cell cycle progression; similarity to Cup9p
YNL293W	0.0500085	YAP3	YNL293W|MSB3|S000005237|GTPase-activating protein for Sec4p and several other Rab GTPases, regulates exocytosis via its action on Sec4p, also required for proper actin organization; similar to Msb4p; both Msb3p and Msb4p localize to sites of polarized growth
YLL013C	0.0499858	YAP3	YLL013C|PUF3|S000003936|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
YPL182C	0.0490469	YAP3	YPL182C||S000006103|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CTI6/YPL181W
YDR247W	0.0490328	YAP3	YDR247W|VHS1|S000002655|Cytoplasmic serine/threonine protein kinase; identified as a high-copy suppressor of the synthetic lethality of a sis2 sit4 double mutant, suggesting a role in G1/S phase progression; homolog of Sks1p
YML076C	0.0488016	YAP3	YML076C|WAR1|S000004541|Homodimeric Zn2Cys6 zinc finger transcription factor; binds to a weak acid response element to induce transcription of PDR12 and FUN34, encoding an acid transporter and a putative ammonia transporter, respectively
YBL015W	0.0483909	YAP3	YBL015W|ACH1|S000000111|Acetyl-coA hydrolase, primarily localized to mitochondria; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
YGL178W	0.048261	YAP3	YGL178W|MPT5|S000003146|Member of the Puf family of RNA-binding proteins; binds to mRNAs encoding chromatin modifiers and spindle pole body components; involved in longevity, maintenance of cell wall integrity, and sensitivity to and recovery from pheromone arrest
YDR030C	0.0480569	YAP3	YDR030C|RAD28|S000002437|Protein involved in DNA repair, related to the human CSA protein that is involved in transcription-coupled repair nucleotide excision repair
YMR216C	0.0478982	YAP3	YMR216C|SKY1|S000004829|SR protein kinase (SRPK) involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1
YGL160W	0.0478599	YAP3	YGL160W|AIM14|S000003128|Putative protein of unknown function; similar to iron/copper reductases (FRE1-8), possibly involved in iron homeostasis; may interact with ribosomes, null mutant displays increased frequency of mitochondrial genome loss (petite formation)
YMR187C	0.0476969	YAP3	YMR187C||S000004799|Putative protein of unknown function; YMR187C is not an essential gene
YDL104C	0.0476455	YAP3	YDL104C|QRI7|S000002262|Putative metalloprotease, similar to O-sialoglycoprotein metallopeptidase from P. haemolytica; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YBL038W	0.0473048	YAP3	YBL038W|MRPL16|S000000134|Mitochondrial ribosomal protein of the large subunit
YBR229C	0.0472735	YAP3	YBR229C|ROT2|S000000433|Glucosidase II catalytic subunit required for normal cell wall synthesis; mutations in rot2 suppress tor2 mutations, and are synthetically lethal with rot1 mutations
YER075C	0.0471936	YAP3	YER075C|PTP3|S000000877|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 cytoplasm
YLR116W	0.0471313	YAP3	YLR116W|MSL5|S000004106|Component of the commitment complex, which defines the first step in the splicing pathway; essential protein that interacts with Mud2p and Prp40p, forming a bridge between the intron ends; also involved in nuclear retention of pre-mRNA
YDR441C	0.0470189	YAP3	YDR441C|APT2|S000002849|Apparent pseudogene, not transcribed or translated under normal conditions; encodes a protein with similarity to adenine phosphoribosyltransferase, but artificially expressed protein exhibits no enzymatic activity
YIR020C	0.0467794	YAP3	YIR020C||S000001459|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL124C	0.0467292	YAP3	YGL124C|MON1|S000003092|Protein required for fusion of cvt-vesicles and autophagosomes with the vacuole; associates, as a complex with Ccz1p, with a perivacuolar compartment; potential Cdc28p substrate
YDL024C	0.0456793	YAP3	YDL024C|DIA3|S000002182|Protein of unknown function, involved in invasive and pseudohyphal growth
YCL042W	0.0456123	YAP3	YCL042W||S000000547|Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
YJR150C	0.0451641	YAP3	YJR150C|DAN1|S000003911|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YNL041C	0.044991	YAP3	YNL041C|COG6|S000004986|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
YEL043W	0.0449482	YAP3	YEL043W||S000000769|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
YFL023W	0.0449224	YAP3	YFL023W|BUD27|S000001871|Protein involved in bud-site selection, nutrient signaling, and gene expression controlled by TOR kinase; diploid mutants show a random budding pattern rather than the wild-type bipolar pattern; plays a role in regulating Ty1 transposition
YGR060W	0.0449155	YAP3	YGR060W|ERG25|S000003292|C-4 methyl sterol oxidase, catalyzes the first of three steps required to remove two C-4 methyl groups from an intermediate in ergosterol biosynthesis; mutants accumulate the sterol intermediate 4,4-dimethylzymosterol
YHR164C	0.0448679	YAP3	YHR164C|DNA2|S000001207|Essential tripartite DNA replication factor with single-stranded DNA-dependent ATPase, ATP-dependent nuclease, and helicase activities; required for Okazaki fragment processing; involved in DNA repair pathways; potential Cdc28p substrate
YMR015C	0.0439426	YAP3	YMR015C|ERG5|S000004617|C-22 sterol desaturase, a cytochrome P450 enzyme that catalyzes the formation of the C-22(23) double bond in the sterol side chain in ergosterol biosynthesis; may be a target of azole antifungal drugs
YMR247C	0.043872	YAP3	YMR247C|RKR1|S000004861|Nuclear RING domain protein with functional connections to chromatin modification; may interact with ribosomes, based on co-purification experiments; YMR247C is not an essential gene
YJR082C	0.0438315	YAP3	YJR082C|EAF6|S000003842|Subunit of the NuA4 acetyltransferase complex that acetylates histone H4 and NuA3 acetyltransferase complex that acetylates histone H3
YPR164W	0.0437402	YAP3	YPR164W|MMS1|S000006368|Protein likely involved in protection against replication-dependent DNA damage; mutants are sensitive to methyl methanesulfonate (MMS); implicated in regulation of Ty1 transposition
YGR056W	0.0436491	YAP3	YGR056W|RSC1|S000003288|Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; contains two essential bromodomains, a bromo-adjacent homology (BAH) domain, and an AT hook
YLR436C	0.043582	YAP3	YLR436C|ECM30|S000004428|Non-essential protein of unknown function
YDR453C	0.0431388	YAP3	YDR453C|TSA2|S000002861|Stress inducible cytoplasmic thioredoxin peroxidase; cooperates with Tsa1p in the removal of reactive oxygen, nitrogen and sulfur species using thioredoxin as hydrogen donor; deletion enhances the mutator phenotype of tsa1 mutants
YGR045C	0.043057	YAP3	YGR045C||S000003277|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YCR030C	0.0430492	YAP3	YCR030C|SYP1|S000000626|Protein with a potential role in actin cytoskeletal organization; overexpression suppresses a pfy1 (profilin) null mutation
YPL181W	0.042962	YAP3	YPL181W|CTI6|S000006102|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
YPL230W	0.0428319	YAP3	YPL230W|USV1|S000006151|Putative transcription factor containing a C2H2 zinc finger; mutation affects transcriptional regulation of genes involved in protein folding, ATP binding, and cell wall biosynthesis
YGL035C	0.0424973	YAP3	YGL035C|MIG1|S000003003|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
YGR224W	0.0424752	YAP3	YGR224W|AZR1|S000003456|Plasma membrane transporter of the major facilitator superfamily, involved in resistance to azole drugs such as ketoconazole and fluconazole
YLR398C	0.042275	YAP3	YLR398C|SKI2|S000004390|Putative RNA helicase, involved in exosome mediated 3' to 5' mRNA degradation and translation inhibition of non-poly(A) mRNAs; forms complex with Ski3p and Ski8p; required for repressing propagation of dsRNA viruses
YIL046W	0.0420388	YAP3	YIL046W|MET30|S000001308|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
YHL039W	0.04167	YAP3	YHL039W||S000001031|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YJR008W	0.0413853	YAP3	YJR008W||S000003768|Putative protein of unknown function; expression repressed by inosine and choline in an Opi1p-dependent manner; expression induced by mild heat-stress on a non-fermentable carbon source.
YMR301C	0.0407794	YAP3	YMR301C|ATM1|S000004916|Mitochondrial inner membrane ATP-binding cassette (ABC) transporter, exports mitochondrially synthesized precursors of iron-sulfur (Fe/S) clusters to the cytosol
YOR345C	0.0407609	YAP3	YOR345C||S000005872|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene REV1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
YEL073C	0.0407506	YAP3	YEL073C||S000000799|Putative protein of unknown function; located adjacent to ARS503 and the telomere on the left arm of chromosome V; regulated by inositol/choline
YLL009C	0.0405931	YAP3	YLL009C|COX17|S000003932|Copper metallochaperone that transfers copper to Sco1p and Cox11p for eventual delivery to cytochrome c oxidase
YHR120W	0.0404552	YAP3	YHR120W|MSH1|S000001162|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
YOL160W	0.0402335	YAP3	YOL160W||S000005520|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR458W	0.0400181	YAP3	YLR458W||S000004450|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data; overlaps 5' end of essential NBP1 gene required for mitosis
YLR274W	0.0391833	YAP3	YLR274W|MCM5|S000004264|Component of the hexameric MCM complex, which is important for priming origins of DNA replication in G1 and becomes an active ATP-dependent helicase that promotes DNA melting and elongation when activated by Cdc7p-Dbf4p in S-phase
YER045C	0.0385401	YAP3	YER045C|ACA1|S000000847|Basic leucine zipper (bZIP) transcription factor of the ATF/CREB family, may regulate transcription of genes involved in utilization of non-optimal carbon sources
YDR229W	0.0384591	YAP3	YDR229W|IVY1|S000002637|Phospholipid-binding protein that interacts with both Ypt7p and Vps33p, may partially counteract the action of Vps33p and vice versa, localizes to the rim of the vacuole as cells approach stationary phase
YGL250W	0.0383004	YAP3	YGL250W|RMR1|S000003219|Protein required for meiotic recombination and gene conversion; null mutant displays reduced PIS1 expression and growth defects on non-fermentable carbon sources and minimal media; GFP-fusion protein localizes to both cytoplasm and nucleus
YHR087W	0.0382528	YAP3	YHR087W|RTC3|S000001129|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
YLL059C	0.0382363	YAP3	YLL059C||S000003982|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR124C	0.038148	YAP3	YOR124C|UBP2|S000005650|Ubiquitin-specific protease that removes ubiquitin from ubiquitinated proteins, cleaves at the C terminus of ubiquitin fusions; capable of cleaving polyubiquitin and possesses isopeptidase activity
YFL036W	0.0378414	YAP3	YFL036W|RPO41|S000001858|Mitochondrial RNA polymerase; single subunit enzyme similar to those of T3 and T7 bacteriophages; requires a specificity subunit encoded by MTF1 for promoter recognition
YKL062W	0.0377369	YAP3	YKL062W|MSN4|S000001545|Transcriptional activator related to Msn2p; activated in stress conditions, which results in translocation from the cytoplasm to the nucleus; binds DNA at stress response elements of responsive genes, inducing gene expression
YDR003W	0.037503	YAP3	YDR003W|RCR2|S000002410|Vacuolar protein that presumably functions within the endosomal-vacuolar trafficking pathway, affecting events that determine whether plasma membrane proteins are degraded or routed to the plasma membrane; similar to Rcr1p
YCL035C	0.0374594	YAP3	YCL035C|GRX1|S000000540|Hydroperoxide and superoxide-radical responsive heat-stable glutathione-dependent disulfide oxidoreductase with active site cysteine pair; protects cells from oxidative damage
YGL150C	0.0371321	YAP3	YGL150C|INO80|S000003118|ATPase that forms a large complex, containing actin and several actin-related proteins, that has chromatin remodeling activity and 3' to 5' DNA helicase activity in vitro; shows similarity to the Snf2p family of ATPases
YOL060C	0.0370091	YAP3	YOL060C|MAM3|S000005421|Protein required for normal mitochondrial morphology, has similarity to hemolysins
YJL042W	0.0365282	YAP3	YJL042W|MHP1|S000003578|Microtubule-associated protein involved in assembly and stabilization of microtubules; overproduction results in cell cycle arrest at G2 phase; similar to Drosophila protein MAP and to mammalian MAP4 proteins
YGR097W	0.0365061	YAP3	YGR097W|ASK10|S000003329|Component of the RNA polymerase II holoenzyme, phosphorylated in response to oxidative stress; has a role in destruction of Ssn8p, which relieves repression of stress-response genes
YDR248C	0.0361307	YAP3	YDR248C||S000002656|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YHR185C	0.0353675	YAP3	YHR185C|PFS1|S000001228|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
YGL036W	0.0351423	YAP3	YGL036W||S000003004|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YGL036W is not an essential gene
YJL199C	0.0348226	YAP3	YJL199C|MBB1|S000003735|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; protein detected in large-scale protein-protein interaction studies
YNL150W	0.0347922	YAP3	YNL150W||S000005094|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; extensive overlap with PGA2/YNL149C, an uncharacterized gene with a proposed role in protein trafficking
YMR002W	0.0347678	YAP3	YMR002W|MIC17|S000004604|Mitochondrial intermembrane space cysteine motif protein; MIC17 is not an essential gene
YGL083W	0.0345142	YAP3	YGL083W|SCY1|S000003051|Putative kinase, suppressor of GTPase mutant, similar to bovine rhodopsin kinase
YER125W	0.0344358	YAP3	YER125W|RSP5|S000000927|Ubiquitin-protein ligase involved in ubiquitin-mediated protein degradation; functions in multivesicular body sorting, heat shock response and ubiquitylation of arrested RNAPII; contains a hect (homologous to E6-AP carboxyl terminus) domain
YPL151C	0.0343904	YAP3	YPL151C|PRP46|S000006072|Splicing factor that is found in the Cef1p subcomplex of the spliceosome
YDR462W	0.0343433	YAP3	YDR462W|MRPL28|S000002870|Mitochondrial ribosomal protein of the large subunit
YOR072W	0.0342224	YAP3	YOR072W||S000005598|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data; partially overlaps the dubious gene YOR072W-A; diploid deletion strains are methotrexate, paraquat and wortmannin sensitive
YPR122W	0.0342151	YAP3	YPR122W|AXL1|S000006326|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
YPR113W	0.0340317	YAP3	YPR113W|PIS1|S000006317|Phosphatidylinositol synthase, required for biosynthesis of phosphatidylinositol, which is a precursor for polyphosphoinositides, sphingolipids, and glycolipid anchors for some of the plasma membrane proteins
YLR223C	0.0340185	YAP3	YLR223C|IFH1|S000004213|Essential protein with a highly acidic N-terminal domain; IFH1 exhibits genetic interactions with FHL1, overexpression interferes with silencing at telomeres and HM loci; potential Cdc28p substrate
YOR072W-B	0.0339247	YAP3	YOR072W-B||S000028516|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YCR104W	0.0335333	YAP3	YCR104W|PAU3|S000000701|Part of 23-member seripauperin multigene family encoded mainly in subtelomeric regions, active during alcoholic fermentation, regulated by anaerobiosis, negatively regulated by oxygen, repressed by heme
YGL194C	0.0335024	YAP3	YGL194C|HOS2|S000003162|Histone deacetylase required for gene activation via specific deacetylation of lysines in H3 and H4 histone tails; subunit of the Set3 complex, a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity
YKL071W	0.0331502	YAP3	YKL071W||S000001554|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YGR150C	0.0329259	YAP3	YGR150C|DMR1|S000003382|Protein of unknown function, contains PPR motifs; mutant has growth defects on both non-fermentable carbon sources and rich medium; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YPL096C-A	0.0323662	YAP3	YPL096C-A|ERI1|S000028423|Endoplasmic reticulum membrane protein that binds to and inhibits GTP-bound Ras2p at the ER; component of the GPI-GnT complex which catalyzes the first step in GPI-anchor biosynthesis; probable homolog of mammalian PIG-Y protein
YLR363C	0.0321781	YAP3	YLR363C|NMD4|S000004355|Protein interacting with Nam7p, may be involved in the nonsense-mediated mRNA decay pathway
YKL033W	0.0319682	YAP3	YKL033W||S000001516|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YKL033W is an essential gene
YBR035C	0.0318245	YAP3	YBR035C|PDX3|S000000239|Pyridoxine (pyridoxamine) phosphate oxidase, has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism
YAR007C	0.0318147	YAP3	YAR007C|RFA1|S000000065|Subunit of heterotrimeric Replication Protein A (RPA), which is a highly conserved single-stranded DNA binding protein involved in DNA replication, repair, and recombination
YOL004W	0.0317045	YAP3	YOL004W|SIN3|S000005364|Component of the Sin3p-Rpd3p histone deacetylase complex, involved in transcriptional repression and activation of diverse processes, including mating-type switching and meiosis; involved in the maintenance of chromosomal integrity
YNL259C	0.0316634	YAP3	YNL259C|ATX1|S000005203|Cytosolic copper metallochaperone that transports copper to the secretory vesicle copper transporter Ccc2p for eventual insertion into Fet3p, which is a multicopper oxidase required for high-affinity iron uptake
YDR476C	0.0315895	YAP3	YDR476C||S000002884|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene
YOL032W	0.0313994	YAP3	YOL032W|OPI10|S000005392|Protein with a possible role in phospholipid biosynthesis, based on inositol-excreting phenotype of the null mutant and its suppression by exogenous choline
YDL170W	0.030881	YAP3	YDL170W|UGA3|S000002329|Transcriptional activator necessary for gamma-aminobutyrate (GABA)-dependent induction of GABA genes (such as UGA1, UGA2, UGA4); zinc-finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type; localized to the nucleus
YKL042W	0.0303422	YAP3	YKL042W|SPC42|S000001525|Central plaque component of spindle pole body (SPB); involved in SPB duplication, may facilitate attachment of the SPB to the nuclear membrane
YIL122W	0.0303256	YAP3	YIL122W|POG1|S000001384|Putative transcriptional activator that promotes recovery from pheromone induced arrest; inhibits both alpha-factor induced G1 arrest and repression of CLN1 and CLN2 via SCB/MCB promoter elements; potential Cdc28p substrate; SBF regulated
YKL101W	0.0303218	YAP3	YKL101W|HSL1|S000001584|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
YOR228C	0.0301956	YAP3	YOR228C||S000005754|Protein of unknown function, localized to the mitochondrial outer membrane
YMR255W	0.0301457	YAP3	YMR255W|GFD1|S000004868|Coiled-coiled protein of unknown function, identified as a high-copy suppressor of a dbp5 mutation
YMR175W-A	0.0301175	YAP3	YMR175W-A||S000028848|Putative protein of unknown function
YOR058C	0.0300716	YAP3	YOR058C|ASE1|S000005584|Mitotic spindle midzone localized microtubule-associated protein (MAP) family member; required for spindle elongation and stabilization; undergoes cell cycle-regulated degradation by anaphase promoting complex; potential Cdc28p substrate
YGL174W	0.0299709	YAP3	YGL174W|BUD13|S000003142|Subunit of the RES complex, which is required for nuclear pre-mRNA retention and splicing; involved in bud-site selection; diploid mutants display a unipolar budding pattern instead of the wild-type bipolar pattern
YGL095C	0.0299531	YAP3	YGL095C|VPS45|S000003063|Protein of the Sec1p/Munc-18 family, essential for vacuolar protein sorting; required for the function of Pep12p and the early endosome/late Golgi SNARE Tlg2p; essential for fusion of Golgi-derived vesicles with the prevacuolar compartment
YML116W-A	0.0298184	YAP3	YML116W-A||S000004586|Putative protein of unknown function
YKR042W	0.0297615	YAP3	YKR042W|UTH1|S000001750|Mitochondrial outer membrane and cell wall localized SUN family member required for mitochondrial autophagy; involved in the oxidative stress response, life span during starvation, mitochondrial biogenesis, and cell death
YGR046W	0.0294987	YAP3	YGR046W|TAM41|S000003278|Mitochondrial protein involved in protein import into the mitochondrial matrix; maintains the functional integrity of the TIM23 protein translocator complex; viability of null mutant is strain-dependent; mRNA is targeted to the bud
YGR044C	0.0293537	YAP3	YGR044C|RME1|S000003276|Zinc finger protein involved in control of meiosis; prevents meiosis by repressing IME1 expression and promotes mitosis by activating CLN2 expression; directly repressed by a1-a2 regulator; mediates cell type control of sporulation
YBR063C	0.0293279	YAP3	YBR063C||S000000267|Putative protein of unknown function; YBR063C is not an essential gene
YML070W	0.028983	YAP3	YML070W|DAK1|S000004535|Dihydroxyacetone kinase, required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
YLR459W	0.0289479	YAP3	YLR459W|GAB1|S000004451|GPI transamidase subunit, involved in attachment of glycosylphosphatidylinositol (GPI) anchors to proteins; may have a role in recognition of the attachment signal or of the lipid portion of GPI
YOL100W	0.0288724	YAP3	YOL100W|PKH2|S000005460|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
YIR035C	0.0286395	YAP3	YIR035C||S000001474|Putative cytoplasmic protein of unknown function
YBR064W	0.0286369	YAP3	YBR064W||S000000268|Dubious open reading frame unlikely to encode a protein; partially overlaps the uncharacterized ORF YBR063C
YER147C	0.0286127	YAP3	YER147C|SCC4|S000000949|Subunit of cohesin loading factor (Scc2p-Scc4p), a complex required for the loading of cohesin complexes onto chromosomes; involved in establishing sister chromatid cohesion during double-strand break repair via phosphorylated histone H2AX
YPL191C	0.0285382	YAP3	YPL191C||S000006112|Putative protein of unknown function; diploid deletion strain exhibits high budding index; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YLR460C	0.0283819	YAP3	YLR460C||S000004452|Putative protein of unknown function, possibly up-regulated by iodine
YDR113C	0.0283659	YAP3	YDR113C|PDS1|S000002520|Securin that inhibits anaphase by binding separin Esp1p, also blocks cyclin destruction and mitotic exit, essential for cell cycle arrest in mitosis in the presence of DNA damage or aberrant mitotic spindles; also present in meiotic nuclei
YDR333C	0.0282116	YAP3	YDR333C||S000002741|Putative protein of unknown function
YBR083W	0.0281667	YAP3	YBR083W|TEC1|S000000287|Transcription factor required for full Ty1 epxression, Ty1-mediated gene activation, and haploid invasive and diploid pseudohyphal growth; TEA/ATTS DNA-binding domain family member
YOR098C	0.0280371	YAP3	YOR098C|NUP1|S000005624|Nuclear pore complex (NPC) subunit, involved in protein import/export and in export of RNAs, possible karyopherin release factor that accelerates release of karyopherin-cargo complexes after transport across NPC; potential Cdc28p substrate
YMR030W	0.0279145	YAP3	YMR030W|RSF1|S000004632|Protein required for respiratory growth; localized to both the nucleus and mitochondrion; mutant displays decreased transcription of specific nuclear and mitochondrial genes whose products are involved in respiratory growth
YDR073W	0.0275158	YAP3	YDR073W|SNF11|S000002480|Subunit of the SWI/SNF chromatin remodeling complex involved in transcriptional regulation; interacts with a highly conserved 40-residue sequence of Snf2p
YJL051W	0.027215	YAP3	YJL051W|IRC8|S000003587|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
YPR027C	0.0266612	YAP3	YPR027C||S000006231|Putative protein of unknown function
YOR191W	0.0265635	YAP3	YOR191W|ULS1|S000005717|RING finger protein involved in proteolytic control of sumoylated substrates; interacts with SUMO (Smt3p); member of the SWI/SNF family of DNA-dependent ATPases; plays a role in antagonizing silencing during mating-type switching
YBR301W	0.0265568	YAP3	YBR301W|DAN3|S000000505|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YER142C	0.0264392	YAP3	YER142C|MAG1|S000000944|3-methyl-adenine DNA glycosylase involved in protecting DNA against alkylating agents; initiates base excision repair by removing damaged bases to create abasic sites that are subsequently repaired
YIR021W-A	0.0262927	YAP3	YIR021W-A||S000028838|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YPR105C	0.026057	YAP3	YPR105C|COG4|S000006309|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
YER129W	0.0252433	YAP3	YER129W|SAK1|S000000931|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
YDR510W	0.024843	YAP3	YDR510W|SMT3|S000002918|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
YDR246W-A	0.0247469	YAP3	YDR246W-A||S000028542|Putative protein of unknown function; identified by fungal homology and RT-PCR
YDL168W	0.024597	YAP3	YDL168W|SFA1|S000002327|Bifunctional enzyme containing both alcohol dehydrogenase and glutathione-dependent formaldehyde dehydrogenase activities, functions in formaldehyde detoxification and formation of long chain and complex alcohols, regulated by Hog1p-Sko1p
YEL006W	0.0245747	YAP3	YEL006W|YEA6|S000000732|Putative mitochondrial NAD+ transporter, member of the mitochondrial carrier subfamily (see also YIA6); has putative human ortholog
YNL325C	0.024462	YAP3	YNL325C|FIG4|S000005269|Polyphosphatidylinositol phosphatase involved in the metabolism of phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2); required for efficient mating; physically associates with and regulated by Vac14p; contains a SAC1-like domain
YPL271W	0.0244399	YAP3	YPL271W|ATP15|S000006192|Epsilon subunit of the F1 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated
YOR388C	0.0239835	YAP3	YOR388C|FDH1|S000005915|NAD(+)-dependent formate dehydrogenase, may protect cells from exogenous formate
YDR058C	0.0239597	YAP3	YDR058C|TGL2|S000002465|Protein with lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli; role in yeast lipid degradation is unclear
YPR140W	0.0238567	YAP3	YPR140W|TAZ1|S000006344|Lyso-phosphatidylcholine acyltransferase, required for normal phospholipid content of mitochondrial membranes; may remodel acyl groups of cardiolipin in the inner membrane; similar to human tafazzin, which is implicated in Barth syndrome
YGL162W	0.0237131	YAP3	YGL162W|SUT1|S000003130|Transcription factor of the Zn[II]2Cys6 family involved in sterol uptake; involved in induction of hypoxic gene expression
YNL068C	0.0236106	YAP3	YNL068C|FKH2|S000005012|Forkhead family transcription factor with 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
YHL044W	0.0231029	YAP3	YHL044W||S000001036|Putative integral membrane protein, member of DUP240 gene family; green fluorescent protein (GFP)-fusion protein localizes to the plasma membrane in a punctate pattern
YGL205W	0.0230777	YAP3	YGL205W|POX1|S000003173|Fatty-acyl coenzyme A oxidase, involved in the fatty acid beta-oxidation pathway; localized to the peroxisomal matrix
YPL124W	0.0229035	YAP3	YPL124W|SPC29|S000006045|Inner plaque spindle pole body (SPB) component, links the central plaque component Spc42p to the inner plaque component Spc110p; required for SPB duplication
YJR030C	0.0226522	YAP3	YJR030C||S000003791|Putative protein of unknown function; expression repressed in carbon limited vs carbon replete chemostat cultures; YJR030C is a non-essential gene
YKR018C	0.0226307	YAP3	YKR018C||S000001726|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YLR128W	0.022285	YAP3	YLR128W|DCN1|S000004118|Putative Nedd8 ligase; binds Nedd8; involved in cullin neddylation; not essential; similar to C.elegans DCN-1; contains UBA-like ubiquitin-binding domain and a DUF298 domain
YLR120C	0.0222264	YAP3	YLR120C|YPS1|S000004110|Aspartic protease, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
YBR114W	0.0220375	YAP3	YBR114W|RAD16|S000000318|Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
YPR020W	0.0218356	YAP3	YPR020W|ATP20|S000006224|Subunit g of the mitochondrial F1F0 ATP synthase; reversibly phosphorylated on two residues; unphosphorylated form is required for dimerization of the ATP synthase complex
YDR128W	0.0213355	YAP3	YDR128W|MTC5|S000002535|Putative protein of unknown function; YDR128W is synthetically sick with cdc13-1
YBR145W	0.0211564	YAP3	YBR145W|ADH5|S000000349|Alcohol dehydrogenase isoenzyme V; involved in ethanol production
YAL044C	0.0204956	YAP3	YAL044C|GCV3|S000000042|H 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
YLR103C	0.0197744	YAP3	YLR103C|CDC45|S000004093|DNA replication initiation factor; recruited to MCM pre-RC complexes at replication origins; promotes release of MCM from Mcm10p, recruits elongation machinery; mutants in human homolog may cause velocardiofacial and DiGeorge syndromes
YNL267W	0.019765	YAP3	YNL267W|PIK1|S000005211|Phosphatidylinositol 4-kinase; catalyzes first step in the biosynthesis of phosphatidylinositol-4,5-biphosphate; may control cytokineses through the actin cytoskeleton
YML006C	0.0195741	YAP3	YML006C|GIS4|S000004465|CAAX box containing protein of unknown function, proposed to be involved in the RAS/cAMP signaling pathway
YMR200W	0.0195656	YAP3	YMR200W|ROT1|S000004813|Essential ER membrane protein; may be involved in protein folding; 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
YCL041C	0.0195318	YAP3	YCL041C||S000000546|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps both the verified gene PDI1/YCL043C and the uncharacterized gene YCL042W
YPL228W	0.0192237	YAP3	YPL228W|CET1|S000006149|Beta (RNA 5'-triphosphatase) subunit of the mRNA capping enzyme, a heterodimer (the other subunit is CEG1, a guanylyltransferase) involved in adding the 5' cap to mRNA; the mammalian enzyme is a single bifunctional polypeptide
YIL090W	0.0190529	YAP3	YIL090W|ICE2|S000001352|Integral ER membrane protein with type-III transmembrane domains; mutations cause defects in cortical ER morphology in both the mother and daughter cells
YGL136C	0.018916	YAP3	YGL136C|MRM2|S000003104|Mitochondrial 2' O-ribose methyltransferase, required for methylation of U(2791) in 21S rRNA; MRM2 deletion confers thermosensitive respiration and loss of mitochondrial DNA; has similarity to Spb1p and Trm7p, and to E. coli FtsJ/RrmJ
YGL251C	0.0176456	YAP3	YGL251C|HFM1|S000003220|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
YNL324W	0.0175112	YAP3	YNL324W||S000005268|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YER141W	0.017306	YAP3	YER141W|COX15|S000000943|Protein required for the hydroxylation of heme O to form heme A, which is an essential prosthetic group for cytochrome c oxidase
YGL149W	0.0172836	YAP3	YGL149W||S000003117|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF INO80/YGL150C.
YIR019C	0.0170836	YAP3	YIR019C|MUC1|S000001458|GPI-anchored cell surface glycoprotein (flocculin) required for pseudohyphal formation, invasive growth, flocculation, and biofilms; transcriptionally regulated by the MAPK pathway (via Ste12p and Tec1p) and the cAMP pathway (via Flo8p)
YMR027W	0.0169313	YAP3	YMR027W||S000004629|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR027W is not an essential gene
YOR333C	0.0169152	YAP3	YOR333C||S000005860|Dubious open reading frame, unlikely to encode a functional protein; overlaps 5' end of MRS2 gene required for respiratory growth
YIL033C	0.0168104	YAP3	YIL033C|BCY1|S000001295|Regulatory subunit of the cyclic AMP-dependent protein kinase (PKA), a component of a signaling pathway that controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
YDR031W	0.0163458	YAP3	YDR031W|MIC14|S000002438|Mitochondrial intermembrane space cysteine motif protein of 14 kDa
YBR049C	0.0160306	YAP3	YBR049C|REB1|S000000253|RNA polymerase I enhancer binding protein; DNA binding protein which binds to genes transcribed by both RNA polymerase I and RNA polymerase II; required for termination of RNA polymerase I transcription
YDL066W	0.0159372	YAP3	YDL066W|IDP1|S000002224|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
YDR281C	0.015922	YAP3	YDR281C|PHM6|S000002689|Protein of unknown function, expression is regulated by phosphate levels
YDL231C	0.0159078	YAP3	YDL231C|BRE4|S000002390|Zinc finger protein containing five transmembrane domains; null mutant exhibits strongly fragmented vacuoles and sensitivity to brefeldin A, a drug which is known to affect intracellular transport
YGL013C	0.0155096	YAP3	YGL013C|PDR1|S000002981|Zinc cluster protein that is a master regulator involved in recruiting other zinc cluster proteins to pleiotropic drug response elements (PDREs) to fine tune the regulation of multidrug resistance genes
YGL175C	0.0154304	YAP3	YGL175C|SAE2|S000003143|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
YOL164W	0.0150404	YAP3	YOL164W|BDS1|S000005524|Bacterially-derived sulfatase required for use of alkyl- and aryl-sulfates as sulfur sources
YLR104W	0.0146866	YAP3	YLR104W||S000004094|Putative protein of unknown function; mutant is deficient in amounts of cell wall mannosylphosphate
YIL038C	0.0146532	YAP3	YIL038C|NOT3|S000001300|Subunit of the CCR4-NOT complex, which is a global transcriptional regulator with roles in transcription initiation and elongation and in mRNA degradation
YKL034W	0.0145241	YAP3	YKL034W|TUL1|S000001517|Golgi-localized RING-finger ubiquitin ligase (E3), involved in ubiquitinating and sorting membrane proteins that contain polar transmembrane domains to multivesicular bodies for delivery to the vacuole for quality control purposes
YKR080W	0.0145124	YAP3	YKR080W|MTD1|S000001788|NAD-dependent 5,10-methylenetetrahydrafolate dehydrogenase, plays a catalytic role in oxidation of cytoplasmic one-carbon units; expression is regulated by Bas1p and Bas2p, repressed by adenine, and may be induced by inositol and choline
YHR111W	0.0143944	YAP3	YHR111W|UBA4|S000001153|Protein that activates Urm1p before its conjugation to proteins (urmylation); one target is the thioredoxin peroxidase Ahp1p, suggesting a role of urmylation in the oxidative stress response
YIL162W	0.0143668	YAP3	YIL162W|SUC2|S000001424|Invertase, sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
YBR015C	0.0141626	YAP3	YBR015C|MNN2|S000000219|Alpha-1,2-mannosyltransferase, responsible for addition of the first alpha-1,2-linked mannose to form the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
YLR345W	0.0141322	YAP3	YLR345W||S000004337|Similar to 6-phosphofructo-2-kinase/fructose-2,6-bisphosphatase enzymes responsible for the metabolism of fructoso-2,6-bisphosphate; mRNA expression is repressed by the Rfx1p-Tup1p-Ssn6p repressor complex; YLR345W is not an essential gene
YMR201C	0.014117	YAP3	YMR201C|RAD14|S000004814|Protein that recognizes and binds damaged DNA during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 1 (NEF1); contains zinc finger motif; homolog of human XPA protein
YDR436W	0.0139971	YAP3	YDR436W|PPZ2|S000002844|Serine/threonine protein phosphatase Z, isoform of Ppz1p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
YER060W	0.0136087	YAP3	YER060W|FCY21|S000000862|Putative purine-cytosine permease, very similar to Fcy2p but cannot substitute for its function
YPR194C	0.0135939	YAP3	YPR194C|OPT2|S000006398|Oligopeptide transporter; member of the OPT family, with potential orthologs in S. pombe and C. albicans
YGR171C	0.0133321	YAP3	YGR171C|MSM1|S000003403|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
YOR144C	0.0133068	YAP3	YOR144C|ELG1|S000005670|Protein required for S phase progression and telomere homeostasis, forms an alternative replication factor C complex important for DNA replication and genome integrity; involved in homologous recombination-mediated DNA repair
YDL230W	0.0130267	YAP3	YDL230W|PTP1|S000002389|Phosphotyrosine-specific protein phosphatase that dephosphorylates a broad range of substrates in vivo, including Fpr3p; localized to the cytoplasm and the mitochondria
YJL151C	0.0127763	YAP3	YJL151C|SNA3|S000003687|Integral membrane protein localized to vacuolar intralumenal vesicles, computational analysis of large-scale protein-protein interaction data suggests a possible role in either cell wall synthesis or protein-vacuolar targeting
YEL072W	0.012754	YAP3	YEL072W|RMD6|S000000798|Protein required for sporulation
YOR279C	0.0116434	YAP3	YOR279C|RFM1|S000005805|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
YER143W	0.0110392	YAP3	YER143W|DDI1|S000000945|DNA damage-inducible v-SNARE binding protein, contains a ubiquitin-associated (UBA) domain, may act as a negative regulator of constitutive exocytosis, may play a role in S-phase checkpoint control
YHR001W	0.0110012	YAP3	YHR001W|OSH7|S000001043|Member of an oxysterol-binding protein family with seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability
YJL079C	0.0106096	YAP3	YJL079C|PRY1|S000003615|Protein of unknown function, has similarity to Pry2p and Pry3p and to the plant PR-1 class of pathogen related proteins
YBR259W	0.010499	YAP3	YBR259W||S000000463|Putative protein of unknown function; YBR259W is not an essential gene
YBR178W	0.0104551	YAP3	YBR178W||S000000382|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR177C
YLL042C	0.0103443	YAP3	YLL042C|ATG10|S000003965|E2-like conjugating enzyme that mediates formation of the Atg12p-Atg5p conjugate, which is a critical step in autophagy
YDL180W	0.0103405	YAP3	YDL180W||S000002339|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole
YNL323W	0.00955557	YAP3	YNL323W|LEM3|S000005267|Membrane protein of the plasma membrane and ER, involved in translocation of phospholipids and alkylphosphocholine drugs across the plasma membrane
YCR099C	0.00925736	YAP3	YCR099C||S000000696|Putative protein of unknown function
YNR023W	0.00923105	YAP3	YNR023W|SNF12|S000005306|73 kDa subunit of the SWI/SNF chromatin remodeling complex involved in transcriptional regulation; homolog of Rsc6p subunit of the RSC chromatin remodeling complex; deletion mutants are temperature-sensitive
YCR097W	0.00916022	YAP3	YCR097W|HMRA1|S000000694|Silenced copy of a1 at HMR; homeobox corepressor that interacts with Alpha2p to repress haploid-specific gene transcription in diploid cells
YIL126W	0.00899528	YAP3	YIL126W|STH1|S000001388|ATPase component of the RSC chromatin remodeling complex; required for expression of early meiotic genes; essential helicase-related protein homologous to Snf2p
YJL106W	0.00893177	YAP3	YJL106W|IME2|S000003642|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
YBR007C	0.00877592	YAP3	YBR007C|DSF2|S000000211|Deletion suppressor of mpt5 mutation
YML057W	0.00874168	YAP3	YML057W|CMP2|S000004521|Calcineurin A; one isoform (the other is CNA1) of the catalytic subunit of calcineurin, a Ca++/calmodulin-regulated protein phosphatase which regulates Crz1p (a stress-response transcription factor), the other calcineurin subunit is CNB1
YDR039C	0.00869312	YAP3	YDR039C|ENA2|S000002446|P-type ATPase sodium pump, involved in Na+ efflux to allow salt tolerance; likely not involved in Li+ efflux
YDR129C	0.00856144	YAP3	YDR129C|SAC6|S000002536|Fimbrin, actin-bundling protein; cooperates with Scp1p (calponin/transgelin) in the organization and maintenance of the actin cytoskeleton
YPL232W	0.00853345	YAP3	YPL232W|SSO1|S000006153|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
YHR042W	0.00825093	YAP3	YHR042W|NCP1|S000001084|NADP-cytochrome P450 reductase; involved in ergosterol biosynthesis; associated and coordinately regulated with Erg11p
YBR172C	0.00824976	YAP3	YBR172C|SMY2|S000000376|Protein of unknown function involved in COPII vesicle formation; interacts with the Sec23p/Sec24p subcomplex; overexpression suppresses the temperature sensitivity of a myo2 mutant; has similarity to S. pombe Mpd2
YDL183C	0.00807992	YAP3	YDL183C||S000002342|Putative protein of unknown function; YDL183C is not an essential gene
YGR247W	0.00776449	YAP3	YGR247W|CPD1|S000003479|Cyclic nucleotide phosphodiesterase, hydrolyzes ADP-ribose 1'', 2''-cyclic phosphate to ADP-ribose 1''-phosphate; may have a role in tRNA splicing; no detectable phenotype is conferred by null mutation or by overexpression
YBR300C	0.00762423	YAP3	YBR300C||S000000504|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
YHR009C	0.00759293	YAP3	YHR009C||S000001051|Putative protein of unknown function; not an essential gene
YMR016C	0.00750157	YAP3	YMR016C|SOK2|S000004618|Nuclear protein that plays a regulatory role in the cyclic AMP (cAMP)-dependent protein kinase (PKA) signal transduction pathway; negatively regulates pseudohyphal differentiation; homologous to several transcription factors
YDR005C	0.00740062	YAP3	YDR005C|MAF1|S000002412|Negative regulator of RNA polymerase III; component of several signaling pathways that repress polymerase III transcription in response to changes in cellular environment; targets the initiation factor TFIIIB
YPL096W	0.00739295	YAP3	YPL096W|PNG1|S000006017|Conserved peptide N-glycanase required for deglycosylation of misfolded glycoproteins during proteasome-dependent degradation, localizes to the cytoplasm and nucleus, interacts with the DNA repair protein Rad23p
YGR006W	0.00735824	YAP3	YGR006W|PRP18|S000003238|Splicing factor involved in the positioning of the 3' splice site during the second catalytic step of splicing, part of snRNP U5, interacts with Slu7p
YBL093C	0.00697749	YAP3	YBL093C|ROX3|S000000189|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme
YIL028W	0.00691985	YAP3	YIL028W||S000001290|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR375C	0.00575894	YAP3	YDR375C|BCS1|S000002783|Protein of the mitochondrial inner membrane that functions as an ATP-dependent chaperone, required for the incorporation of the Rip1p and Qcr10p subunits into the cytochrome bc(1) complex; member of the CDC48/PAS1/SEC18 ATPase family
YJL046W	0.00569458	YAP3	YJL046W|AIM22|S000003582|Putative lipoate-protein ligase A family member; null mutant displays respiratory growth defect, decreased frequency of mitochondrial genome loss (petite formation) and severe growth defect in minimal glycerol media
YAL053W	0.005677	YAP3	YAL053W|FLC2|S000000049|Putative FAD transporter; required for uptake of FAD into endoplasmic reticulum; involved in cell wall maintenance
YFL009W	0.00563372	YAP3	YFL009W|CDC4|S000001885|F-box protein required for G1/S and G2/M transition, associates with Skp1p and Cdc53p to form a complex, SCFCdc4, which acts as ubiquitin-protein ligase directing ubiquitination of the phosphorylated CDK inhibitor Sic1p
YLR099C	0.00563181	YAP3	YLR099C|ICT1|S000004089|Lysophosphatidic acid acyltransferase, responsible for enhanced phospholipid synthesis during organic solvent stress; null displays increased sensitivity to Calcofluor white; highly expressed during organic solvent stress
YNL004W	0.00506813	YAP3	YNL004W|HRB1|S000004949|Poly(A+) RNA-binding protein, involved in the export of mRNAs from the nucleus to the cytoplasm; similar to Gbp2p and Npl3p
YPR016W-A	0.00496539	YAP3	YPR016W-A||S000007630|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR300W	0.00495598	YAP3	YLR300W|EXG1|S000004291|Major exo-1,3-beta-glucanase of the cell wall, involved in cell wall beta-glucan assembly; exists as three differentially glycosylated isoenzymes
YKL185W	0.00481782	YAP3	YKL185W|ASH1|S000001668|Zinc-finger inhibitor of HO transcription; mRNA is localized and translated in the distal tip of anaphase cells, resulting in accumulation of Ash1p in daughter cell nuclei and inhibition of HO expression; potential Cdc28p substrate
YER087C-A	0.00455377	YAP3	YER087C-A||S000028753|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data; overlaps the uncharacterized gene YER087W, a putative tRNA synthetase
YML059C	0.00448466	YAP3	YML059C|NTE1|S000004524|Serine esterase that deacylates exogenous lysophospholipids, homolog of human neuropathy target esterase (NTE); mammalian NTE1 deacylates phosphatidylcholine to glycerophosphocholine
YDL003W	0.00440207	YAP3	YDL003W|MCD1|S000002161|Essential protein required for sister chromatid cohesion in mitosis and meiosis; subunit of the cohesin complex; expression is cell cycle regulated and peaks in S phase
YEL044W	0.0042253	YAP3	YEL044W|IES6|S000000770|Protein that associates with the INO80 chromatin remodeling complex under low-salt conditions
YBR161W	0.00419217	YAP3	YBR161W|CSH1|S000000365|Probable catalytic subunit of a mannosylinositol phosphorylceramide (MIPC) synthase, forms a complex with probable regulatory subunit Csg2p; function in sphingolipid biosynthesis is overlapping with that of Sur1p
YNL230C	0.00417617	YAP3	YNL230C|ELA1|S000005174|Elongin A, F-box protein that forms a heterodimer with Elc1p and is required for ubiquitin-dependent degredation of the RNA Polymerase II subunit RPO21; subunit of the Elongin-Cullin-Socs (ECS) ligase complex
YDR027C	0.00415004	YAP3	YDR027C|VPS54|S000002434|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; potentially phosphorylated by Cdc28p
YJR085C	0.00398087	YAP3	YJR085C||S000003845|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
YKL041W	0.00380577	YAP3	YKL041W|VPS24|S000001524|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
YLR056W	0.00369279	YAP3	YLR056W|ERG3|S000004046|C-5 sterol desaturase, catalyzes the introduction of a C-5(6) double bond into episterol, a precursor in ergosterol biosynthesis; mutants are viable, but cannot grow on non-fermentable carbon sources
YLR228C	0.00344528	YAP3	YLR228C|ECM22|S000004218|Sterol regulatory element binding protein, regulates transcription of the sterol biosynthetic genes ERG2 and ERG3; member of the fungus-specific Zn[2]-Cys[6] binuclear cluster family of transcription factors; homologous to Upc2p
YJL039C	0.00337919	YAP3	YJL039C|NUP192|S000003576|Essential structural subunit of the nuclear pore complex (NPC), localizes to the nuclear periphery of nuclear pores, homologous to human p205
YGR209C	0.0032005	YAP3	YGR209C|TRX2|S000003441|Cytoplasmic thioredoxin isoenzyme 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
YOL066C	0.00314254	YAP3	YOL066C|RIB2|S000005427|DRAP deaminase, catalyzes the third step of the riboflavin biosynthesis pathway; cytoplasmic tRNA pseudouridine synthase involved in pseudouridylation of cytoplasmic tRNAs at position 32
YPL017C	0.00280424	YAP3	YPL017C|IRC15|S000005938|Putative S-adenosylmethionine-dependent methyltransferase of the seven beta-strand family, required for accurate meiotic chromosome segregation; null mutant displays increased levels of spontaneous Rad52 foci
YGL084C	0.00260528	YAP3	YGL084C|GUP1|S000003052|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
YLR357W	0.00252832	YAP3	YLR357W|RSC2|S000004349|Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; involved in telomere maintenance
YIL050W	0.00243656	YAP3	YIL050W|PCL7|S000001312|Pho85p cyclin of the Pho80p subfamily, forms a functional kinase complex with Pho85p which phosphorylates Mmr1p and is regulated by Pho81p; involved in glycogen metabolism, expression is cell-cycle regulated
YDR457W	0.00217461	YAP3	YDR457W|TOM1|S000002865|E3 ubiquitin ligase of the hect-domain class; has a role in mRNA export from the nucleus and may regulate transcriptional coactivators
YPR185W	0.0021732	YAP3	YPR185W|ATG13|S000006389|Regulatory subunit of the Atg1p signaling complex; stimulates Atg1p kinase activity; required for vesicle formation during autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; involved in Atg9p, Atg23p, and Atg27p cycling
YPR071W	0.00209525	YAP3	YPR071W||S000006275|Putative membrane protein; YPR071W is not an essential gene
YLL021W	0.00201618	YAP3	YLL021W|SPA2|S000003944|Component of the polarisome, which functions in actin cytoskeletal organization during polarized growth; acts as a scaffold for Mkk1p and Mpk1p cell wall integrity signaling components; potential Cdc28p substrate
YMR222C	0.000909995	YAP3	YMR222C|FSH2|S000004835|Serine hydrolase that localizes to the cytoplasm; sequence is similar to Fsh1p and Fsh3p
YLR024C	0.000858371	YAP3	YLR024C|UBR2|S000004014|Cytoplasmic ubiquitin-protein ligase (E3)
YMR005W	0.000830182	YAP3	YMR005W|TAF4|S000004607|TFIID subunit (48 kDa), involved in RNA polymerase II transcription initiation; potential Cdc28p substrate
YMR283C	0.000702967	YAP3	YMR283C|RIT1|S000004896|2'-O-ribosyl phosphate transferase, modifies the initiator methionine tRNA at position 64 to distinguish it from elongator methionine tRNA
YLL010C	0.000526043	YAP3	YLL010C|PSR1|S000003933|Plasma membrane associated protein phosphatase involved in the general stress response; required along with binding partner Whi2p for full activation of STRE-mediated gene expression, possibly through dephosphorylation of Msn2p
YOR209C	0.000357393	YAP3	YOR209C|NPT1|S000005735|Nicotinate phosphoribosyltransferase, acts in the salvage pathway of NAD+ biosynthesis; required for silencing at rDNA and telomeres and has a role in silencing at mating-type loci; localized to the nucleus
YLR290C	0.000325204	YAP3	YLR290C||S000004281|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR290C is not an essential gene
YNL040W	0.0002854	YAP3	YNL040W||S000004985|Putative protein of unknown function with strong similarity to alanyl-tRNA synthases from Eubacteria; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YNL040W is not an essential gene
YKL189W	0.000183318	YAP3	YKL189W|HYM1|S000001672|Component of the RAM signaling network that is involved in regulation of Ace2p activity and cellular morphogenesis, interacts with Kic1p and Sog2p, localizes to sites of polarized growth during budding and during the mating response
