YAL062W	56.7445	HAP3	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
YLR174W	34.8032	HAP3	YLR174W|IDP2|S000004164|Cytosolic NADP-specific isocitrate dehydrogenase, catalyzes oxidation of isocitrate to alpha-ketoglutarate; levels are elevated during growth on non-fermentable carbon sources and reduced during growth on glucose
YML089C	30.9885	HAP3	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
YBR201C-A	30.4481	HAP3	YBR201C-A||S000087085|Putative protein of unknown function
YOR343C	28.2804	HAP3	YOR343C||S000005870|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YDR536W	28.0778	HAP3	YDR536W|STL1|S000002944|Glycerol proton symporter of the plasma membrane, subject to glucose-induced inactivation, strongly but transiently induced when cells are subjected to osmotic shock
YNL117W	22.4518	HAP3	YNL117W|MLS1|S000005061|Malate synthase, enzyme of the glyoxylate cycle, involved in utilization of non-fermentable carbon sources; expression is subject to carbon catabolite repression; localizes in peroxisomes during growth in oleic acid medium
YBR117C	22.3401	HAP3	YBR117C|TKL2|S000000321|Transketolase, similar to Tkl1p; catalyzes conversion of xylulose-5-phosphate and ribose-5-phosphate to sedoheptulose-7-phosphate and glyceraldehyde-3-phosphate in the pentose phosphate pathway; needed for synthesis of aromatic amino acids
YDL067C	21.2829	HAP3	YDL067C|COX9|S000002225|Subunit VIIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YGL062W	20.6454	HAP3	YGL062W|PYC1|S000003030|Pyruvate carboxylase isoform, cytoplasmic enzyme that converts pyruvate to oxaloacetate; highly similar to isoform Pyc2p but differentially regulated; mutations in the human homolog are associated with lactic acidosis
YML090W	19.6433	HAP3	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
YJR078W	18.9758	HAP3	YJR078W|BNA2|S000003839|Putative tryptophan 2,3-dioxygenase or indoleamine 2,3-dioxygenase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p and Aft2p
YDR298C	18.5261	HAP3	YDR298C|ATP5|S000002706|Subunit 5 of the stator stalk of mitochondrial F1F0 ATP synthase, which is an evolutionarily conserved enzyme complex required for ATP synthesis; homologous to bovine subunit OSCP (oligomycin sensitivity-conferring protein); phosphorylated
YEL024W	18.3513	HAP3	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
YKL038W	17.6379	HAP3	YKL038W|RGT1|S000001521|Glucose-responsive transcription factor that regulates expression of several glucose transporter (HXT) genes in response to glucose; binds to promoters and acts both as a transcriptional activator and repressor
YCR005C	17.5808	HAP3	YCR005C|CIT2|S000000598|Citrate synthase, catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate, peroxisomal isozyme involved in glyoxylate cycle; expression is controlled by Rtg1p and Rtg2p transcription factors
YOR382W	17.3486	HAP3	YOR382W|FIT2|S000005909|Mannoprotein that is incorporated into the cell wall via a glycosylphosphatidylinositol (GPI) anchor, involved in the retention of siderophore-iron in the cell wall
YAL063C	16.9634	HAP3	YAL063C|FLO9|S000000059|Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation
YPR010C-A	16.5812	HAP3	YPR010C-A||S000122558|Putative protein of unknown function; conserved among Saccharomyces sensu stricto species
YHL040C	15.8319	HAP3	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
YGR243W	15.4883	HAP3	YGR243W|FMP43|S000003475|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YML091C	15.211	HAP3	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
YMR256C	15.0929	HAP3	YMR256C|COX7|S000004869|Subunit VII of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YBL030C	14.7476	HAP3	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
YMR271C	14.5731	HAP3	YMR271C|URA10|S000004884|Minor orotate phosphoribosyltransferase (OPRTase) isozyme that catalyzes the fifth enzymatic step in the de novo biosynthesis of pyrimidines, converting orotate into orotidine-5'-phosphate; major OPRTase encoded by URA5
YHR033W	14.1547	HAP3	YHR033W||S000001075|Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
YOR376W	13.7369	HAP3	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.
YPL271W	12.9762	HAP3	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
YDR148C	12.9179	HAP3	YDR148C|KGD2|S000002555|Dihydrolipoyl transsuccinylase, component of the mitochondrial alpha-ketoglutarate dehydrogenase complex, which catalyzes the oxidative decarboxylation of alpha-ketoglutarate to succinyl-CoA in the TCA cycle; phosphorylated
YER065C	12.7966	HAP3	YER065C|ICL1|S000000867|Isocitrate lyase, catalyzes the formation of succinate and glyoxylate from isocitrate, a key reaction of the glyoxylate cycle; expression of ICL1 is induced by growth on ethanol and repressed by growth on glucose
YJL166W	12.684	HAP3	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
YJL116C	12.5113	HAP3	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
YGL191W	12.4752	HAP3	YGL191W|COX13|S000003159|Subunit VIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; not essential for cytochrome c oxidase activity but may modulate activity in response to ATP
YNR002C	12.4635	HAP3	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
YBL099W	12.1803	HAP3	YBL099W|ATP1|S000000195|Alpha subunit of the F1 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated
YKL085W	12.1466	HAP3	YKL085W|MDH1|S000001568|Mitochondrial malate dehydrogenase, catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle; phosphorylated
YBL015W	12.0488	HAP3	YBL015W|ACH1|S000000111|Acetyl-coA hydrolase, primarily localized to mitochondria; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
YNL052W	12.0204	HAP3	YNL052W|COX5A|S000004997|Subunit Va of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; predominantly expressed during aerobic growth while its isoform Vb (Cox5Bp) is expressed during anaerobic growth
YIR029W	12.0196	HAP3	YIR029W|DAL2|S000001468|Allantoicase, converts allantoate to urea and ureidoglycolate in the second step of allantoin degradation; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
YDL204W	11.7423	HAP3	YDL204W|RTN2|S000002363|Protein of unknown function; has similarity to mammalian reticulon proteins; member of the RTNLA (reticulon-like A) subfamily
YKR102W	11.6119	HAP3	YKR102W|FLO10|S000001810|Lectin-like protein with similarity to Flo1p, thought to be involved in flocculation
YGL187C	11.5419	HAP3	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
YBR051W	11.0675	HAP3	YBR051W||S000000255|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partiallly overlaps the REG2/YBR050C regulatory subunit of the Glc7p type-1 protein phosphatase
YLR327C	10.9249	HAP3	YLR327C|TMA10|S000004319|Protein of unknown function that associates with ribosomes
YBR050C	10.7994	HAP3	YBR050C|REG2|S000000254|Regulatory subunit of the Glc7p type-1 protein phosphatase; involved with Reg1p, Glc7p, and Snf1p in regulation of glucose-repressible genes, also involved in glucose-induced proteolysis of maltose permease
YBL100C	10.591	HAP3	YBL100C||S000000196|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; almost completely overlaps the 5' end of ATP1
YJL103C	10.4006	HAP3	YJL103C|GSM1|S000003639|Putative zinc cluster protein of unknown function; proposed to be involved in the regulation of energy metabolism, based on patterns of expression and sequence analysis
YML120C	10.3637	HAP3	YML120C|NDI1|S000004589|NADH:ubiquinone oxidoreductase, transfers electrons from NADH to ubiquinone in the respiratory chain but does not pump protons, in contrast to the higher eukaryotic multisubunit respiratory complex I; phosphorylated; homolog of human AMID
YHR001W-A	10.2999	HAP3	YHR001W-A|QCR10|S000003529|Subunit of the ubiqunol-cytochrome c oxidoreductase complex which includes Cobp, Rip1p, Cyt1p, Cor1p, Qcr2p, Qcr6p, Qcr7p, Qcr8p, Qcr9p, and Qcr10p and comprises part of the mitochondrial respiratory chain
YJR077C	10.157	HAP3	YJR077C|MIR1|S000003838|Mitochondrial phosphate carrier, imports inorganic phosphate into mitochondria; functionally redundant with Pic2p but more abundant than Pic2p under normal conditions; phosphorylated
YJR149W	10.1075	HAP3	YJR149W||S000003910|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YKR015C	10.0534	HAP3	YKR015C||S000001723|Putative protein of unknown function
YDR377W	9.9799	HAP3	YDR377W|ATP17|S000002785|Subunit f of the F0 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis
YLL056C	9.85544	HAP3	YLL056C||S000003979|Putative protein of unknown function, transcription is activated by paralogous transcription factors Yrm1p and Yrr1p along with genes involved in pleiotropic drug resistance (PDR) phenomenon; YLL056C is not an essential gene
YPL201C	9.72118	HAP3	YPL201C|YIG1|S000006122|Protein that interacts with glycerol 3-phosphatase and plays a role in anaerobic glycerol production; localizes to the nucleus and cytosol
YDR529C	9.66961	HAP3	YDR529C|QCR7|S000002937|Subunit 7 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; oriented facing the mitochondrial matrix; N-terminus appears to play a role in complex assembly
YCL012C	9.6012	HAP3	YCL012C||S000029705|Putative protein of unknown function; orthologs are present in S. bayanus, S. paradoxus and Ashbya gossypii; YCL012C is not an essential gene
YPL078C	9.58327	HAP3	YPL078C|ATP4|S000005999|Subunit b of the stator stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated
YIR039C	9.37836	HAP3	YIR039C|YPS6|S000001478|Putative GPI-anchored aspartic protease
YDL181W	9.22573	HAP3	YDL181W|INH1|S000002340|Protein that inhibits ATP hydrolysis by the F1F0-ATP synthase; inhibitory function is enhanced by stabilizing proteins Stf1p and Stf2p; has similarity to Stf1p; has a calmodulin-binding motif and binds calmodulin in vitro
YLL055W	9.09002	HAP3	YLL055W|YCT1|S000003978|High-affinity cysteine-specific transporter with similarity to the Dal5p family of transporters; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YCT1 is not an essential gene
YGR144W	9.08092	HAP3	YGR144W|THI4|S000003376|Thiazole synthase, catalyzes formation of the thiazole moiety of thiamin pyrophosphate; required for thiamine biosynthesis and for mitochondrial genome stability
YDL170W	9.0797	HAP3	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
YER150W	8.98853	HAP3	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
YKL141W	8.95363	HAP3	YKL141W|SDH3|S000001624|Cytochrome b subunit of succinate dehydrogenase (Sdh1p, Sdh2p, Sdh3p, Sdh4p), which couples the oxidation of succinate to the transfer of electrons to ubiquinone
YEL008W	8.897	HAP3	YEL008W||S000000734|Hypothetical protein predicted to be involved in metabolism
YPR083W	8.81569	HAP3	YPR083W|MDM36|S000006287|Protein required for normal mitochondrial morphology and inheritance
YFL011W	8.80208	HAP3	YFL011W|HXT10|S000001883|Putative hexose transporter, expressed at low levels and expression is repressed by glucose
YGR087C	8.69416	HAP3	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
YDR505C	8.56451	HAP3	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
YMR280C	8.54921	HAP3	YMR280C|CAT8|S000004893|Zinc cluster transcriptional activator necessary for derepression of a variety of genes under non-fermentative growth conditions, active after diauxic shift, binds carbon source responsive elements
YLR395C	8.52914	HAP3	YLR395C|COX8|S000004387|Subunit VIII of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YOR186C-A	8.49136	HAP3	YOR186C-A||S000028715|Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YEL009C	8.48707	HAP3	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
YKR067W	8.44252	HAP3	YKR067W|GPT2|S000001775|Glycerol-3-phosphate/dihydroxyacetone phosphate dual substrate-specific sn-1 acyltransferase located in lipid particles and the ER; involved in the stepwise acylation of glycerol-3-phosphate and dihydroxyacetone in lipid biosynthesis
YCL057C-A	8.37693	HAP3	YCL057C-A||S000007547|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YPL024W	8.20502	HAP3	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)
YMR206W	8.20457	HAP3	YMR206W||S000004819|Putative protein of unknown function; YMR206W is not an essential gene
YPL262W	8.06409	HAP3	YPL262W|FUM1|S000006183|Fumarase, converts fumaric acid to L-malic acid in the TCA cycle; cytosolic and mitochondrial localization determined by the N-terminal mitochondrial targeting sequence and protein conformation; phosphorylated in mitochondria
YBL066C	8.04124	HAP3	YBL066C|SEF1|S000000162|Putative transcription factor, has homolog in Kluyveromyces lactis
YAL060W	8.02946	HAP3	YAL060W|BDH1|S000000056|NAD-dependent (R,R)-butanediol dehydrogenase, catalyzes oxidation of (R,R)-2,3-butanediol to (3R)-acetoin, oxidation of meso-butanediol to (3S)-acetoin, and reduction of acetoin; enhances use of 2,3-butanediol as an aerobic carbon source
YFR053C	7.88494	HAP3	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
YOR147W	7.87916	HAP3	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
YBL045C	7.87297	HAP3	YBL045C|COR1|S000000141|Core subunit of the ubiquinol-cytochrome c reductase complex (bc1 complex), which is a component of the mitochondrial inner membrane electron transport chain
YAL067C	7.85743	HAP3	YAL067C|SEO1|S000000062|Putative permease, member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
YLR304C	7.72096	HAP3	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
YOL077W-A	7.53954	HAP3	YOL077W-A|ATP19|S000007339|Subunit k of the mitochondrial F1F0 ATP synthase, which is a large enzyme complex required for ATP synthesis; associated only with the dimeric form of ATP synthase
YLL041C	7.51048	HAP3	YLL041C|SDH2|S000003964|Iron-sulfur protein subunit of succinate dehydrogenase (Sdh1p, Sdh2p, Sdh3p, Sdh4p), which couples the oxidation of succinate to the transfer of electrons to ubiquinone
YPL018W	7.47535	HAP3	YPL018W|CTF19|S000005939|Outer kinetochore protein, required for accurate mitotic chromosome segregation; component of the kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) that functions as a platform for kinetochore assembly
YMR017W	7.46149	HAP3	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
YER014C-A	7.45862	HAP3	YER014C-A|BUD25|S000007590|Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
YPR015C	7.22916	HAP3	YPR015C||S000006219|Putative protein of unknown function
YCR021C	7.20855	HAP3	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
YJR151C	7.19579	HAP3	YJR151C|DAN4|S000003912|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YML054C	7.12069	HAP3	YML054C|CYB2|S000004518|Cytochrome b2 (L-lactate cytochrome-c oxidoreductase), component of the mitochondrial intermembrane space, required for lactate utilization; expression is repressed by glucose and anaerobic conditions
YJL102W	7.01739	HAP3	YJL102W|MEF2|S000003638|Mitochondrial elongation factor involved in translational elongation
YBL065W	6.99414	HAP3	YBL065W||S000000161|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified ORF SEF1/YBL066C; YBL065W is a non-essential gene
YKR016W	6.8978	HAP3	YKR016W|AIM28|S000001724|Protein of unknown function; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant displays decreased frequency of mitochondrial genome loss and severe growth defect in minimal glycerol media
YFL030W	6.88356	HAP3	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
YGR121C	6.86395	HAP3	YGR121C|MEP1|S000003353|Ammonium permease; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation
YFR049W	6.85987	HAP3	YFR049W|YMR31|S000001945|Mitochondrial ribosomal protein of the small subunit, has similarity to human mitochondrial ribosomal protein MRP-S36
YLL053C	6.84102	HAP3	YLL053C||S000003976|Putative protein; in the Sigma 1278B strain background YLL053C is contiguous with AQY2 which encodes an aquaporin
YJL163C	6.74556	HAP3	YJL163C||S000003699|Putative protein of unknown function
YHR008C	6.63815	HAP3	YHR008C|SOD2|S000001050|Mitochondrial superoxide dismutase, protects cells against oxygen toxicity; phosphorylated
YPL026C	6.62605	HAP3	YPL026C|SKS1|S000005947|Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway
YKR066C	6.41194	HAP3	YKR066C|CCP1|S000001774|Mitochondrial cytochrome-c peroxidase; degrades reactive oxygen species in mitochondria, involved in the response to oxidative stress
YFR033C	6.40148	HAP3	YFR033C|QCR6|S000001929|Subunit 6 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; highly acidic protein; required for maturation of cytochrome c1
YBR292C	6.40133	HAP3	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
YPR065W	6.25583	HAP3	YPR065W|ROX1|S000006269|Heme-dependent repressor of hypoxic genes; contains an HMG domain that is responsible for DNA bending activity
YMR165C	6.25505	HAP3	YMR165C|PAH1|S000004775|Mg2+-dependent phosphatidate (PA) phosphatase, catalyzes the dephosphorylation of PA to yield diacylglycerol and Pi, responsible for de novo lipid synthesis; homologous to mammalian lipin 1
YPL200W	6.25017	HAP3	YPL200W|CSM4|S000006121|Protein required for accurate chromosome segregation during meiosis
YPR020W	6.22586	HAP3	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
YBR039W	6.21695	HAP3	YBR039W|ATP3|S000000243|Gamma subunit of the F1 sector of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis
YDR036C	6.19174	HAP3	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
YNR069C	6.14027	HAP3	YNR069C|BSC5|S000005352|Protein of unknown function, ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
YLL052C	6.12626	HAP3	YLL052C|AQY2|S000003975|Water channel that mediates the transport of water across cell membranes, only expressed in proliferating cells, controlled by osmotic signals, may be involved in freeze tolerance; disrupted by a stop codon in many S. cerevisiae strains
YFL051C	6.12257	HAP3	YFL051C||S000001843|Putative protein of unknown function; YFL051C is not an essential gene
YBR218C	6.08205	HAP3	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
YHR092C	5.8877	HAP3	YHR092C|HXT4|S000001134|High-affinity glucose transporter of the major facilitator superfamily, expression is induced by low levels of glucose and repressed by high levels of glucose
YGL114W	5.8813	HAP3	YGL114W||S000003082|Putative protein of unknown function; predicted member of the oligopeptide transporter (OPT) family of membrane transporters
YBR284W	5.86035	HAP3	YBR284W||S000000488|Putative protein of unknown function; YBR284W is not an essential gene; null mutant exhibits decreased resistance to rapamycin and wortmannin
YOR378W	5.73633	HAP3	YOR378W||S000005905|Putative protein of unknown function; belongs to the DHA2 family of drug:H+ antiporters; YOR378W is not an essential gene
YPR082C	5.66159	HAP3	YPR082C|DIB1|S000006286|17-kDa component of the U4/U6aU5 tri-snRNP, plays an essential role in pre-mRNA splicing, orthologue of hDIM1, the human U5-specific 15-kDa protein
YPL183W-A	5.63863	HAP3	YPL183W-A|RTC6|S000007224|Homolog of the prokaryotic ribosomal protein L36, likely to be a mitochondrial ribosomal protein coded in the nuclear genome; null mutation suppresses cdc13-1 temperature sensitivity
YDR216W	5.54881	HAP3	YDR216W|ADR1|S000002624|Carbon source-responsive zinc-finger transcription factor, required for transcription of the glucose-repressed gene ADH2, of peroxisomal protein genes, and of genes required for ethanol, glycerol, and fatty acid utilization
YJL199C	5.5035	HAP3	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
YKL016C	5.48319	HAP3	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
YPL092W	5.46386	HAP3	YPL092W|SSU1|S000006013|Plasma membrane sulfite pump involved in sulfite metabolism and required for efficient sulfite efflux; major facilitator superfamily protein
YDR178W	5.43099	HAP3	YDR178W|SDH4|S000002585|Membrane anchor subunit of succinate dehydrogenase (Sdh1p, Sdh2p, Sdh3p, Sdh4p), which couples the oxidation of succinate to the transfer of electrons to ubiquinone
YJR154W	5.35484	HAP3	YJR154W||S000003915|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YGR088W	5.31529	HAP3	YGR088W|CTT1|S000003320|Cytosolic catalase T, has a role in protection from oxidative damage by hydrogen peroxide
YDR476C	5.30933	HAP3	YDR476C||S000002884|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene
YMR107W	5.28159	HAP3	YMR107W|SPG4|S000004713|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
YMR118C	5.26645	HAP3	YMR118C||S000004724|Protein of unknown function with similarity to succinate dehydrogenase cytochrome b subunit; YMR118C is not an essential gene
YLL019C	5.10058	HAP3	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
YFL052W	5.06905	HAP3	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
YGR053C	5.06195	HAP3	YGR053C||S000003285|Putative protein of unknown function
YDL140C	4.89415	HAP3	YDL140C|RPO21|S000002299|RNA polymerase II largest subunit B220, part of central core; phosphorylation of C-terminal heptapeptide repeat domain regulates association with transcription and splicing factors; similar to bacterial beta-prime
YPR154W	4.89004	HAP3	YPR154W|PIN3|S000006358|Protein that induces appearance of [PIN+] prion when overproduced
YOR152C	4.84316	HAP3	YOR152C||S000005678|Putative protein of unknown function; has no similarity to any known protein; YOR152C is not an essential gene
YIL162W	4.82178	HAP3	YIL162W|SUC2|S000001424|Invertase, sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
YPL250C	4.73963	HAP3	YPL250C|ICY2|S000006171|Protein of unknown function; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate
YOR211C	4.7188	HAP3	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
YLR189C	4.71668	HAP3	YLR189C|ATG26|S000004179|UDP-glucose:sterol glucosyltransferase, conserved enzyme involved in synthesis of sterol glucoside membrane lipids; in contrast to ATG26 from P. pastoris, S. cerevisiae ATG26 is not involved in autophagy
YDL066W	4.71056	HAP3	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
YMR145C	4.66666	HAP3	YMR145C|NDE1|S000004753|Mitochondrial external NADH dehydrogenase, a type II NAD(P)H:quinone oxidoreductase that catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p provide cytosolic NADH to the mitochondrial respiratory chain
YAL034C	4.60836	HAP3	YAL034C|FUN19|S000002134|Non-essential protein of unknown function
YPR193C	4.56058	HAP3	YPR193C|HPA2|S000006397|Tetrameric histone acetyltransferase with similarity to Gcn5p, Hat1p, Elp3p, and Hpa3p; acetylates histones H3 and H4 in vitro and exhibits autoacetylation activity
YPL272C	4.55812	HAP3	YPL272C||S000006193|Putative protein of unknown function; gene expression induced in response to ketoconazole; YPL272C is not an essential gene
YJR095W	4.54307	HAP3	YJR095W|SFC1|S000003856|Mitochondrial succinate-fumarate transporter, transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
YGL136C	4.4979	HAP3	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
YLL057C	4.43433	HAP3	YLL057C|JLP1|S000003980|Fe(II)-dependent sulfonate/alpha-ketoglutarate dioxygenase, involved in sulfonate catabolism for use as a sulfur source, contains sequence that closely resembles a J domain (typified by the E. coli DnaJ protein)
YMR194C-B	4.37397	HAP3	YMR194C-B||S000028514|Putative protein of unknown function
YOR065W	4.35541	HAP3	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
YGR286C	4.32904	HAP3	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
YKL010C	4.2667	HAP3	YKL010C|UFD4|S000001493|Ubiquitin-protein ligase (E3) that interacts with Rpt4p and Rpt6p, two subunits of the 19S particle of the 26S proteasome; cytoplasmic E3 involved in the degradation of ubiquitin fusion proteins
YEL070W	4.25228	HAP3	YEL070W|DSF1|S000000796|Deletion suppressor of mpt5 mutation
YKR049C	4.17139	HAP3	YKR049C|FMP46|S000001757|Putative redox protein containing a thioredoxin fold; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YKL177W	4.14376	HAP3	YKL177W||S000001660|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene STE3
YDL174C	4.13873	HAP3	YDL174C|DLD1|S000002333|D-lactate dehydrogenase, oxidizes D-lactate to pyruvate, transcription is heme-dependent, repressed by glucose, and derepressed in ethanol or lactate; located in the mitochondrial inner membrane
YJR080C	4.10157	HAP3	YJR080C|AIM24|S000003841|Protein of unknown function; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant displays increased frequency of mitochondrial genome loss and reduced growth rate in minimal glycerol media
YPL058C	3.96139	HAP3	YPL058C|PDR12|S000005979|Plasma membrane ATP-binding cassette (ABC) transporter, weak-acid-inducible multidrug transporter required for weak organic acid resistance; induced by sorbate and benzoate and regulated by War1p; mutants exhibit sorbate hypersensitivity
YER098W	3.92195	HAP3	YER098W|UBP9|S000000900|Ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease that cleaves ubiquitin-protein fusions
YIL059C	3.89923	HAP3	YIL059C||S000001321|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YIL060W
YKR009C	3.89569	HAP3	YKR009C|FOX2|S000001717|Multifunctional enzyme of the peroxisomal fatty acid beta-oxidation pathway; has 3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase activities
YDR231C	3.8894	HAP3	YDR231C|COX20|S000002639|Mitochondrial inner membrane protein, required for proteolytic processing of Cox2p and its assembly into cytochrome c oxidase
YFR010W-A	3.8875	HAP3	YFR010W-A||S000028824|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the uncharacterized gene YFR011C; identified by expression profiling and mass spectrometry
YBR077C	3.88077	HAP3	YBR077C|SLM4|S000000281|Component of the EGO complex, which is involved in the regulation of microautophagy, and of the GSE complex, which is required for proper sorting of amino acid permease Gap1p; gene exhibits synthetic genetic interaction with MSS4
YLR267W	3.86566	HAP3	YLR267W|BOP2|S000004257|Protein of unknown function, overproduction suppresses a pam1 slv3 double null mutation
YLR438W	3.86155	HAP3	YLR438W|CAR2|S000004430|L-ornithine transaminase (OTAse), catalyzes the second step of arginine degradation, expression is dually-regulated by allophanate induction and a specific arginine induction process; not nitrogen catabolite repression sensitive
YPL230W	3.81032	HAP3	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
YAR050W	3.78696	HAP3	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
YNL242W	3.77129	HAP3	YNL242W|ATG2|S000005186|Peripheral membrane protein required for vesicle formation during autophagy, pexophagy, and the cytoplasm-to-vaucole targeting (Cvt) pathway; involved in Atg9p cycling between the pre-autophagosomal structure and mitochondria
YBR293W	3.74511	HAP3	YBR293W|VBA2|S000000497|Permease of basic amino acids in the vacuolar membrane
YDR171W	3.72015	HAP3	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
YFR047C	3.67092	HAP3	YFR047C|BNA6|S000001943|Quinolinate phosphoribosyl transferase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
YHL041W	3.64965	HAP3	YHL041W||S000001033|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YNL180C	3.62773	HAP3	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
YJL213W	3.61275	HAP3	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
YPL135W	3.58052	HAP3	YPL135W|ISU1|S000006056|Conserved protein of the mitochondrial matrix, performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); isu1 isu2 double mutant is inviable
YER066W	3.55903	HAP3	YER066W||S000000868|Putative protein of unknown function; YER066W is not an essential gene
YBR250W	3.51728	HAP3	YBR250W|SPO23|S000000454|Protein of unknown function; associates with meiosis-specific protein Spo1p
YPR064W	3.44963	HAP3	YPR064W||S000006268|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YGR268C	3.43461	HAP3	YGR268C|HUA1|S000003500|Cytoplasmic protein containing a zinc finger domain with sequence similarity to that of Type I J-proteins; computational analysis of large-scale protein-protein interaction data suggests a possible role in actin patch assembly
YDL004W	3.43315	HAP3	YDL004W|ATP16|S000002162|Delta subunit of the central stalk of mitochondrial F1F0 ATP synthase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; phosphorylated
YDL104C	3.36607	HAP3	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
YBR033W	3.35285	HAP3	YBR033W|EDS1|S000000237|Putative zinc cluster protein; YBR033W is not an essential gene
YGR226C	3.35077	HAP3	YGR226C||S000003458|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; overlaps significantly with a verified ORF, AMA1/YGR225W
YNL179C	3.34247	HAP3	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
YBR296C	3.31889	HAP3	YBR296C|PHO89|S000000500|Na+/Pi cotransporter, active in early growth phase; similar to phosphate transporters of Neurospora crassa; transcription regulated by inorganic phosphate concentrations and Pho4p
YOL082W	3.30791	HAP3	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
YLR228C	3.29916	HAP3	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
YNR001C	3.25097	HAP3	YNR001C|CIT1|S000005284|Citrate synthase, catalyzes the condensation of acetyl coenzyme A and oxaloacetate to form citrate; the rate-limiting enzyme of the TCA cycle; nuclear encoded mitochondrial protein
YLR437C-A	3.22342	HAP3	YLR437C-A||S000028684|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CAR2/YLR438W
YDR322C-A	3.20529	HAP3	YDR322C-A|TIM11|S000007255|Subunit e of mitochondrial F1F0-ATPase, which is a large, evolutionarily conserved enzyme complex required for ATP synthesis; essential for the dimeric and oligomeric state of ATP synthase
YOL058W	3.20399	HAP3	YOL058W|ARG1|S000005419|Arginosuccinate synthetase, catalyzes the formation of L-argininosuccinate from citrulline and L-aspartate in the arginine biosynthesis pathway; potential Cdc28p substrate
YOR285W	3.158	HAP3	YOR285W||S000005811|Protein of unknown function, localized to the mitochondrial outer membrane
YGR067C	3.15468	HAP3	YGR067C||S000003299|Putative protein of unknown function; contains a zinc finger motif similar to that of Adr1p
YKL178C	3.14084	HAP3	YKL178C|STE3|S000001661|Receptor for a factor receptor, transcribed in alpha cells and required for mating by alpha cells, couples to MAP kinase cascade to mediate pheromone response; ligand bound receptors are endocytosed and recycled to the plasma membrane; GPCR
YPR196W	3.13198	HAP3	YPR196W||S000006400|Putative maltose activator
YNL322C	3.10999	HAP3	YNL322C|KRE1|S000005266|Cell wall glycoprotein involved in beta-glucan assembly; serves as a K1 killer toxin membrane receptor
YKL103C	3.08923	HAP3	YKL103C|LAP4|S000001586|Vacuolar aminopeptidase, often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway
YOR381W	3.07129	HAP3	YOR381W|FRE3|S000005908|Ferric reductase, reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
YAR047C	3.0703	HAP3	YAR047C||S000000083|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YEL007W	3.05397	HAP3	YEL007W||S000000733|Putative protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1)
YBR076C-A	3.04948	HAP3	YBR076C-A||S000028533|Dubious open reading frame unlikely to encode a protein; partially overlaps verified gene ECM8; identified by fungal homology and RT-PCR
YDR034C	3.03957	HAP3	YDR034C|LYS14|S000002441|Transcriptional activator involved in regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
YEL065W	3.02506	HAP3	YEL065W|SIT1|S000000791|Ferrioxamine B transporter, member of the ARN family of transporters that specifically recognize siderophore-iron chelates; transcription is induced during iron deprivation and diauxic shift; potentially phosphorylated by Cdc28p
YFL021W	3.02011	HAP3	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
YDR342C	3.01269	HAP3	YDR342C|HXT7|S000002750|High-affinity glucose transporter of the major facilitator superfamily, nearly identical to Hxt6p, expressed at high basal levels relative to other HXTs, expression repressed by high glucose levels
YAL039C	3.00339	HAP3	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)
YOR186W	2.99787	HAP3	YOR186W||S000005712|Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent
YHL032C	2.92412	HAP3	YHL032C|GUT1|S000001024|Glycerol kinase, converts glycerol to glycerol-3-phosphate; glucose repression of expression is mediated by Adr1p and Ino2p-Ino4p; derepression of expression on non-fermentable carbon sources is mediated by Opi1p and Rsf1p
YBR056W-A	2.91627	HAP3	YBR056W-A||S000028736|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YBR056C-B
YDL130W-A	2.8896	HAP3	YDL130W-A|STF1|S000007232|Protein involved in regulation of the mitochondrial F1F0-ATP synthase; Stf1p and Stf2p may act as stabilizing factors that enhance inhibitory action of the Inh1p protein
YFL018C	2.88829	HAP3	YFL018C|LPD1|S000001876|Dihydrolipoamide dehydrogenase, the lipoamide dehydrogenase component (E3) of the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase multi-enzyme complexes
YLR222C-A	2.8735	HAP3	YLR222C-A||S000028568|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene IFH1
YER101C	2.78079	HAP3	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
YOR187W	2.77566	HAP3	YOR187W|TUF1|S000005713|Mitochondrial translation elongation factor Tu; comprises both GTPase and guanine nucleotide exchange factor activities, while these activities are found in separate proteins in S. pombe and humans
YDR232W	2.77369	HAP3	YDR232W|HEM1|S000002640|5-aminolevulinate synthase, catalyzes the first step in the heme biosynthetic pathway; an N-terminal signal sequence is required for localization to the mitochondrial matrix; expression is regulated by Hap2p-Hap3p
YNL331C	2.76296	HAP3	YNL331C|AAD14|S000005275|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role
YAL066W	2.75418	HAP3	YAL066W||S000000061|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR151C	2.71984	HAP3	YDR151C|CTH1|S000002558|Member of the CCCH zinc finger family; has similarity to mammalian Tis11 protein, which activates transcription and also has a role in mRNA degradation; may function with Tis11p in iron homeostasis
YGL045W	2.70972	HAP3	YGL045W|RIM8|S000003013|Protein of unknown function, involved in the proteolytic activation of Rim101p in response to alkaline pH; has similarity to A. nidulans PalF
YPL025C	2.70627	HAP3	YPL025C||S000005946|Hypothetical protein
YIL083C	2.70092	HAP3	YIL083C||S000001345|Putative phosphopantothenoylcysteine synthetase (PPCS) that catalyzes the second step in the biosynthesis of coenzyme A from pantothenate; conserved in bacteria, humans, and plants; essential for viability
YIL113W	2.67267	HAP3	YIL113W|SDP1|S000001375|Stress-inducible dual-specificity MAP kinase phosphatase, negatively regulates Slt2p MAP kinase by direct dephosphorylation, diffuse localization under normal conditions shifts to punctate localization after heat shock
YOL151W	2.64447	HAP3	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
YDR540C	2.61142	HAP3	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
YIL125W	2.57552	HAP3	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
YJR148W	2.56525	HAP3	YJR148W|BAT2|S000003909|Cytosolic branched-chain amino acid aminotransferase, homolog of murine ECA39; highly expressed during stationary phase and repressed during logarithmic phase
YOL099C	2.56263	HAP3	YOL099C||S000005459|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene PKH2/YOL100W; may interact with ribosomes
YPR007C	2.5278	HAP3	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
YML081C-A	2.51822	HAP3	YML081C-A|ATP18|S000007247|Subunit of the mitochondrial F1F0 ATP synthase, which is a large enzyme complex required for ATP synthesis; termed subunit I or subunit j; does not correspond to known ATP synthase subunits in other organisms
YMR195W	2.50299	HAP3	YMR195W|ICY1|S000004808|Protein of unknown function, required for viability in rich media of cells lacking mitochondrial DNA; mutants have an invasive growth defect with elongated morphology; induced by amino acid starvation
YER097W	2.45663	HAP3	YER097W||S000000899|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YKL163W	2.42305	HAP3	YKL163W|PIR3|S000001646|O-glycosylated covalently-bound cell wall protein required for cell wall stability; expression is cell cycle regulated, peaking in M/G1 and also subject to regulation by the cell integrity pathway
YJL155C	2.38719	HAP3	YJL155C|FBP26|S000003691|Fructose-2,6-bisphosphatase, required for glucose metabolism
YAR023C	2.36679	HAP3	YAR023C||S000000074|Putative integral membrane protein, member of DUP240 gene family
YKL102C	2.36676	HAP3	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
YDL007C-A	2.36086	HAP3	YDL007C-A||S000113557|Putative protein of unknown function
YNL088W	2.35408	HAP3	YNL088W|TOP2|S000005032|Essential type II topoisomerase, relieves torsional strain in DNA by cleaving and re-sealing the phosphodiester backbone of both positively and negatively supercoiled DNA; cleaves complementary strands; localizes to axial cores in meiosis
YLR399C	2.3446	HAP3	YLR399C|BDF1|S000004391|Protein involved in transcription initiation at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf2p
YLR294C	2.3258	HAP3	YLR294C||S000004285|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene ATP14
YEL072W	2.30622	HAP3	YEL072W|RMD6|S000000798|Protein required for sporulation
YLR332W	2.30389	HAP3	YLR332W|MID2|S000004324|O-glycosylated plasma membrane protein that acts as a sensor for cell wall integrity signaling and activates the pathway; interacts with Rom2p, a guanine nucleotide exchange factor for Rho1p, and with cell integrity pathway protein Zeo1p
YKL148C	2.2816	HAP3	YKL148C|SDH1|S000001631|Flavoprotein subunit of succinate dehydrogenase (Sdh1p, Sdh2p, Sdh3p, Sdh4p), which couples the oxidation of succinate to the transfer of electrons to ubiquinone
YLR252W	2.25733	HAP3	YLR252W||S000004242|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data; partially overlaps the verified gene SYM1, a mitochondrial protein involved in ethanol metabolism
YJR160C	2.23476	HAP3	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
YLR331C	2.22514	HAP3	YLR331C|JIP3|S000004323|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene MID2
YBR262C	2.22179	HAP3	YBR262C|AIM5|S000000466|Protein of unknown function; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant displays decreased frequency of mitochondrial genome loss and reduced growth rate in minimal glycerol media
YPL134C	2.212	HAP3	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
YBL020W	2.17404	HAP3	YBL020W|RFT1|S000000116|Flippase, essential integral membrane protein that is required for translocation of Man5GlcNac2-PP-Dol from the cytoplasmic side to the lumenal side of the ER membrane; mutation is suppressed by expression human p53 protein
YIL055C	2.16467	HAP3	YIL055C||S000001317|Putative protein of unknown function
YLR342W	2.1603	HAP3	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
YGR183C	2.13705	HAP3	YGR183C|QCR9|S000003415|Subunit 9 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; required for electron transfer at the ubiquinol oxidase site of the complex
YLR235C	2.10302	HAP3	YLR235C||S000004225|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TOP3
YBR291C	2.0919	HAP3	YBR291C|CTP1|S000000495|Mitochondrial inner membrane citrate transporter, member of the mitochondrial carrier family
YBR230C	2.07996	HAP3	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
YPR197C	2.07259	HAP3	YPR197C||S000006401|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDL021W	2.07225	HAP3	YDL021W|GPM2|S000002179|Homolog of Gpm1p phosphoglycerate mutase which converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional derivative of a gene duplication event
YLL039C	2.04979	HAP3	YLL039C|UBI4|S000003962|Ubiquitin, becomes conjugated to proteins, marking them for selective degradation via the ubiquitin-26S proteasome system; essential for the cellular stress response; encoded as a polyubiquitin precursor comprised of 5 head-to-tail repeats
YMR081C	2.04215	HAP3	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
YIL102C	2.0201	HAP3	YIL102C||S000001364|Putative protein of unknown function
YMR141C	2.00662	HAP3	YMR141C||S000004749|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YLL009C	1.99085	HAP3	YLL009C|COX17|S000003932|Copper metallochaperone that transfers copper to Sco1p and Cox11p for eventual delivery to cytochrome c oxidase
YBR185C	1.98769	HAP3	YBR185C|MBA1|S000000389|Protein involved in assembly of mitochondrial respiratory complexes; may act as a receptor for proteins destined for export from the mitochondrial matrix to the inner membrane
YLR236C	1.98658	HAP3	YLR236C||S000004226|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOL048C	1.95634	HAP3	YOL048C||S000005408|Putative protein of unknown function
YPR198W	1.95264	HAP3	YPR198W|SGE1|S000006402|Plasma membrane multidrug transporter of the major facilitator superfamily, acts as an extrusion permease; partial multicopy suppressor of gal11 mutations
YKR096W	1.95116	HAP3	YKR096W||S000001804|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; predicted to contain a PINc (PilT N terminus) domain
YKL121W	1.92949	HAP3	YKL121W||S000001604|Putative protein of unknown function
YDR173C	1.92334	HAP3	YDR173C|ARG82|S000002580|Inositol polyphosphate multikinase (IPMK), sequentially phosphorylates Ins(1,4,5)P3 to form Ins(1,3,4,5,6)P5; also has diphosphoinositol polyphosphate synthase activity; regulates arginine-, phosphate-, and nitrogen-responsive genes
YMR171C	1.91608	HAP3	YMR171C|EAR1|S000004781|Specificity factor required for Rsp5p-dependent ubiquitination and sorting of specific cargo proteins at the multivesicular body; mRNA is targeted to the bud via the mRNA transport system involving She2p: YMR171C is not an essential gene
YPL059W	1.9029	HAP3	YPL059W|GRX5|S000005980|Hydroperoxide and superoxide-radical responsive glutathione-dependent oxidoreductase; mitochondrial matrix protein involved in the synthesis/assembly of iron-sulfur centers; monothiol glutaredoxin subfamily member along with Grx3p and Grx4p
YJR038C	1.90269	HAP3	YJR038C||S000003799|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YNL055C	1.8718	HAP3	YNL055C|POR1|S000005000|Mitochondrial porin (voltage-dependent anion channel), outer membrane protein required for the maintenance of mitochondrial osmotic stability and mitochondrial membrane permeability; phosphorylated
YPL184C	1.84923	HAP3	YPL184C|MRN1|S000006105|Putative RNA binding protein
YPR061C	1.83484	HAP3	YPR061C|JID1|S000006265|Probable Hsp40p co-chaperone, has a DnaJ-like domain and appears to be involved in ER-associated degradation of misfolded proteins containing a tightly folded cytoplasmic domain; inhibits replication of Brome mosaic virus in S. cerevisiae
YFL061W	1.83484	HAP3	YFL061W|DDI2|S000001833|Protein whose expression is induced by DNA damage
YFR045W	1.8334	HAP3	YFR045W||S000001941|Putative mitochondrial transport protein; null mutant is viable, exhibits decreased levels of chitin and normal resistance to calcofluor white
YBR208C	1.81993	HAP3	YBR208C|DUR1,2|S000000412|Urea amidolyase, contains both urea carboxylase and allophanate hydrolase activities, degrades urea to CO2 and NH3; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
YCR091W	1.8187	HAP3	YCR091W|KIN82|S000000687|Putative serine/threonine protein kinase, most similar to cyclic nucleotide-dependent protein kinase subfamily and the protein kinase C subfamily
YLR237W	1.80477	HAP3	YLR237W|THI7|S000004227|Plasma membrane transporter responsible for the uptake of thiamine, member of the major facilitator superfamily of transporters; mutation of human ortholog causes thiamine-responsive megaloblastic anemia
YKR101W	1.79987	HAP3	YKR101W|SIR1|S000001809|Protein involved in repression of transcription at the silent mating-type loci HML and HMR; recruitment to silent chromatin requires interactions with Orc1p and with Sir4p, through a common Sir1p domain; binds to centromeric chromatin
YMR172W	1.79496	HAP3	YMR172W|HOT1|S000004783|Transcription factor required for the transient induction of glycerol biosynthetic genes GPD1 and GPP2 in response to high osmolarity; targets Hog1p to osmostress responsive promoters; has similarity to Msn1p and Gcr1p
YFL019C	1.78822	HAP3	YFL019C||S000001875|Dubious open reading frame unlikely to encode a protein; YFL019C is not an essential gene
YLR094C	1.78303	HAP3	YLR094C|GIS3|S000004084|Protein of unknown function
YIL048W	1.76587	HAP3	YIL048W|NEO1|S000001310|Putative aminophospholipid translocase (flippase) involved in endocytosis and vacuolar biogenesis; localizes to endosomes and the Golgi aparatus
YNL104C	1.75387	HAP3	YNL104C|LEU4|S000005048|Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the first step in the leucine biosynthesis pathway
YAL030W	1.74859	HAP3	YAL030W|SNC1|S000000028|Vesicle membrane receptor protein (v-SNARE) involved in the fusion between Golgi-derived secretory vesicles with the plasma membrane; proposed to be involved in endocytosis; member of the synaptobrevin/VAMP family of R-type v-SNARE proteins
YHR180W	1.73447	HAP3	YHR180W||S000001223|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR192C	1.73384	HAP3	YOR192C|THI72|S000005718|Transporter of thiamine or related compound; shares sequence similarity with Thi7p
YBR071W	1.73178	HAP3	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
YFR012W	1.72693	HAP3	YFR012W||S000001908|Putative protein of unknown function
YGL119W	1.72028	HAP3	YGL119W|ABC1|S000003087|Protein required for ubiquinone (coenzyme Q) biosynthesis and for respiratory growth; exhibits genetic interaction with COQ9, suggesting a common function; similar to prokaryotic proteins involved in early steps of ubiquinone biosynthesis
YJR128W	1.71727	HAP3	YJR128W||S000003889|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF RSF2
YGR250C	1.71257	HAP3	YGR250C||S000003482|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YIL136W	1.70335	HAP3	YIL136W|OM45|S000001398|Protein of unknown function, major constituent of the mitochondrial outer membrane; located on the outer (cytosolic) face of the outer membrane
YPL240C	1.69041	HAP3	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
YBR209W	1.68785	HAP3	YBR209W||S000000413|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YBR209W is not an essential gene
YOR010C	1.67002	HAP3	YOR010C|TIR2|S000005536|Putative cell wall mannoprotein of the Srp1p/Tip1p family of serine-alanine-rich proteins; transcription is induced by cold shock and anaerobiosis
YOR173W	1.66679	HAP3	YOR173W|DCS2|S000005699|Non-essential, stress induced regulatory protein containing a HIT (histidine triad) motif; modulates m7G-oligoribonucleotide metabolism; inhibits Dcs1p; regulated by Msn2p, Msn4p, and the Ras-cAMP-cAPK signaling pathway, similar to Dcs1p.
YLR296W	1.66126	HAP3	YLR296W||S000004287|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR043C	1.65342	HAP3	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
YHL021C	1.64142	HAP3	YHL021C|AIM17|S000001013|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays decreased frequency of mitochondrial genome loss (petite formation)
YOL084W	1.6234	HAP3	YOL084W|PHM7|S000005444|Protein of unknown function, expression is regulated by phosphate levels; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery and vacuole
YDR542W	1.61305	HAP3	YDR542W|PAU10|S000002950|Hypothetical protein
YOR192C-C	1.59819	HAP3	YOR192C-C||S000028857|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YER075C	1.5863	HAP3	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
YNR073C	1.57465	HAP3	YNR073C||S000005356|Putative mannitol dehydrogenase
YGR213C	1.5526	HAP3	YGR213C|RTA1|S000003445|Protein involved in 7-aminocholesterol resistance; has seven potential membrane-spanning regions; expression is induced under both low-heme and low-oxygen conditions
YER145C	1.55147	HAP3	YER145C|FTR1|S000000947|High affinity iron permease involved in the transport of iron across the plasma membrane; forms complex with Fet3p; expression is regulated by iron
YGL255W	1.53948	HAP3	YGL255W|ZRT1|S000003224|High-affinity zinc transporter of the plasma membrane, responsible for the majority of zinc uptake; transcription is induced under low-zinc conditions by the Zap1p transcription factor
YER163C	1.5387	HAP3	YER163C||S000000965|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YOL001W	1.51841	HAP3	YOL001W|PHO80|S000005361|Cyclin, negatively regulates phosphate metabolism; Pho80p-Pho85p (cyclin-CDK complex) phosphorylates Pho4p and Swi5p; deletion of PHO80 leads to aminoglycoside supersensitivity; truncated form of PHO80 affects vacuole inheritance
YKR100C	1.50614	HAP3	YKR100C|SKG1|S000001808|Transmembrane protein with a role in cell wall polymer composition; localizes on the inner surface of the plasma membrane at the bud and in the daughter cell
YOL154W	1.50354	HAP3	YOL154W|ZPS1|S000005514|Putative GPI-anchored protein; transcription is induced under low-zinc conditions, as mediated by the Zap1p transcription factor, and at alkaline pH
YLR122C	1.50132	HAP3	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
YKL109W	1.49446	HAP3	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
YDR259C	1.47513	HAP3	YDR259C|YAP6|S000002667|Putative basic leucine zipper (bZIP) transcription factor; overexpression increases sodium and lithium tolerance
YEL009C-A	1.46524	HAP3	YEL009C-A||S000028741|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YER185W	1.45478	HAP3	YER185W|PUG1|S000000987|Plasma membrane protein with roles in the uptake of protoprophyrin IX and the efflux of heme; expression is induced under both low-heme and low-oxygen conditions
YHR199C	1.44897	HAP3	YHR199C|AIM46|S000001242|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays increased frequency of mitochondrial genome loss (petite formation)
YGL089C	1.44454	HAP3	YGL089C|MF(ALPHA)2|S000003057|Mating pheromone alpha-factor, made by alpha cells; interacts with mating type a cells to induce cell cycle arrest and other responses leading to mating; also encoded by MF(ALPHA)1, which is more highly expressed than MF(ALPHA)2
YOR190W	1.44449	HAP3	YOR190W|SPR1|S000005716|Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance
YNL240C	1.44108	HAP3	YNL240C|NAR1|S000005184|Nuclear architecture related protein; component of the cytosolic iron-sulfur (FeS) protein assembly machinery, required for maturation of cytosolic and nuclear FeS proteins; homologous to human Narf
YGR039W	1.42855	HAP3	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
YPL085W	1.42639	HAP3	YPL085W|SEC16|S000006006|COPII vesicle coat protein required for ER transport vesicle budding and autophagosome formation; Sec16p is bound to the periphery of ER membranes and may act to stabilize initial COPII complexes; interacts with Sec23p, Sec24p and Sec31p
YDL159W	1.42607	HAP3	YDL159W|STE7|S000002318|Signal transducing MAP kinase kinase involved in pheromone response, where it phosphorylates Fus3p, and in the pseudohyphal/invasive growth pathway, through phosphorylation of Kss1p; phosphorylated by Ste11p, degraded by ubiquitin pathway
YLR295C	1.41948	HAP3	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
YDL224C	1.40509	HAP3	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
YNL321W	1.40245	HAP3	YNL321W|VNX1|S000005265|Low affinity vacuolar membrane localized monovalent cation/H+ antiporter; member of the calcium exchanger (CAX) family; potential Cdc28p substrate
YMR151W	1.40182	HAP3	YMR151W|YIM2|S000004759|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 5% of ORF overlaps the verified gene IMP1
YDR453C	1.40041	HAP3	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
YPL109C	1.40029	HAP3	YPL109C||S000006030|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YKL175W	1.38622	HAP3	YKL175W|ZRT3|S000001658|Vacuolar membrane zinc transporter, transports zinc from storage in the vacuole to the cytoplasm when needed; transcription is induced under conditions of zinc deficiency
YML109W	1.38334	HAP3	YML109W|ZDS2|S000004577|Protein that interacts with silencing proteins at the telomere, involved in transcriptional silencing; paralog of Zds1p
YAL020C	1.36428	HAP3	YAL020C|ATS1|S000000018|Protein required, with Elongator complex, Kti11p, and Kti12p, for modification of wobble nucleosides in tRNA; has a potential role in regulatory interactions between microtubules and the cell cycle
YML110C	1.34773	HAP3	YML110C|COQ5|S000004578|2-hexaprenyl-6-methoxy-1,4-benzoquinone methyltransferase, involved in ubiquinone (Coenzyme Q) biosynthesis; localizes to the matrix face of the mitochondrial inner membrane in a large complex with other ubiquinone biosynthetic enzymes
YNL160W	1.34289	HAP3	YNL160W|YGP1|S000005104|Cell wall-related secretory glycoprotein; induced by nutrient deprivation-associated growth arrest and upon entry into stationary phase; may be involved in adaptation prior to stationary phase entry; has similarity to Sps100p
YDR262W	1.33864	HAP3	YDR262W||S000002670|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole and is induced in response to the DNA-damaging agent MMS; gene expression increases in response to Zymoliase treatment
YOL160W	1.33403	HAP3	YOL160W||S000005520|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YCL038C	1.31854	HAP3	YCL038C|ATG22|S000000543|Vacuolar integral membrane protein required for efflux of amino acids during autophagic body breakdown in the vacuole; null mutation causes a gradual loss of viability during starvation
YGL204C	1.3024	HAP3	YGL204C||S000003172|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJL206C	1.27594	HAP3	YJL206C||S000003741|Putative protein of unknown function; similar to transcriptional regulators from the Zn[2]-Cys[6] binuclear cluster protein family; mRNA is weakly cell cycle regulated, peaking in S phase; induced rapidly upon MMS treatment
YGR254W	1.27488	HAP3	YGR254W|ENO1|S000003486|Enolase I, a phosphopyruvate hydratase that catalyzes the conversion of 2-phosphoglycerate to phosphoenolpyruvate during glycolysis and the reverse reaction during gluconeogenesis; expression is repressed in response to glucose
YDR457W	1.27415	HAP3	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
YOR072W	1.26397	HAP3	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
YPR120C	1.26285	HAP3	YPR120C|CLB5|S000006324|B-type cyclin involved in DNA replication during S phase; activates Cdc28p to promote initiation of DNA synthesis; functions in formation of mitotic spindles along with Clb3p and Clb4p; most abundant during late G1 phase
YDR085C	1.24595	HAP3	YDR085C|AFR1|S000002492|Alpha-factor pheromone receptor regulator, negatively regulates pheromone receptor signaling; required for normal mating projection (shmoo) formation; required for Spa2p to recruit Mpk1p to shmoo tip during mating; interacts with Cdc12p
YLR123C	1.24377	HAP3	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
YCR026C	1.23443	HAP3	YCR026C|NPP1|S000000621|Nucleotide pyrophosphatase/phosphodiesterase family member; mediates extracellular nucleotide phosphate hydrolysis along with Npp2p and Pho5p; activity and expression enhanced during conditions of phosphate starvation
YLR247C	1.22653	HAP3	YLR247C|IRC20|S000004237|Putative helicase; localizes to the mitochondrion and the nucleus; YLR247C is not an essential gene; null mutant displays increased levels of spontaneous Rad52p foci
YGR028W	1.22509	HAP3	YGR028W|MSP1|S000003260|Mitochondrial protein involved in sorting of proteins in the mitochondria; putative membrane-spanning ATPase
YIL082W	1.21912	HAP3	YIL082W||S000001344|Retrotransposon TYA Gag gene co-transcribed with TYB Pol; translated as TYA or TYA-TYB polyprotein; Gag is a nucleocapsid protein that is the structural constituent of virus-like particles (VLPs); similar to retroviral Gag
YGL138C	1.2159	HAP3	YGL138C||S000003106|Putative protein of unknown function; has no significant sequence similarity to any known protein
YAL019W-A	1.21425	HAP3	YAL019W-A||S000028729|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YER015W	1.18758	HAP3	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
YOR228C	1.18555	HAP3	YOR228C||S000005754|Protein of unknown function, localized to the mitochondrial outer membrane
YPL224C	1.17694	HAP3	YPL224C|MMT2|S000006145|Putative metal transporter involved in mitochondrial iron accumulation; closely related to Mmt1p
YPR011C	1.1761	HAP3	YPR011C||S000006215|Putative transporter, member of the mitochondrial carrier family; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YBR294W	1.14415	HAP3	YBR294W|SUL1|S000000498|High affinity sulfate permease; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
YCL057W	1.14067	HAP3	YCL057W|PRD1|S000000562|Zinc metalloendopeptidase, found in the cytoplasm and intermembrane space of mitochondria; with Cym1p, involved in degradation of mitochondrial proteins and of presequence peptides cleaved from imported proteins
YFR029W	1.14058	HAP3	YFR029W|PTR3|S000001925|Component of the SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p), which senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes
YPL179W	1.13456	HAP3	YPL179W|PPQ1|S000006100|Putative protein serine/threonine phosphatase; null mutation enhances efficiency of translational suppressors
YPL133C	1.13238	HAP3	YPL133C|RDS2|S000006054|Zinc cluster transcriptional activator involved in conferring resistance to ketoconazole
YFL020C	1.12066	HAP3	YFL020C|PAU5|S000001874|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
YAL031C	1.11088	HAP3	YAL031C|GIP4|S000000029|Cytoplasmic Glc7-interacting protein whose overexpression relocalizes Glc7p from the nucleus and prevents chromosome segregation; potential Cdc28p substrate
YER184C	1.10744	HAP3	YER184C||S000000986|Putative zinc cluster protein; deletion confers sensitivity to Calcufluor white, and prevents growth on glycerol or lactate as sole carbon source
YDR359C	1.10447	HAP3	YDR359C|EAF1|S000002767|Component of the NuA4 histone acetyltransferase complex; required for initiation of pre-meiotic DNA replication, probably due to its requirement for significant expression of IME1
YDL243C	1.10067	HAP3	YDL243C|AAD4|S000002402|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase, involved in the oxidative stress response
YDR421W	1.09134	HAP3	YDR421W|ARO80|S000002829|Zinc finger transcriptional activator of the Zn2Cys6 family; activates transcription of aromatic amino acid catabolic genes in the presence of aromatic amino acids
YJL174W	1.09002	HAP3	YJL174W|KRE9|S000003710|Glycoprotein involved in cell wall beta-glucan assembly; null mutation leads to severe growth defects, aberrant multibudded morphology, and mating defects
YOL106W	1.08867	HAP3	YOL106W||S000005466|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YDR360W	1.08701	HAP3	YDR360W|OPI7|S000002768|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene VID21/YDR359C.
YOR328W	1.08367	HAP3	YOR328W|PDR10|S000005855|ATP-binding cassette (ABC) transporter, multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p
YOR064C	1.08256	HAP3	YOR064C|YNG1|S000005590|Subunit of the NuA3 histone acetyltransferase complex that acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3, has similarity to the human tumor suppressor ING1
YJR039W	1.08137	HAP3	YJR039W||S000003800|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YBL055C	1.0789	HAP3	YBL055C||S000000151|3'-->5' exonuclease and endonuclease with a possible role in apoptosis; has similarity to mammalian and C. elegans apoptotic nucleases
YOR386W	1.07861	HAP3	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
YKL071W	1.07304	HAP3	YKL071W||S000001554|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YOR071C	1.0664	HAP3	YOR071C|NRT1|S000005597|High-affinity nicotinamide riboside transporter; also transports thiamine with low affinity; shares sequence similarity with Thi7p and Thi72p; proposed to be involved in 5-fluorocytosine sensitivity
YBL054W	1.06402	HAP3	YBL054W||S000000150|Protein of unknown function involved in rRNA and ribosome biosynthesis
YGR269W	1.05489	HAP3	YGR269W||S000003501|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF HUA1/YGR268C
YEL010W	1.05251	HAP3	YEL010W||S000000736|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOL025W	1.0457	HAP3	YOL025W|LAG2|S000005385|Protein involved in determination of longevity; LAG2 gene is preferentially expressed in young cells; overexpression extends the mean and maximum life span of cells
YNL215W	1.03645	HAP3	YNL215W|IES2|S000005159|Protein that associates with the INO80 chromatin remodeling complex under low-salt conditions
YBR220C	1.02538	HAP3	YBR220C||S000000424|Putative protein of unknown function; YBR220C is not an essential gene
YOR070C	1.02111	HAP3	YOR070C|GYP1|S000005596|Cis-golgi GTPase-activating protein (GAP) for the Rab family members Ypt1p (in vivo) and for Ypt1p, Sec4p, Ypt7p, and Ypt51p (in vitro); involved in vesicle docking and fusion
YPL190C	1.01965	HAP3	YPL190C|NAB3|S000006111|Single stranded RNA binding protein; acidic ribonucleoprotein; required for termination of non-poly(A) transcripts and efficient splicing; interacts with Nrd1p
YGL056C	1.01488	HAP3	YGL056C|SDS23|S000003024|One of two S. cerevisiae homologs (Sds23p and Sds24p) of the Schizosaccharomyces pombe Sds23 protein, which genetic studies have implicated in APC/cyclosome regulation
YOR170W	1.01426	HAP3	YOR170W||S000005696|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene LCB4
YMR088C	1.01132	HAP3	YMR088C|VBA1|S000004694|Permease of basic amino acids in the vacuolar membrane
YGL258W-A	1.01104	HAP3	YGL258W-A||S000007607|Putative protein of unknown function
YOR072W-A	1.00876	HAP3	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
YKL202W	0.998022	HAP3	YKL202W||S000001685|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDR541C	0.995591	HAP3	YDR541C||S000002949|Putative dihydrokaempferol 4-reductase
YJL079C	0.989173	HAP3	YJL079C|PRY1|S000003615|Protein of unknown function, has similarity to Pry2p and Pry3p and to the plant PR-1 class of pathogen related proteins
YLR054C	0.988519	HAP3	YLR054C|OSW2|S000004044|Protein of unknown function proposed to be involved in the assembly of the spore wall
YLR072W	0.972481	HAP3	YLR072W||S000004062|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YLR072W is not an esssential gene
YGR033C	0.968529	HAP3	YGR033C|TIM21|S000003265|Constituent of the mitochondrial inner membrane presequence translocase (TIM23 complex); may regulate protein import by binding to both the translocase of the outer membrane (TOM) and presequence-associated motor (PAM) complexes
YER010C	0.957738	HAP3	YER010C||S000000812|Protein of unknown function, forms a ring-shaped homotrimer; has similarity to members of the prokaryotic rraA family; possibly involved in a phosphotransfer reaction
YLR425W	0.954452	HAP3	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
YLR193C	0.954322	HAP3	YLR193C|UPS1|S000004183|Mitochondrial intermembrane space protein that regulates alternative processing and sorting of Mgm1p and other proteins; required for normal mitochondrial morphology; ortholog of human PRELI
YPL236C	0.948465	HAP3	YPL236C||S000006157|Putative protein kinase that exhibits Akr1p-dependent palmitoylation
YBR076W	0.941271	HAP3	YBR076W|ECM8|S000000280|Non-essential protein of unknown function
YKL146W	0.937664	HAP3	YKL146W|AVT3|S000001629|Vacuolar transporter, exports large neutral amino acids from the vacuole; member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
YJL112W	0.93687	HAP3	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
YGR043C	0.933804	HAP3	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
YBR070C	0.925841	HAP3	YBR070C|ALG14|S000000274|Component of UDP-GlcNAc transferase required for the second step of dolichyl-linked oligosaccharide synthesis; anchors the catalytic subunit Alg13p to the ER membrane; similar to bacterial and human glycosyltransferases
YNL336W	0.923307	HAP3	YNL336W|COS1|S000005280|Protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YNL103W	0.914689	HAP3	YNL103W|MET4|S000005047|Leucine-zipper transcriptional activator, responsible for the regulation of the sulfur amino acid pathway, requires different combinations of the auxiliary factors Cbf1p, Met28p, Met31p and Met32p
YGL041C	0.90922	HAP3	YGL041C||S000003009|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YMR170C	0.907583	HAP3	YMR170C|ALD2|S000004780|Cytoplasmic aldehyde dehydrogenase, involved in ethanol oxidation and beta-alanine biosynthesis; uses NAD+ as the preferred coenzyme; expression is stress induced and glucose repressed; very similar to Ald3p
YML118W	0.906622	HAP3	YML118W|NGL3|S000004587|Putative endonuclease, has a domain similar to a magnesium-dependent endonuclease motif in mRNA deadenylase Ccr4p; similar to Ngl1p and Ngl2p
YKL147C	0.903938	HAP3	YKL147C||S000001630|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; partially overlaps the verified gene AVT3
YNR070W	0.900712	HAP3	YNR070W||S000005353|Putative transporter of the ATP-binding cassette (ABC) family, implicated in pleiotropic drug resistance; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YCR086W	0.898081	HAP3	YCR086W|CSM1|S000000682|Nucleolar protein that forms a complex with Lrs4p which binds Mam1p at kinetochores during meiosis I to mediate accurate chromosome segregation, may be involved in premeiotic DNA replication; possible role in telomere maintenance
YPL274W	0.895984	HAP3	YPL274W|SAM3|S000006195|High-affinity S-adenosylmethionine permease, required for utilization of S-adenosylmethionine as a sulfur source; has similarity to S-methylmethionine permease Mmp1p
YBR230W-A	0.893922	HAP3	YBR230W-A||S000029722|Putative protein of unknown function
YPR145W	0.89295	HAP3	YPR145W|ASN1|S000006349|Asparagine synthetase, isozyme of Asn2p; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway
YML058W	0.8897	HAP3	YML058W|SML1|S000004523|Ribonucleotide reductase inhibitor involved in regulating dNTP production; regulated by Mec1p and Rad53p during DNA damage and S phase
YFR040W	0.887383	HAP3	YFR040W|SAP155|S000001936|Protein that forms a complex with the Sit4p protein phosphatase and is required for its function; member of a family of similar proteins including Sap4p, Sap185p, and Sap190p
YPL127C	0.885034	HAP3	YPL127C|HHO1|S000006048|Histone H1, a linker histone required for nucleosome packaging at restricted sites; suppresses DNA repair involving homologous recombination; not required for telomeric silencing, basal transcriptional repression, or efficient sporulation
YLR387C	0.884176	HAP3	YLR387C|REH1|S000004379|Protein of unknown function, similar to Rei1p but not involved in bud growth; contains dispersed C2H2 zinc finger domains
YLR124W	0.88314	HAP3	YLR124W||S000004114|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOL055C	0.879485	HAP3	YOL055C|THI20|S000005416|Multifunctional protein with both hydroxymethylpyrimidine kinase and thiaminase activities; involved in thiamine biosynthesis and also in thiamine degradation; member of a gene family with THI21 and THI22; functionally redundant with Thi21p
YPL257W	0.876277	HAP3	YPL257W||S000006178|Putative protein of unknown function;; homozygous diploid deletion strain exhibits low budding index; physically interacts with Hsp82p; YPL257W is not an essential gene
YDR516C	0.861986	HAP3	YDR516C|EMI2|S000002924|Non-essential protein of unknown function required for transcriptional induction of the early meiotic-specific transcription factor IME1; required for sporulation; expression is regulated by glucose-repression transcription factors Mig1/2p
YOR387C	0.860897	HAP3	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
YDL046W	0.844621	HAP3	YDL046W|NPC2|S000002204|Functional homolog of human NPC2/He1, which is a cholesterol-binding protein whose deficiency causes Niemann-Pick type C2 disease involving retention of cholesterol in lysosomes
YLL018C-A	0.84039	HAP3	YLL018C-A|COX19|S000007245|Protein required for cytochrome c oxidase assembly, located in the cytosol and mitochondrial intermembrane space; putative copper metallochaperone that delivers copper to cytochrome c oxidase
YOR244W	0.838239	HAP3	YOR244W|ESA1|S000005770|Histone acetyltransferase catalytic subunit of the native multisubunit complex (NuA4) that acetylates four conserved internal lysines of histone H4 N-terminal tail; required for cell cycle progression
YDR440W	0.837985	HAP3	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
YHR159W	0.832091	HAP3	YHR159W||S000001202|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; potential Cdc28p substrate
YBR219C	0.829955	HAP3	YBR219C||S000000423|Putative protein of unknown function; YBR219C is not an essential gene
YJL161W	0.829566	HAP3	YJL161W|FMP33|S000003697|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YNL335W	0.82766	HAP3	YNL335W|DDI3|S000005279|Hypothetical protein
YGL083W	0.817013	HAP3	YGL083W|SCY1|S000003051|Putative kinase, suppressor of GTPase mutant, similar to bovine rhodopsin kinase
YML078W	0.816083	HAP3	YML078W|CPR3|S000004543|Mitochondrial peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; involved in protein refolding after import into mitochondria
YGL041C-B	0.812359	HAP3	YGL041C-B||S000028548|Putative protein of unknown function; identified by fungal homology and RT-PCR
YJL062W-A	0.808364	HAP3	YJL062W-A||S000007611|Putative protein of unknown function, identified based on comparison to related yeast species; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDL214C	0.806919	HAP3	YDL214C|PRR2|S000002373|Serine/threonine protein kinase that inhibits pheromone induced signalling downstream of MAPK, possibly at the level of the Ste12p transcription factor
YHR095W	0.801435	HAP3	YHR095W||S000001137|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL096W	0.798443	HAP3	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
YOR057W	0.786877	HAP3	YOR057W|SGT1|S000005583|Probable cochaperone, regulates activity of Cyr1p (adenylyl cyclase); involved in assembly of the kinetochore complex, associates with the SCF (Skp1p/Cdc53p/F box protein) ubiquitin ligase complex
YBR060C	0.784842	HAP3	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
YHR048W	0.782013	HAP3	YHR048W|YHK8|S000001090|Presumed antiporter of the DHA1 family of multidrug resistance transporters; contains 12 predicted transmembrane spans; expression of gene is up-regulated in cells exhibiting reduced susceptibility to azoles
YGL033W	0.77972	HAP3	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
YNL339C	0.770518	HAP3	YNL339C|YRF1-6|S000005283|Helicase encoded by the Y' element of subtelomeric regions, highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p
YLR125W	0.762621	HAP3	YLR125W||S000004115|Putative protein of unknown function; mutant has decreased Ty3 transposition; YLR125W is not an essential gene
YNL015W	0.760539	HAP3	YNL015W|PBI2|S000004960|Cytosolic inhibitor of vacuolar proteinase B, required for efficient vacuole inheritance; with thioredoxin forms protein complex LMA1, which assists in priming SNARE molecules and promotes vacuole fusion
YGR057C	0.756321	HAP3	YGR057C|LST7|S000003289|Protein possibly involved in a post-Golgi secretory pathway; required for the transport of nitrogen-regulated amino acid permease Gap1p from the Golgi to the cell surface
YNL164C	0.753011	HAP3	YNL164C|IBD2|S000005108|Component of the BUB2-dependent spindle checkpoint pathway, interacts with Bfa1p and functions upstream of Bub2p and Bfa1p
YCR069W	0.752935	HAP3	YCR069W|CPR4|S000000665|Peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; has a potential role in the secretory pathway
YDR096W	0.750959	HAP3	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
YCR025C	0.743507	HAP3	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
YJL159W	0.74096	HAP3	YJL159W|HSP150|S000003695|O-mannosylated heat shock protein that is secreted and covalently attached to the cell wall via beta-1,3-glucan and disulfide bridges; required for cell wall stability; induced by heat shock, oxidative stress, and nitrogen limitation
YDR532C	0.738423	HAP3	YDR532C||S000002940|Protein of unknown function that localizes to the nuclear side of the spindle pole body and along short spindles; deletion mutants have short telomeres; forms a complex with Spc105p
YGR058W	0.735361	HAP3	YGR058W|PEF1|S000003290|Penta-EF-hand protein required for polar bud growth and cell wall abscission; binds calcium and zinc with different affinity; localizes to bud site in G1, bud neck in G2
YER142C	0.727512	HAP3	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
YGR008C	0.726479	HAP3	YGR008C|STF2|S000003240|Protein involved in regulation of the mitochondrial F1F0-ATP synthase; Stf1p and Stf2p may act as stabilizing factors that enhance inhibitory action of the Inh1p protein
YPR116W	0.725689	HAP3	YPR116W||S000006320|Putative protein of unknown function
YJR127C	0.718614	HAP3	YJR127C|RSF2|S000003888|Zinc-finger protein involved in transcriptional control of both nuclear and mitochondrial genes, many of which specify products required for glycerol-based growth, respiration, and other functions
YNL285W	0.712108	HAP3	YNL285W||S000005229|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDR006C	0.71101	HAP3	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
YLR297W	0.709152	HAP3	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
YPL214C	0.70111	HAP3	YPL214C|THI6|S000006135|Bifunctional enzyme with thiamine-phosphate pyrophosphorylase and 4-methyl-5-beta-hydroxyethylthiazole kinase activities, required for thiamine biosynthesis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern
YHR050W-A	0.698288	HAP3	YHR050W-A||S000028832|Protein of unknown function; identified by expression profiling and mass spectrometry
YIL058W	0.694024	HAP3	YIL058W||S000001320|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YNL042W	0.684568	HAP3	YNL042W|BOP3|S000004987|Protein of unknown function, potential Cdc28p substrate; overproduction suppresses a pam1 slv3 double null mutation and confers resistance to methylmercury
YOL085W-A	0.682281	HAP3	YOL085W-A||S000028708|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YOL085C
YOL023W	0.679239	HAP3	YOL023W|IFM1|S000005383|Mitochondrial translation initiation factor 2
YLR116W	0.678571	HAP3	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
YML081W	0.660305	HAP3	YML081W||S000004546|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YML081w is not an essential gene
YKL220C	0.6595	HAP3	YKL220C|FRE2|S000001703|Ferric reductase and cupric reductase, reduces siderophore-bound iron and oxidized copper prior to uptake by transporters; expression induced by low iron levels but not by low copper levels
YLL001W	0.658051	HAP3	YLL001W|DNM1|S000003924|Dynamin-related GTPase required for mitochondrial fission and the maintenance of mitochondrial morphology, assembles on the cytoplasmic face of mitochondrial tubules at sites at which division will occur; also participates in endocytosis
YAR027W	0.65688	HAP3	YAR027W|UIP3|S000000075|Putative integral membrane protein of unknown function; interacts with Ulp1p at the nuclear periphery; member of DUP240 gene family
YPL111W	0.655626	HAP3	YPL111W|CAR1|S000006032|Arginase, responsible for arginine degradation, expression responds to both induction by arginine and nitrogen catabolite repression; disruption enhances freeze tolerance
YOL068C	0.641307	HAP3	YOL068C|HST1|S000005429|NAD(+)-dependent histone deacetylase; essential subunit of the Sum1p/Rfm1p/Hst1p complex required for ORC-dependent silencing and mitotic repression; non-essential subunit of the Set3C deacetylase complex; involved in telomere maintenance
YDR446W	0.640751	HAP3	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
YDR042C	0.636002	HAP3	YDR042C||S000002449|Putative protein of unknown function; expression is increased in ssu72-ts69 mutant
YOR022C	0.632925	HAP3	YOR022C||S000005548|Protein with similarity to bovine phospholipase A1; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR178C	0.632729	HAP3	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
YDL024C	0.63245	HAP3	YDL024C|DIA3|S000002182|Protein of unknown function, involved in invasive and pseudohyphal growth
YKL224C	0.627587	HAP3	YKL224C|PAU16|S000001707|Putative protein of unknown function
YDR340W	0.619331	HAP3	YDR340W||S000002748|Putative protein of unknown function
YJR108W	0.61515	HAP3	YJR108W|ABM1|S000003869|Protein of unknown function, required for normal microtubule organization
YJL100W	0.614894	HAP3	YJL100W|LSB6|S000003636|Type II phosphatidylinositol 4-kinase that binds Las17p, which is a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization
YGL002W	0.612272	HAP3	YGL002W|ERP6|S000002970|Protein with similarity to Emp24p and Erv25p, member of the p24 family involved in ER to Golgi transport; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YPL034W	0.610647	HAP3	YPL034W||S000005955|Putative protein of unknown function; YPL034W is not essential gene
YLR390W	0.606883	HAP3	YLR390W|ECM19|S000004382|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YKL134C	0.604182	HAP3	YKL134C|OCT1|S000001617|Mitochondrial intermediate peptidase, cleaves N-terminal residues of a subset of proteins upon import, after their cleavage by mitochondrial processing peptidase (Mas1p-Mas2p); may contribute to mitochondrial iron homeostasis
YJL084C	0.603782	HAP3	YJL084C|ALY2|S000003620|Cytoplasmic protein of unknown function that interacts with the cyclin Pcl7p; phosphorylated in vitro by the cyclin-CDK complex, Pcl7p-Pho85p; identified as a potential Cdc28p substrate; mRNA is cell cycle regulated, peaking in M phase
YJR036C	0.603492	HAP3	YJR036C|HUL4|S000003797|Protein with similarity to hect domain E3 ubiquitin-protein ligases, not essential for viability
YKR011C	0.603191	HAP3	YKR011C||S000001719|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
YGL084C	0.602087	HAP3	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
YOR136W	0.601432	HAP3	YOR136W|IDH2|S000005662|Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle; phosphorylated
YER067W	0.600443	HAP3	YER067W||S000000869|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YER067W is not an essential gene
YHR093W	0.59732	HAP3	YHR093W|AHT1|S000001135|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; multicopy suppressor of glucose transport defects, likely due to the presence of an HXT4 regulatory element in the region
YKL112W	0.582799	HAP3	YKL112W|ABF1|S000001595|DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair
YGL124C	0.582452	HAP3	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
YGL117W	0.578713	HAP3	YGL117W||S000003085|Putative protein of unknown function
YPR169W-A	0.577519	HAP3	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
YFR020W	0.576418	HAP3	YFR020W||S000001916|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL236C	0.563806	HAP3	YGL236C|MTO1|S000003205|Mitochondrial protein, forms a heterodimer complex with Mss1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; required for respiration in paromomycin-resistant 15S rRNA mutants
YBR155W	0.558957	HAP3	YBR155W|CNS1|S000000359|TPR-containing co-chaperone; binds both Hsp82p (Hsp90) and Ssa1p (Hsp70) and stimulates the ATPase activity of SSA1, ts mutants reduce Hsp82p function while over expression suppresses the phenotypes of an HSP82 ts allele and a cpr7 deletion
YOR324C	0.557142	HAP3	YOR324C|FRT1|S000005851|Tail-anchored endoplasmic reticulum membrane protein that is a substrate of the phosphatase calcineurin, interacts with homolog Frt2p, promotes cell growth in conditions of high Na+, alkaline pH, and cell wall stress
YGL041W-A	0.556978	HAP3	YGL041W-A||S000028826|Putative protein of unknown function, conserved in fungi; identified by expression profiling and mass spectrometry
YMR163C	0.554628	HAP3	YMR163C|INP2|S000004773|Peroxisome-specific receptor important for peroxisome inheritance; co-fractionates with peroxisome membranes and co-localizes with peroxisomes in vivo; physically interacts with the myosin V motor Myo2p; INP2 is not an essential gene
YHR075C	0.553793	HAP3	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
YEL073C	0.553421	HAP3	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
YJL149W	0.548861	HAP3	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
YIL054W	0.54685	HAP3	YIL054W||S000001316|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YMR224C	0.539587	HAP3	YMR224C|MRE11|S000004837|Subunit of a complex with Rad50p and Xrs2p (MRX complex) that functions in repair of DNA double-strand breaks and in telomere stability, exhibits nuclease activity that appears to be required for MRX function; widely conserved
YMR227C	0.539577	HAP3	YMR227C|TAF7|S000004840|TFIID subunit (67 kDa), involved in RNA polymerase II transcription initiation
YGL052W	0.534376	HAP3	YGL052W||S000003020|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF MST27
YCR085W	0.530709	HAP3	YCR085W||S000000681|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YBR008C	0.525778	HAP3	YBR008C|FLR1|S000000212|Plasma membrane multidrug transporter of the major facilitator superfamily, involved in efflux of fluconazole, diazaborine, benomyl, methotrexate, and other drugs
YCR105W	0.522732	HAP3	YCR105W|ADH7|S000000702|NADPH-dependent medium chain alcohol dehydrogenase with broad substrate specificity; member of the cinnamyl family of alcohol dehydrogenases; may be involved in fusel alcohol synthesis or in aldehyde tolerance
YNL177C	0.519638	HAP3	YNL177C|MRPL22|S000005121|Mitochondrial ribosomal protein of the large subunit
YAL067W-A	0.512294	HAP3	YAL067W-A||S000028593|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YGL003C	0.508174	HAP3	YGL003C|CDH1|S000002971|Cell-cycle regulated activator of the anaphase-promoting complex/cyclosome (APC/C), which directs ubiquitination of cyclins resulting in mitotic exit; targets the APC/C to specific substrates including CDC20, ASE1, CIN8 and FIN1
YBR083W	0.507474	HAP3	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
YBL021C	0.501906	HAP3	YBL021C|HAP3|S000000117|Subunit of the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex, a transcriptional activator and global regulator of respiratory gene expression; contains sequences contributing to both complex assembly and DNA binding
YDL196W	0.500996	HAP3	YDL196W||S000002355|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; open reading frame is located in promoter region of essential gene SEC31
YOL026C	0.498589	HAP3	YOL026C|MIM1|S000005386|Mitochondrial outer membrane protein, required for assembly of the translocase of the outer membrane (TOM) complex and thereby for mitochondrial protein import; N terminus is exposed to the cytosol: transmembrane segment is highly conserved
YLR248W	0.491579	HAP3	YLR248W|RCK2|S000004238|Protein kinase involved in the response to oxidative and osmotic stress; identified as suppressor of S. pombe cell cycle checkpoint mutations
YML047C	0.488903	HAP3	YML047C|PRM6|S000004510|Pheromone-regulated protein, predicted to have 2 transmembrane segments; regulated by Ste12p during mating
YGR016W	0.488727	HAP3	YGR016W||S000003248|Putative protein of unknown function
YBL013W	0.482765	HAP3	YBL013W|FMT1|S000000109|Methionyl-tRNA formyltransferase, catalyzes the formylation of initiator Met-tRNA in mitochondria; potential Cdc28p substrate
YEL050W-A	0.477658	HAP3	YEL050W-A||S000028545|Dubious open reading frame unlikely to encode a functional protein, identified by fungal homology and RT-PCR
YBR186W	0.475536	HAP3	YBR186W|PCH2|S000000390|Nucleolar component of the pachytene checkpoint, which prevents chromosome segregation when recombination and chromosome synapsis are defective; also represses meiotic interhomolog recombination in the rDNA
YDR247W	0.473408	HAP3	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
YLL010C	0.463739	HAP3	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
YHL042W	0.462705	HAP3	YHL042W||S000001034|Putative protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YDR362C	0.459506	HAP3	YDR362C|TFC6|S000002770|One of six subunits of RNA polymerase III transcription initiation factor complex (TFIIIC); part of TFIIIC TauB domain that binds BoxB promoter sites of tRNA and other genes; cooperates with Tfc3p in DNA binding; human homolog is TFIIIC-110
YDR299W	0.459118	HAP3	YDR299W|BFR2|S000002707|Essential protein possibly involved in secretion; multicopy suppressor of sensitivity to Brefeldin A
YKL203C	0.454163	HAP3	YKL203C|TOR2|S000001686|PIK-related protein kinase and rapamycin target; subunit of TORC1, a complex that regulates growth in response to nutrients and TORC2, a complex that regulates cell-cycle dependent polarization of the actin cytoskeleton; involved in meiosis
YLR289W	0.447868	HAP3	YLR289W|GUF1|S000004280|Mitochondrial GTPase of unknown function, similar to E. coli elongation factor-type GTP-binding protein LepA and to LK1236.1 from Caenorhabditis elegans
YOR135C	0.44628	HAP3	YOR135C|IRC14|S000005661|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YOR136W; null mutant displays increased levels of spontaneous Rad52 foci
YIR001C	0.44628	HAP3	YIR001C|SGN1|S000001440|Cytoplasmic RNA-binding protein, contains an RNA recognition motif (RRM); may have a role in mRNA translation, as suggested by genetic interactions with genes encoding proteins involved in translational initiation
YER164W	0.442323	HAP3	YER164W|CHD1|S000000966|Nucleosome remodeling factor that functions in regulation of transcription elongation; contains a chromo domain, a helicase domain and a DNA-binding domain; component of both the SAGA and SLIK complexes
YMR287C	0.439967	HAP3	YMR287C|DSS1|S000004900|3'-5' exoribonuclease, component of the mitochondrial degradosome along with the ATP-dependent RNA helicase Suv3p; the degradosome associates with the ribosome and mediates turnover of aberrant or unprocessed RNAs
YPR018W	0.438918	HAP3	YPR018W|RLF2|S000006222|Largest subunit (p90) of the Chromatin Assembly Complex (CAF-1) with Cac2p and Msi1p that assembles newly synthesized histones onto recently replicated DNA; involved in the maintenance of transcriptionally silent chromatin
YHR106W	0.43071	HAP3	YHR106W|TRR2|S000001148|Mitochondrial thioredoxin reductase involved in protection against oxidative stress, required with Glr1p to maintain the redox state of Trx3p; contains active-site motif (CAVC) present in prokaryotic orthologs; binds NADPH and FAD
YBR240C	0.428708	HAP3	YBR240C|THI2|S000000444|Zinc finger protein of the Zn(II)2Cys6 type, probable transcriptional activator of thiamine biosynthetic genes
YCR097W-A	0.427781	HAP3	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
YBR120C	0.425899	HAP3	YBR120C|CBP6|S000000324|Mitochondrial translational activator of the COB mRNA; phosphorylated
YEL069C	0.421609	HAP3	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
YKL003C	0.418598	HAP3	YKL003C|MRP17|S000001486|Mitochondrial ribosomal protein of the small subunit; MRP17 exhibits genetic interactions with PET122, encoding a COX3-specific translational activator
YKR044W	0.412136	HAP3	YKR044W|UIP5|S000001752|Protein of unknown function that interacts with Ulp1p, a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates
YNL241C	0.408932	HAP3	YNL241C|ZWF1|S000005185|Glucose-6-phosphate dehydrogenase (G6PD), catalyzes the first step of the pentose phosphate pathway; involved in adapting to oxidatve stress; homolog of the human G6PD which is deficient in patients with hemolytic anemia
YBL102W	0.408087	HAP3	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
YPL126W	0.405765	HAP3	YPL126W|NAN1|S000006047|U3 snoRNP protein, component of the small (ribosomal) subunit (SSU) processosome containing U3 snoRNA; required for the biogenesis of18S rRNA
YPL035C	0.405717	HAP3	YPL035C||S000005956|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized gene YPL034W; YPL035C is not an essential gene
YKL223W	0.404985	HAP3	YKL223W||S000001706|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YMR030W	0.403704	HAP3	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
YOR205C	0.403361	HAP3	YOR205C|LRC5|S000005731|Protein of unknown function; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant displays decreased frequency of mitochondrial genome loss and severe growth defect in minimal glycerol media
YIR040C	0.400727	HAP3	YIR040C||S000001479|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YFR011C	0.398617	HAP3	YFR011C|AIM13|S000001907|Putative protein of unknown function; non-tagged protein is detected in highly purified mitochondria; null mutant displays increased frequency of mitochondrial genome loss (petite formation) and reduced growth rate in minimal glycerol media
YLR430W	0.397891	HAP3	YLR430W|SEN1|S000004422|Presumed helicase required for RNA polymerase II transcription termination and processing of RNAs; homolog of Senataxin which causes Ataxia-Oculomotor Apraxia 2 and a dominant form of amyotrophic lateral sclerosis
YNL100W	0.393377	HAP3	YNL100W|AIM37|S000005044|Putative protein of unknown function; non-tagged protein is detected in purified mitochondria; null mutant displays decreased frequency of mitochondrial genome loss (petite formation) and severe growth defect in minimal glycerol media
YPR022C	0.392246	HAP3	YPR022C||S000006226|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus and is induced in response to the DNA-damaging agent MMS
YGR015C	0.391587	HAP3	YGR015C||S000003247|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the mitochondrion
YJR037W	0.389538	HAP3	YJR037W||S000003798|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene HUL4/YJR036C; YJR037W is not an essential gene.
YDL197C	0.388288	HAP3	YDL197C|ASF2|S000002356|Anti-silencing protein that causes derepression of silent loci when overexpressed
YIL033C	0.379301	HAP3	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
YGR227W	0.371469	HAP3	YGR227W|DIE2|S000003459|Dolichyl-phosphoglucose-dependent alpha-1,2 glucosyltransferase of the ER, functions in the pathway that synthesizes the dolichol-linked oligosaccharide precursor for N-linked protein glycosylation, has a role in regulation of ITR1 and INO1
YJL176C	0.365806	HAP3	YJL176C|SWI3|S000003712|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
YML117W	0.35626	HAP3	YML117W|NAB6|S000004585|Putative RNA-binding protein, based on computational analysis of large-scale protein-protein interaction data
YKR095W	0.351478	HAP3	YKR095W|MLP1|S000001803|Myosin-like protein associated with the nuclear envelope, connects the nuclear pore complex with the nuclear interior; involved with Tel1p in telomere length control; involved with Pml1p and Pml39p in nuclear retention of unspliced mRNAs
YBR016W	0.346685	HAP3	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
YNR004W	0.34379	HAP3	YNR004W||S000005287|Putative protein of unknown function; haploid disruptant exhibits slow growth rate on glucose-minimal medium at 15 C
YLR071C	0.341705	HAP3	YLR071C|RGR1|S000004061|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; required for glucose repression, HO repression, RME1 repression and sporulation
YDR229W	0.332707	HAP3	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
YBR136W	0.330664	HAP3	YBR136W|MEC1|S000000340|Genome integrity checkpoint protein and PI kinase superfamily member; signal transducer required for cell cycle arrest and transcriptional responses prompted by damaged or unreplicated DNA; monitors and participates in meiotic recombination
YJL036W	0.329915	HAP3	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
YDR150W	0.313616	HAP3	YDR150W|NUM1|S000002557|Protein required for nuclear migration, localizes to the mother cell cortex and the bud tip; may mediate interactions of dynein and cytoplasmic microtubules with the cell cortex
YDR242W	0.306823	HAP3	YDR242W|AMD2|S000002650|Putative amidase
YPR161C	0.303924	HAP3	YPR161C|SGV1|S000006365|Cyclin (Bur2p)-dependent protein kinase that functions in transcriptional regulation; phosphorylates the carboxy-terminal domain of Rpo21p, which is the largest subunit of RNA polymerase II; regulated by Cak1p
YKL176C	0.301878	HAP3	YKL176C|LST4|S000001659|Protein possibly involved in a post-Golgi secretory pathway; required for the transport of nitrogen-regulated amino acid permease Gap1p from the Golgi to the cell surface
YKL039W	0.294951	HAP3	YKL039W|PTM1|S000001522|Protein of unknown function, copurifies with late Golgi vesicles containing the v-SNARE Tlg2p
YOL066C	0.293907	HAP3	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
YBR054W	0.293677	HAP3	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
YKL002W	0.288755	HAP3	YKL002W|DID4|S000001485|Class E Vps protein of the ESCRT-III complex, required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis
YPR017C	0.288019	HAP3	YPR017C|DSS4|S000006221|Guanine nucleotide dissociation stimulator for Sec4p, functions in the post-Golgi secretory pathway; binds zinc, found both on membranes and in the cytosol
YKL210W	0.286612	HAP3	YKL210W|UBA1|S000001693|Ubiquitin activating enzyme (E1), involved in ubiquitin-mediated protein degradation and essential for viability
YJL151C	0.286313	HAP3	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
YLR263W	0.283885	HAP3	YLR263W|RED1|S000004253|Protein component of the axial elements of the synaptonemal complex, involved in chromosome segregation during the first meiotic division; interacts with Hop1p; required for wild-type levels of Mek1p kinase activity
YCR018C-A	0.283795	HAP3	YCR018C-A||S000007230|Putative protein of unknown function; encoded opposite a Ty1 LTR
YDL042C	0.282541	HAP3	YDL042C|SIR2|S000002200|Conserved NAD+ dependent histone deacetylase of the Sirtuin family involved in regulation of lifespan; plays roles in silencing at HML, HMR, telomeres, and the rDNA locus; negatively regulates initiation of DNA replication
YKR098C	0.281885	HAP3	YKR098C|UBP11|S000001806|Ubiquitin-specific protease that cleaves ubiquitin from ubiquitinated proteins
YJL101C	0.281776	HAP3	YJL101C|GSH1|S000003637|Gamma glutamylcysteine synthetase catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury
YLR364W	0.27932	HAP3	YLR364W|GRX8|S000004356|Putative cytosolic dithiol glutaredoxin; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; non-essential gene that is strongly induced by arsenic
YNL337W	0.275484	HAP3	YNL337W||S000005281|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YJL175W	0.273108	HAP3	YJL175W||S000003711|Dubious open reading frame unlikely to encode a functional protein; deletion confers resistance to cisplatin, hypersensitivity to 5-fluorouracil, and growth defect at high pH with high calcium; overlaps gene for SWI3 transcription factor
YIL013C	0.269823	HAP3	YIL013C|PDR11|S000001275|ATP-binding cassette (ABC) transporter, multidrug transporter involved in multiple drug resistance; mediates sterol uptake when sterol biosynthesis is compromisedregulated by Pdr1p; required for anaerobic growth
YDL162C	0.243549	HAP3	YDL162C||S000002321|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps ENT1/YDL161W, a verified gene involved in endocytosis and actin cortical patch assembly
YLR315W	0.242214	HAP3	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)
YDL005C	0.237685	HAP3	YDL005C|MED2|S000002163|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
YER054C	0.236805	HAP3	YER054C|GIP2|S000000856|Putative regulatory subunit of the protein phosphatase Glc7p, involved in glycogen metabolism; contains a conserved motif (GVNK motif) that is also found in Gac1p, Pig1p, and Pig2p
YDR494W	0.232463	HAP3	YDR494W|RSM28|S000002902|Mitochondrial ribosomal protein of the small subunit; genetic interactions suggest a possible role in promoting translation initiation
YKL165C-A	0.229461	HAP3	YKL165C-A||S000007617|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR121C	0.228273	HAP3	YLR121C|YPS3|S000004111|Aspartic protease, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
YML107C	0.227385	HAP3	YML107C|PML39|S000004575|Protein required for nuclear retention of unspliced pre-mRNAs along with Mlp1p and Pml1p; anchored to nuclear pore complex via Mlp1p and Mlp2p; found with the subset of nuclear pores farthest from the nucleolus; may interact with ribosomes
YNL314W	0.223727	HAP3	YNL314W|DAL82|S000005258|Positive regulator of allophanate inducible genes; binds a dodecanucleotide sequence upstream of all genes that are induced by allophanate; contains an UISALL DNA-binding, a transcriptional activation, and a coiled-coil domain
YDR420W	0.223011	HAP3	YDR420W|HKR1|S000002828|Serine/threonine rich cell surface protein; osmosensor; involved in the regulation of cell wall beta-1,3 glucan synthesis, bud site selection and hyperosmotic response; overexpression confers resistance to Hansenula mrakii killer toxin HM-1
YLR450W	0.222385	HAP3	YLR450W|HMG2|S000004442|One of two isozymes of HMG-CoA reductase that convert HMG-CoA to mevalonate, a rate-limiting step in sterol biosynthesis; overproduction induces assembly of peripheral ER membrane arrays and short nuclear-associated membrane stacks
YIL012W	0.222051	HAP3	YIL012W||S000001274|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YIR016W	0.220049	HAP3	YIR016W||S000001455|Putative protein of unknown function; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; YIR016W is a non-essential gene
YOR325W	0.217553	HAP3	YOR325W||S000005852|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified ORF FRT1
YNL325C	0.212158	HAP3	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
YIR003W	0.209024	HAP3	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)
YER133W-A	0.208878	HAP3	YER133W-A||S000028756|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized gene YER134C.
YIR002C	0.207181	HAP3	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
YGR101W	0.20204	HAP3	YGR101W|PCP1|S000003333|Mitochondrial serine protease required for the processing of various mitochondrial proteins and maintenance of mitochondrial DNA and morphology; belongs to the rhomboid-GlpG superfamily of intramembrane peptidases
YBL103C	0.199234	HAP3	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
YNL161W	0.195841	HAP3	YNL161W|CBK1|S000005105|Serine/threonine protein kinase that regulates cell morphogenesis pathways; involved in cell wall biosynthesis, apical growth, proper mating projection morphology, bipolar bud site selection in diploid cells, and cell separation
YLR008C	0.194664	HAP3	YLR008C|PAM18|S000003998|J-protein co-chaperone of the mitochondrial import motor associated with the presequence translocase, with Ssc1p, Tim44p, Mge1p, and Pam16p; stimulates ATPase activity of Ssc1p to drive mitochondrial import; activity is inhibited by Pam16p
YLL025W	0.193543	HAP3	YLL025W|PAU17|S000003948|Putative protein of unknown function; YLL025W is not an essential gene
YHL010C	0.192534	HAP3	YHL010C|BRP2|S000001002|Putative protein of unknown function, contains a zinc finger region and has homology to human BRAP2, which is a cytoplasmic protein that binds nuclear localization sequences
YKL059C	0.188535	HAP3	YKL059C|MPE1|S000001542|Essential conserved subunit of CPF (cleavage and polyadenylation factor), plays a role in 3' end formation of mRNA via the specific cleavage and polyadenylation of pre-mRNA, contains a putative RNA-binding zinc knuckle motif
YMR150C	0.185722	HAP3	YMR150C|IMP1|S000004758|Catalytic subunit of the mitochondrial inner membrane peptidase complex, required for maturation of mitochondrial proteins of the intermembrane space; complex contains Imp1p and Imp2p (both catalytic subunits), and Som1p
YGL051W	0.18412	HAP3	YGL051W|MST27|S000003019|Putative integral membrane protein, involved in vesicle formation; forms complex with Mst28p; member of DUP240 gene family; binds COPI and COPII vesicles
YKL084W	0.182048	HAP3	YKL084W|HOT13|S000001567|Mitochondrial intermembrane space protein, first component of a pathway mediating assembly of small TIM (Translocase of the Inner Membrane) complexes which escort hydrophobic inner membrane proteins en route to the TIM22 complex
YHR161C	0.178904	HAP3	YHR161C|YAP1801|S000001204|Protein involved in clathrin cage assembly; binds Pan1p and clathrin; homologous to Yap1802p, member of the AP180 protein family
YJL051W	0.177365	HAP3	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
YNL020C	0.175444	HAP3	YNL020C|ARK1|S000004965|Serine/threonine protein kinase involved in regulation of the cortical actin cytoskeleton; involved in control of endocytosis
YMR086W	0.174011	HAP3	YMR086W||S000004692|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; cAMP represses YMR086W expression
YJR100C	0.173805	HAP3	YJR100C|AIM25|S000003861|Putative protein of unknown function; non-tagged protein is detected in purified mitochondria in high-throughput studies; null mutant displays increased frequency of mitochondrial genome loss (petite formation); similar to murine NOR1
YMR240C	0.17142	HAP3	YMR240C|CUS1|S000004853|Protein required for assembly of U2 snRNP into the spliceosome, forms a complex with Hsh49p and Hsh155p
YDL025C	0.166837	HAP3	YDL025C||S000002183|Putative protein kinase, potentially phosphorylated by Cdc28p; YDL025C is not an essential gene
YNL254C	0.165696	HAP3	YNL254C|RTC4|S000005198|Hypothetical protein; null mutation suppresses cdc13-1 temperature sensitivity
YDR363W	0.163699	HAP3	YDR363W|ESC2|S000002771|Protein involved in mating-type locus silencing, interacts with Sir2p; probably functions to recruit or stabilize Sir proteins
YGL013C	0.162229	HAP3	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
YDR445C	0.161452	HAP3	YDR445C||S000002853|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YBR082C	0.160857	HAP3	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
YJR090C	0.160717	HAP3	YJR090C|GRR1|S000003850|F-box protein component of the SCF ubiquitin-ligase complex; involved in carbon catabolite repression, glucose-dependent divalent cation transport, high-affinity glucose transport, morphogenesis, and sulfite detoxification
YNL324W	0.159387	HAP3	YNL324W||S000005268|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPL083C	0.156974	HAP3	YPL083C|SEN54|S000006004|Subunit of the tRNA splicing endonuclease, which is composed of Sen2p, Sen15p, Sen34p, and Sen54p
YKR050W	0.156633	HAP3	YKR050W|TRK2|S000001758|Component of the Trk1p-Trk2p potassium transport system
YGL150C	0.153011	HAP3	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
YIL032C	0.146314	HAP3	YIL032C||S000001294|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL239W	0.145637	HAP3	YNL239W|LAP3|S000005183|Cysteine aminopeptidase with homocysteine-thiolactonase activity; protects cells against homocysteine toxicity; has bleomycin hydrolase activity in vitro; transcription is regulated by galactose via Gal4p; orthologous to human BLMH
YJL110C	0.136456	HAP3	YJL110C|GZF3|S000003646|GATA zinc finger protein and Dal80p homolog that negatively regulates nitrogen catabolic gene expression by competing with Gat1p for GATA site binding; function requires a repressive carbon source; dimerizes with Dal80p and binds to Tor1p
YOR278W	0.136456	HAP3	YOR278W|HEM4|S000005804|Uroporphyrinogen III synthase, catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen III, the fourth step in the heme biosynthetic pathway
YKL058W	0.136196	HAP3	YKL058W|TOA2|S000001541|TFIIA small subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; homologous to smallest subunit of human and Drosophila TFIIA
YOR301W	0.135733	HAP3	YOR301W|RAX1|S000005827|Protein involved in bud site selection during bipolar budding; localization requires Rax2p; has similarity to members of the insulin-related peptide superfamily
YER137W-A	0.133356	HAP3	YER137W-A||S000028757|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YCR036W	0.132018	HAP3	YCR036W|RBK1|S000000632|Putative ribokinase
YCR084C	0.129888	HAP3	YCR084C|TUP1|S000000680|General repressor of transcription, forms complex with Cyc8p, involved in the establishment of repressive chromatin structure through interactions with histones H3 and H4, appears to enhance expression of some genes
YPL213W	0.129722	HAP3	YPL213W|LEA1|S000006134|Component of U2 snRNP; disruption causes reduced U2 snRNP levels; physically interacts with Msl1p; invovled in telomere maintenance; putative homolog of human U2A' snRNP protein
YJR129C	0.129123	HAP3	YJR129C||S000003890|Putative protein of unknown function; predicted S-adenosylmethionine-dependent methyltransferase of the seven beta-strand family; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YBR216C	0.126073	HAP3	YBR216C|YBP1|S000000420|Protein required for oxidation of specific cysteine residues of the transcription factor Yap1p, resulting in the nuclear localization of Yap1p in response to stress
YJR059W	0.126023	HAP3	YJR059W|PTK2|S000003820|Putative serine/threonine protein kinase involved in regulation of ion transport across plasma membrane; enhances spermine uptake
YOR044W	0.122612	HAP3	YOR044W|IRC23|S000005570|Putative protein of unknown function; green fluorescent protein (GFP)-fusion localizes to the ER; null mutant displays increased levels of spontaneous Rad52p foci
YOR068C	0.119588	HAP3	YOR068C|VAM10|S000005594|Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering
YHR207C	0.119435	HAP3	YHR207C|SET5|S000001250|Zinc-finger protein of unknown function, contains one canonical and two unusual fingers in unusual arrangements; deletion enhances replication of positive-strand RNA virus
YDR285W	0.116832	HAP3	YDR285W|ZIP1|S000002693|Transverse filament protein of the synaptonemal complex; required for normal levels of meiotic recombination and pairing between homologous chromosome during meiosis; potential Cdc28p substrate
YOL164W	0.115618	HAP3	YOL164W|BDS1|S000005524|Bacterially-derived sulfatase required for use of alkyl- and aryl-sulfates as sulfur sources
YOR381W-A	0.11272	HAP3	YOR381W-A||S000028587|Putative protein of unknown function; identified by fungal homology and RT-PCR
YKR005C	0.110951	HAP3	YKR005C||S000001713|Putative protein of unknown function
YMR023C	0.108048	HAP3	YMR023C|MSS1|S000004625|Mitochondrial protein, forms a heterodimer complex with Mto1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; similar to human GTPBP3
YJL186W	0.104304	HAP3	YJL186W|MNN5|S000003722|Alpha-1,2-mannosyltransferase, responsible for addition of the second alpha-1,2-linked mannose of the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
YDL041W	0.0939984	HAP3	YDL041W||S000002199|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene SIR2/YDL042C
YJL083W	0.0931039	HAP3	YJL083W|TAX4|S000003619|EH domain-containing protein involved in regulating phosphatidylinositol 4,5-bisphosphate levels and autophagy; Irs4p and Tax4p bind and activate the PtdIns phosphatase Inp51p; Irs4p and Tax4p are involved in localizing Atg17p to the PAS
YML099W-A	0.0930737	HAP3	YML099W-A||S000004567|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF ARG81/YML099C
YML122C	0.0923621	HAP3	YML122C||S000004591|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YCR081W	0.0908609	HAP3	YCR081W|SRB8|S000000677|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; involved in glucose repression
YHR044C	0.0907155	HAP3	YHR044C|DOG1|S000001086|2-deoxyglucose-6-phosphate phosphatase, similar to Dog2p, member of a family of low molecular weight phosphatases; confers 2-deoxyglucose resistance when overexpressed, in vivo substrate has not yet been identified
YLR223C	0.0845747	HAP3	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	0.0792998	HAP3	YOR072W-B||S000028516|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YBR114W	0.0742398	HAP3	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
YER143W	0.0703689	HAP3	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
YMR294W	0.0700593	HAP3	YMR294W|JNM1|S000004908|Component of the yeast dynactin complex, consisting of Nip100p, Jnm1p, and Arp1p; required for proper nuclear migration and spindle partitioning during mitotic anaphase B
YIL029W-A	0.0696131	HAP3	YIL029W-A||S000028788|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPR125W	0.0695392	HAP3	YPR125W|YLH47|S000006329|Mitochondrial inner membrane protein exposed to the mitochondrial matrix, associates with mitochondrial ribosomes, NOT required for respiratory growth; homolog of human Letm1, a protein implicated in Wolf-Hirschhorn syndrome
YDL161W	0.06635	HAP3	YDL161W|ENT1|S000002320|Epsin-like protein involved in endocytosis and actin patch assembly and functionally redundant with Ent2p; binds clathrin via a clathrin-binding domain motif at C-terminus
YGL177W	0.0662876	HAP3	YGL177W||S000003145|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YIL050W	0.0650884	HAP3	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
YPR149W	0.0590103	HAP3	YPR149W|NCE102|S000006353|Protein of unknown function; contains transmembrane domains; involved in secretion of proteins that lack classical secretory signal sequences; component of the detergent-insoluble glycolipid-enriched complexes (DIGs)
YOR056C	0.0556738	HAP3	YOR056C|NOB1|S000005582|Essential nuclear protein involved in proteasome maturation and synthesis of 40S ribosomal subunits; required for cleavage of the 20S pre-rRNA to generate the mature 18S rRNA
YJL063C	0.0552058	HAP3	YJL063C|MRPL8|S000003599|Mitochondrial ribosomal protein of the large subunit
YBR053C	0.05435	HAP3	YBR053C||S000000257|Putative protein of unknown function; induced by cell wall perturbation
YIR038C	0.0517345	HAP3	YIR038C|GTT1|S000001477|ER associated glutathione S-transferase capable of homodimerization; expression induced during the diauxic shift and throughout stationary phase; functional overlap with Gtt2p, Grx1p, and Grx2p
YDL195W	0.0512046	HAP3	YDL195W|SEC31|S000002354|Essential phosphoprotein component (p150) of the COPII coat of secretory pathway vesicles, in complex with Sec13p; required for ER-derived transport vesicle formation
YNL059C	0.0491439	HAP3	YNL059C|ARP5|S000005004|Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes
YHR179W	0.0436815	HAP3	YHR179W|OYE2|S000001222|Widely conserved NADPH oxidoreductase containing flavin mononucleotide (FMN), homologous to Oye3p with slight differences in ligand binding and catalytic properties; may be involved in sterol metabolism
YLR354C	0.0424211	HAP3	YLR354C|TAL1|S000004346|Transaldolase, enzyme in the non-oxidative pentose phosphate pathway; converts sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate to erythrose 4-phosphate and fructose 6-phosphate
YCR027C	0.0401411	HAP3	YCR027C|RHB1|S000000622|Putative Rheb-related GTPase involved in regulating canavanine resistance and arginine uptake; member of the Ras superfamily of G-proteins
YKR052C	0.0379454	HAP3	YKR052C|MRS4|S000001760|Mitochondrial iron transporter of the mitochondrial carrier family (MCF), very similar to and functionally redundant with Mrs3p; functions under low-iron conditions; may transport other cations in addition to iron
YNR071C	0.0369018	HAP3	YNR071C||S000005354|Putative protein of unknown function
YBL029C-A	0.0349746	HAP3	YBL029C-A||S000007591|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; has potential orthologs in Saccharomyces species and in Yarrowia lipolytica
YDR349C	0.0337914	HAP3	YDR349C|YPS7|S000002757|Putative GPI-anchored aspartic protease, located in the cytoplasm and endoplasmic reticulum
YOR095C	0.0334473	HAP3	YOR095C|RKI1|S000005621|Ribose-5-phosphate ketol-isomerase, catalyzes the interconversion of ribose 5-phosphate and ribulose 5-phosphate in the pentose phosphate pathway; participates in pyridoxine biosynthesis
YGR154C	0.0323749	HAP3	YGR154C|GTO1|S000003386|Omega-class glutathione transferase; induced under oxidative stress; putative peroxisomal localization
YML041C	0.0297833	HAP3	YML041C|VPS71|S000004505|Nucleosome-binding component of the SWR1 complex, which exchanges histone variant H2AZ (Htz1p) for chromatin-bound histone H2A; required for vacuolar protein sorting
YCR032W	0.0245079	HAP3	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
YPR072W	0.0238444	HAP3	YPR072W|NOT5|S000006276|Subunit of the CCR4-NOT complex, which is a global transcriptional regulator with roles in transcription initiation and elongation and in mRNA degradation
YBL091C-A	0.0219781	HAP3	YBL091C-A|SCS22|S000007228|Protein involved in regulation of phospholipid metabolism; homolog of Scs2p; similar to D. melanogaster inturned protein
YKR080W	0.0216842	HAP3	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
YCR024C-B	0.0197954	HAP3	YCR024C-B||S000028818|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YBR217W	0.0181213	HAP3	YBR217W|ATG12|S000000421|Conserved ubiquitin-like modifier involved in autophagy and the Cvt pathway; conjugated to Atg5p to form a complex involved in Atg8p lipidation; Atg12p-Atg5p also forms a complex with Atg16p that is required for autophagosome formation
YIL095W	0.00784327	HAP3	YIL095W|PRK1|S000001357|Protein serine/threonine kinase; regulates the organization and function of the actin cytoskeleton through the phosphorylation of the Pan1p-Sla1p-End3p protein complex
YBR024W	0.00783662	HAP3	YBR024W|SCO2|S000000228|Protein anchored to the mitochondrial inner membrane, similar to Sco1p and may have a redundant function with Sco1p in delivery of copper to cytochrome c oxidase; interacts with Cox2p
YLR170C	0.00710791	HAP3	YLR170C|APS1|S000004160|Small subunit of the clathrin-associated adaptor complex AP-1, which is involved in protein sorting at the trans-Golgi network; homolog of the sigma subunit of the mammalian clathrin AP-1 complex
YFL039C	0.00669454	HAP3	YFL039C|ACT1|S000001855|Actin, structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions
YOL164W-A	0.00452669	HAP3	YOL164W-A||S000028580|Putative protein of unknown function; identified by fungal homology and RT-PCR
YCR066W	0.00370661	HAP3	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
