YAL062W	41.6533	HAP4	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
YJR095W	21.2036	HAP4	YJR095W|SFC1|S000003856|Mitochondrial succinate-fumarate transporter, transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
YDR536W	21.1761	HAP4	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
YER065C	20.9558	HAP4	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
YNL052W	18.47	HAP4	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
YBL015W	14.4863	HAP4	YBL015W|ACH1|S000000111|Acetyl-coA hydrolase, primarily localized to mitochondria; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
YNR002C	14.4056	HAP4	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
YBR117C	13.7096	HAP4	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
YJR078W	13.6286	HAP4	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
YDL181W	13.6004	HAP4	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
YKL148C	13.1801	HAP4	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
YKL141W	12.1085	HAP4	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
YPR010C-A	12.079	HAP4	YPR010C-A||S000122558|Putative protein of unknown function; conserved among Saccharomyces sensu stricto species
YFR017C	11.9093	HAP4	YFR017C||S000001913|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and is induced in response to the DNA-damaging agent MMS; YFR017C is not an essential gene
YBL099W	11.7872	HAP4	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
YAL063C	11.7363	HAP4	YAL063C|FLO9|S000000059|Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation
YMR256C	11.0766	HAP4	YMR256C|COX7|S000004869|Subunit VII of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YIL125W	10.6737	HAP4	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
YBL100C	10.3577	HAP4	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
YBR201C-A	10.325	HAP4	YBR201C-A||S000087085|Putative protein of unknown function
YCR005C	10.223	HAP4	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
YEL008W	10.2024	HAP4	YEL008W||S000000734|Hypothetical protein predicted to be involved in metabolism
YBL030C	10.2	HAP4	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
YML087C	10.1855	HAP4	YML087C|AIM33|S000004552|Putative protein of unknown function; highly conserved across species and orthologous to human CYB5R4; null mutant shows increased frequency of mitochondrial genome loss (petite formation) and severe growth defect in minimal glycerol media
YIL136W	10.1403	HAP4	YIL136W|OM45|S000001398|Protein of unknown function, major constituent of the mitochondrial outer membrane; located on the outer (cytosolic) face of the outer membrane
YMR175W	10.1141	HAP4	YMR175W|SIP18|S000004787|Protein of unknown function whose expression is induced by osmotic stress
YHR139C	10.1004	HAP4	YHR139C|SPS100|S000001181|Protein required for spore wall maturation; expressed during sporulation; may be a component of the spore wall
YML089C	10.0796	HAP4	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
YDR298C	10.0014	HAP4	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
YEL009C	9.63614	HAP4	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
YLR023C	9.35288	HAP4	YLR023C|IZH3|S000004013|Membrane protein involved in zinc metabolism, member of the four-protein IZH family, expression induced by zinc deficiency; deletion reduces sensitivity to elevated zinc and shortens lag phase, overexpression reduces Zap1p activity
YIL057C	9.30109	HAP4	YIL057C||S000001319|Putative protein of unknown function; expression induced under carbon limitation and repressed under high glucose
YCR091W	9.29703	HAP4	YCR091W|KIN82|S000000687|Putative serine/threonine protein kinase, most similar to cyclic nucleotide-dependent protein kinase subfamily and the protein kinase C subfamily
YBR230C	8.83736	HAP4	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
YGR183C	8.82812	HAP4	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
YDL067C	8.82	HAP4	YDL067C|COX9|S000002225|Subunit VIIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YEL024W	8.80505	HAP4	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
YPL024W	8.80415	HAP4	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)
YPL262W	8.79963	HAP4	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
YKR009C	8.76938	HAP4	YKR009C|FOX2|S000001717|Multifunctional enzyme of the peroxisomal fatty acid beta-oxidation pathway; has 3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase activities
YKL085W	8.6155	HAP4	YKL085W|MDH1|S000001568|Mitochondrial malate dehydrogenase, catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle; phosphorylated
YLR038C	8.57276	HAP4	YLR038C|COX12|S000004028|Subunit VIb of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; required for assembly of cytochrome c oxidase but not required for activity after assembly; phosphorylated
YMR107W	8.27847	HAP4	YMR107W|SPG4|S000004713|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
YIL162W	8.16285	HAP4	YIL162W|SUC2|S000001424|Invertase, sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
YML120C	7.77792	HAP4	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
YEL035C	7.60726	HAP4	YEL035C|UTR5|S000000761|Protein of unknown function; transcription may be regulated by Gcr1p
YJR077C	7.52931	HAP4	YJR077C|MIR1|S000003838|Mitochondrial phosphate carrier, imports inorganic phosphate into mitochondria; functionally redundant with Pic2p but more abundant than Pic2p under normal conditions; phosphorylated
YJL103C	7.43343	HAP4	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
YDR377W	7.40007	HAP4	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
YML081C-A	7.31232	HAP4	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
YMR280C	7.31171	HAP4	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
YPL271W	7.26666	HAP4	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
YDR178W	7.21024	HAP4	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
YLR296W	7.13424	HAP4	YLR296W||S000004287|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YPR027C	7.10348	HAP4	YPR027C||S000006231|Putative protein of unknown function
YDR529C	7.09737	HAP4	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
YDR034C	7.00815	HAP4	YDR034C|LYS14|S000002441|Transcriptional activator involved in regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
YDL204W	6.97737	HAP4	YDL204W|RTN2|S000002363|Protein of unknown function; has similarity to mammalian reticulon proteins; member of the RTNLA (reticulon-like A) subfamily
YFR049W	6.95644	HAP4	YFR049W|YMR31|S000001945|Mitochondrial ribosomal protein of the small subunit, has similarity to human mitochondrial ribosomal protein MRP-S36
YPR036W-A	6.85869	HAP4	YPR036W-A||S000028425|Protein of unknown function; transcription is regulated by Pdr1p
YHR212C	6.82793	HAP4	YHR212C||S000001255|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPL026C	6.80489	HAP4	YPL026C|SKS1|S000005947|Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway
YBL048W	6.75071	HAP4	YBL048W||S000000144|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YIR029W	6.70823	HAP4	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
YLR304C	6.70665	HAP4	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
YAR053W	6.70234	HAP4	YAR053W||S000000085|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL190W	6.60738	HAP4	YNL190W||S000005134|Cell wall protein of unknown function; proposed role as a hydrophilin induced by osmotic stress; contains a putative GPI-attachment site
YKL163W	6.59604	HAP4	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
YLL019C	6.55479	HAP4	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
YFL019C	6.54717	HAP4	YFL019C||S000001875|Dubious open reading frame unlikely to encode a protein; YFL019C is not an essential gene
YJL116C	6.52175	HAP4	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
YLR295C	6.39586	HAP4	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
YLR122C	6.38562	HAP4	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
YER066W	6.37269	HAP4	YER066W||S000000868|Putative protein of unknown function; YER066W is not an essential gene
YCL057C-A	6.34825	HAP4	YCL057C-A||S000007547|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR186C-A	6.28419	HAP4	YOR186C-A||S000028715|Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YGL104C	6.24129	HAP4	YGL104C|VPS73|S000003072|Mitochondrial protein; mutation affects vacuolar protein sorting; putative transporter; member of the sugar porter family
YML090W	6.18592	HAP4	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
YOR121C	6.16744	HAP4	YOR121C||S000005647|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; open reading frame overlaps the verified gene GCY1/YOR120W
YLR395C	6.16614	HAP4	YLR395C|COX8|S000004387|Subunit VIII of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YHL036W	6.13418	HAP4	YHL036W|MUP3|S000001028|Low affinity methionine permease, similar to Mup1p
YIL059C	6.02812	HAP4	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
YLL020C	6.01353	HAP4	YLL020C||S000003943|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene KNS1
YKR102W	5.98093	HAP4	YKR102W|FLO10|S000001810|Lectin-like protein with similarity to Flo1p, thought to be involved in flocculation
YNL055C	5.93368	HAP4	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
YFR053C	5.91004	HAP4	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
YHR212W-A	5.89379	HAP4	YHR212W-A||S000028650|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YHL021C	5.8318	HAP4	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)
YDR322C-A	5.75696	HAP4	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
YKL146W	5.75684	HAP4	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
YBR250W	5.75616	HAP4	YBR250W|SPO23|S000000454|Protein of unknown function; associates with meiosis-specific protein Spo1p
YHR001W-A	5.71991	HAP4	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
YOR147W	5.71445	HAP4	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
YHR096C	5.66343	HAP4	YHR096C|HXT5|S000001138|Hexose transporter with moderate affinity for glucose, induced in the presence of non-fermentable carbon sources, induced by a decrease in growth rate, contains an extended N-terminal domain relative to other HXTs
YKL147C	5.56848	HAP4	YKL147C||S000001630|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; partially overlaps the verified gene AVT3
YKL016C	5.53377	HAP4	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
YLR123C	5.32922	HAP4	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
YOL077W-A	5.31756	HAP4	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
YNR001C	5.26228	HAP4	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
YKR049C	5.24341	HAP4	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
YEL059W	5.23761	HAP4	YEL059W||S000000785|Dubious open reading frame unlikely to encode a functional protein
YCL001W-B	5.22459	HAP4	YCL001W-B||S000007596|Putative protein of unknown function; identified by homology
YNL277W-A	5.21599	HAP4	YNL277W-A||S000028852|Putative protein of unknown function
YNL074C	5.17808	HAP4	YNL074C|MLF3|S000005018|Serine-rich protein of unknown function; overproduction suppresses the growth inhibition caused by exposure to the immunosuppressant leflunomide
YAR060C	5.10255	HAP4	YAR060C||S000000086|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YKL038W	5.0943	HAP4	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
YML054C	5.04099	HAP4	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
YGR243W	5.03687	HAP4	YGR243W|FMP43|S000003475|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YJL102W	4.97935	HAP4	YJL102W|MEF2|S000003638|Mitochondrial elongation factor involved in translational elongation
YER014C-A	4.9755	HAP4	YER014C-A|BUD25|S000007590|Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
YFL030W	4.8147	HAP4	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
YPR151C	4.80083	HAP4	YPR151C|SUE1|S000006355|Mitochondrial protein required for degradation of unstable forms of cytochrome c
YFL051C	4.74624	HAP4	YFL051C||S000001843|Putative protein of unknown function; YFL051C is not an essential gene
YMR118C	4.69153	HAP4	YMR118C||S000004724|Protein of unknown function with similarity to succinate dehydrogenase cytochrome b subunit; YMR118C is not an essential gene
YDR148C	4.64407	HAP4	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
YPL189C-A	4.63315	HAP4	YPL189C-A|COA2|S000028527|Putative cytochrome oxidase assembly factor; identified by homology to Ashbya gossypii; null mutation results in respiratory deficiency with specific loss of cytochrome oxidase activity
YPR020W	4.59946	HAP4	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
YKL109W	4.55644	HAP4	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
YHR008C	4.54072	HAP4	YHR008C|SOD2|S000001050|Mitochondrial superoxide dismutase, protects cells against oxygen toxicity; phosphorylated
YML091C	4.51043	HAP4	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
YGR019W	4.47415	HAP4	YGR019W|UGA1|S000003251|Gamma-aminobutyrate (GABA) transaminase (4-aminobutyrate aminotransferase) involved in the 4-aminobutyrate and glutamate degradation pathways; required for normal oxidative stress tolerance and nitrogen utilization
YKL151C	4.42473	HAP4	YKL151C||S000001634|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YPR007C	4.41501	HAP4	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
YPL078C	4.28974	HAP4	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
YIL146C	4.25419	HAP4	YIL146C|ECM37|S000001408|Non-essential protein of unknown function
YGL258W-A	4.21778	HAP4	YGL258W-A||S000007607|Putative protein of unknown function
YJL088W	4.20661	HAP4	YJL088W|ARG3|S000003624|Ornithine carbamoyltransferase (carbamoylphosphate:L-ornithine carbamoyltransferase), catalyzes the sixth step in the biosynthesis of the arginine precursor ornithine
YLR393W	4.12927	HAP4	YLR393W|ATP10|S000004385|Mitochondrial inner membrane protein required for assembly of the F0 sector of mitochondrial F1F0 ATP synthase, interacts genetically with ATP6
YFL020C	4.12656	HAP4	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
YDR470C	4.09987	HAP4	YDR470C|UGO1|S000002878|Protein of unknown function; outer membrane component of the mitochondrial fusion machinery; Ugo1p bind directly to Fzo1p and Mgm1p and thereby link these two GTPases during mitochondrial fusion
YKR097W	4.08256	HAP4	YKR097W|PCK1|S000001805|Phosphoenolpyruvate carboxykinase, key enzyme in gluconeogenesis, catalyzes early reaction in carbohydrate biosynthesis, glucose represses transcription and accelerates mRNA degradation, regulated by Mcm1p and Cat8p, located in the cytosol
YLR037C	4.05052	HAP4	YLR037C|DAN2|S000004027|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YFL055W	4.00832	HAP4	YFL055W|AGP3|S000001839|Low-affinity amino acid permease, may act to supply the cell with amino acids as nitrogen source in nitrogen-poor conditions; transcription is induced under conditions of sulfur limitation; plays a role in regulating Ty1 transposition
YOL084W	4.00048	HAP4	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
YMR174C	3.93315	HAP4	YMR174C|PAI3|S000004786|Cytoplasmic proteinase A (Pep4p) inhibitor, dependent on Pbs2p and Hog1p protein kinases for osmotic induction; intrinsically unstructured, N-terminal half becomes ordered in the active site of proteinase A upon contact
YAL067C	3.92509	HAP4	YAL067C|SEO1|S000000062|Putative permease, member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
YLR174W	3.87016	HAP4	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
YGR268C	3.83904	HAP4	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
YOR178C	3.83232	HAP4	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
YDL176W	3.82563	HAP4	YDL176W||S000002335|Putative protein of unknown function; YDL176W is not an essential gene
YBR230W-A	3.77067	HAP4	YBR230W-A||S000029722|Putative protein of unknown function
YDL114W	3.76631	HAP4	YDL114W||S000002272|Putative protein of unknown function with similarity to acyl-carrier-protein reductases; YDL114W is not an essential gene
YGR236C	3.722	HAP4	YGR236C|SPG1|S000003468|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YLL009C	3.70829	HAP4	YLL009C|COX17|S000003932|Copper metallochaperone that transfers copper to Sco1p and Cox11p for eventual delivery to cytochrome c oxidase
YIL017C	3.69756	HAP4	YIL017C|VID28|S000001279|Protein involved in proteasome-dependent catabolite degradation of fructose-1,6-bisphosphatase (FBPase); localized to the nucleus and the cytoplasm
YHL040C	3.69389	HAP4	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
YCR021C	3.67865	HAP4	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
YBR292C	3.67065	HAP4	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
YMR002W	3.66558	HAP4	YMR002W|MIC17|S000004604|Mitochondrial intermembrane space cysteine motif protein; MIC17 is not an essential gene
YKR101W	3.63125	HAP4	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
YLR124W	3.61546	HAP4	YLR124W||S000004114|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLL001W	3.56641	HAP4	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
YJR019C	3.5546	HAP4	YJR019C|TES1|S000003780|Peroxisomal acyl-CoA thioesterase likely to be involved in fatty acid oxidation rather than fatty acid synthesis; conserved protein also found in human peroxisomes; TES1 mRNA levels increase during growth on fatty acids
YBR033W	3.52439	HAP4	YBR033W|EDS1|S000000237|Putative zinc cluster protein; YBR033W is not an essential gene
YDR263C	3.49479	HAP4	YDR263C|DIN7|S000002671|Mitochondrial nuclease functioning in DNA repair and replication, modulates the stability of the mitochondrial genome, induced by exposure to mutagens, also induced during meiosis at a time nearly coincident with commitment to recombination
YCL054W	3.4604	HAP4	YCL054W|SPB1|S000000559|AdoMet-dependent methyltransferase involved in rRNA processing and 60S ribosomal subunit maturation; methylates G2922 in the tRNA docking site of the large subunit rRNA and in the absence of snR52, U2921; suppressor of PAB1 mutants
YJR151C	3.45843	HAP4	YJR151C|DAN4|S000003912|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YJR020W	3.45679	HAP4	YJR020W||S000003781|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDR473C	3.39444	HAP4	YDR473C|PRP3|S000002881|Splicing factor, component of the U4/U6-U5 snRNP complex
YMR105C	3.34481	HAP4	YMR105C|PGM2|S000004711|Phosphoglucomutase, catalyzes the conversion from glucose-1-phosphate to glucose-6-phosphate, which is a key step in hexose metabolism; functions as the acceptor for a Glc-phosphotransferase
YFL011W	3.32542	HAP4	YFL011W|HXT10|S000001883|Putative hexose transporter, expressed at low levels and expression is repressed by glucose
YGL072C	3.3143	HAP4	YGL072C||S000003040|Dubious open reading frame unlikely to encode a protein; partially overlaps the verified gene HSF1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
YKL177W	3.30712	HAP4	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
YDL140C	3.30708	HAP4	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
YEL028W	3.29496	HAP4	YEL028W||S000000754|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR009W	3.29207	HAP4	YDR009W|GAL3|S000002416|Transcriptional regulator involved in activation of the GAL genes in response to galactose; forms a complex with Gal80p to relieve Gal80p inhibition of Gal4p; binds galactose and ATP but does not have galactokinase activity
YPL250C	3.28807	HAP4	YPL250C|ICY2|S000006171|Protein of unknown function; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate
YLR125W	3.27332	HAP4	YLR125W||S000004115|Putative protein of unknown function; mutant has decreased Ty3 transposition; YLR125W is not an essential gene
YOR376W	3.25898	HAP4	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.
YLR297W	3.25797	HAP4	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
YPL183W-A	3.24286	HAP4	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	3.22312	HAP4	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
YGR059W	3.18469	HAP4	YGR059W|SPR3|S000003291|Sporulation-specific homolog of the yeast CDC3/10/11/12 family of bud neck microfilament genes; septin protein involved in sporulation; regulated by ABFI
YKR011C	3.16026	HAP4	YKR011C||S000001719|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
YHR092C	3.12508	HAP4	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
YNR073C	3.07299	HAP4	YNR073C||S000005356|Putative mannitol dehydrogenase
YEL007W	3.06959	HAP4	YEL007W||S000000733|Putative protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1)
YER166W	3.04474	HAP4	YER166W|DNF1|S000000968|Aminophospholipid translocase (flippase) that localizes primarily to the plasma membrane; contributes to endocytosis, protein transport and cell polarity; type 4 P-type ATPase
YKR015C	3.02546	HAP4	YKR015C||S000001723|Putative protein of unknown function
YDR231C	2.97377	HAP4	YDR231C|COX20|S000002639|Mitochondrial inner membrane protein, required for proteolytic processing of Cox2p and its assembly into cytochrome c oxidase
YKL150W	2.96988	HAP4	YKL150W|MCR1|S000001633|Mitochondrial NADH-cytochrome b5 reductase, involved in ergosterol biosynthesis
YKR100C	2.9594	HAP4	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
YJL199C	2.92544	HAP4	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
YHL041W	2.90898	HAP4	YHL041W||S000001033|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YOR285W	2.90495	HAP4	YOR285W||S000005811|Protein of unknown function, localized to the mitochondrial outer membrane
YAR050W	2.8906	HAP4	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
YHR145C	2.89043	HAP4	YHR145C||S000001188|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPL025C	2.8829	HAP4	YPL025C||S000005946|Hypothetical protein
YGL140C	2.86559	HAP4	YGL140C||S000003108|Putative protein of unknown function; non-essential gene; contains multiple predicted transmembrane domains
YLL039C	2.84094	HAP4	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
YPR028W	2.82306	HAP4	YPR028W|YOP1|S000006232|Membrane protein that interacts with Yip1p to mediate membrane traffic; overexpression results in cell death and accumulation of internal cell membranes; regulates vesicular traffic in stressed cells
YPR150W	2.79749	HAP4	YPR150W||S000006354|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene SUE1/YPR151C
YBR218C	2.76391	HAP4	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
YGL139W	2.74403	HAP4	YGL139W|FLC3|S000003107|Putative FAD transporter, similar to Flc1p and Flc2p; localized to the ER
YLR073C	2.72613	HAP4	YLR073C||S000004063|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to endosomes; YLR073C is not an esssential gene
YER098W	2.72218	HAP4	YER098W|UBP9|S000000900|Ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease that cleaves ubiquitin-protein fusions
YLR332W	2.70765	HAP4	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
YIL160C	2.67399	HAP4	YIL160C|POT1|S000001422|3-ketoacyl-CoA thiolase with broad chain length specificity, cleaves 3-ketoacyl-CoA into acyl-CoA and acetyl-CoA during beta-oxidation of fatty acids
YOR343C	2.66609	HAP4	YOR343C||S000005870|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YER165C-A	2.65882	HAP4	YER165C-A||S000028762|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene DNF1/YER166W
YBR293W	2.65259	HAP4	YBR293W|VBA2|S000000497|Permease of basic amino acids in the vacuolar membrane
YDL020C	2.65014	HAP4	YDL020C|RPN4|S000002178|Transcription factor that stimulates expression of proteasome genes; Rpn4p levels are in turn regulated by the 26S proteasome in a negative feedback control mechanism; RPN4 is transcriptionally regulated by various stress responses
YPR013C	2.63668	HAP4	YPR013C||S000006217|Putative zinc finger protein; YPR013C is not an essential gene
YLR331C	2.61758	HAP4	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
YPL240C	2.55032	HAP4	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
YKL178C	2.54664	HAP4	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
YMR040W	2.53796	HAP4	YMR040W|YET2|S000004643|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; homolog of human BAP31 protein
YHR125W	2.47493	HAP4	YHR125W||S000001167|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YLR189C	2.45202	HAP4	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
YJR038C	2.44831	HAP4	YJR038C||S000003799|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPL272C	2.41837	HAP4	YPL272C||S000006193|Putative protein of unknown function; gene expression induced in response to ketoconazole; YPL272C is not an essential gene
YOR346W	2.41721	HAP4	YOR346W|REV1|S000005873|Deoxycytidyl transferase, forms a complex with the subunits of DNA polymerase zeta, Rev3p and Rev7p; involved in repair of abasic sites in damaged DNA
YDR119W-A	2.38227	HAP4	YDR119W-A||S000113555|Putative protein of unknown function
YMR090W	2.34637	HAP4	YMR090W||S000004696|Putative protein of unknown function with similarity to DTDP-glucose 4,6-dehydratases; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR090W is not an essential gene
YIL066C	2.33817	HAP4	YIL066C|RNR3|S000001328|One of two large regulatory subunits of ribonucleotide-diphosphate reductase; the RNR complex catalyzes rate-limiting step in dNTP synthesis, regulated by DNA replication and DNA damage checkpoint pathways via localization of small subunits
YAR047C	2.3321	HAP4	YAR047C||S000000083|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGL219C	2.31756	HAP4	YGL219C|MDM34|S000003187|Mitochondrial outer membrane protein, required for normal mitochondrial morphology and inheritance; localizes to dots on the mitochondrial surface near mtDNA nucleoids; interacts genetically with MDM31 and MDM32
YOL081W	2.31238	HAP4	YOL081W|IRA2|S000005441|GTPase-activating protein that negatively regulates RAS by converting it from the GTP- to the GDP-bound inactive form, required for reducing cAMP levels under nutrient limiting conditions, has similarity to Ira1p and human neurofibromin
YMR145C	2.27444	HAP4	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
YLR219W	2.26739	HAP4	YLR219W|MSC3|S000004209|Protein of unknown function, green fluorescent protein (GFP)-fusion protein localizes to the cell periphery; msc3 mutants are defective in directing meiotic recombination events to homologous chromatids; potential Cdc28p substrate
YNL036W	2.26653	HAP4	YNL036W|NCE103|S000004981|Carbonic anhydrase; poorly transcribed under aerobic conditions and at an undetectable level under anaerobic conditions; involved in non-classical protein export pathway
YHR139C-A	2.25082	HAP4	YHR139C-A||S000003533|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOR187W	2.23259	HAP4	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
YDR440W	2.22235	HAP4	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
YKL175W	2.22024	HAP4	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
YDR287W	2.2202	HAP4	YDR287W|INM2|S000002695|Inositol monophosphatase, involved in biosynthesis of inositol; enzymatic activity requires magnesium ions and is inhibited by lithium and sodium ions; inm1 inm2 double mutant lacks inositol auxotrophy
YOR192C	2.20347	HAP4	YOR192C|THI72|S000005718|Transporter of thiamine or related compound; shares sequence similarity with Thi7p
YOL154W	2.17603	HAP4	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
YDR232W	2.17557	HAP4	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
YOR345C	2.17105	HAP4	YOR345C||S000005872|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene REV1; null mutant displays increased resistance to antifungal agents gliotoxin, cycloheximide and H2O2
YNL331C	2.15866	HAP4	YNL331C|AAD14|S000005275|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role
YLR222C-A	2.14669	HAP4	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
YAL060W	2.12919	HAP4	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
YLR040C	2.1245	HAP4	YLR040C||S000004030|Putative protein of unknown function; localizes to the cell wall; predicted to be a GPI-attached protein; upregulated by Mcm1p-Alpha1p transcription factor; partially overlaps the dubious ORF YLR041W; YLR040C is not essential
YDL210W	2.11048	HAP4	YDL210W|UGA4|S000002369|Permease that serves as a gamma-aminobutyrate (GABA) transport protein involved in the utilization of GABA as a nitrogen source; catalyzes the transport of putrescine and delta-aminolevulinic acid (ALA); localized to the vacuolar membrane
YLR247C	2.09613	HAP4	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
YDR342C	2.09586	HAP4	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
YKR016W	2.08527	HAP4	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
YLR094C	2.07941	HAP4	YLR094C|GIS3|S000004084|Protein of unknown function
YDR055W	2.07312	HAP4	YDR055W|PST1|S000002462|Cell wall protein that contains a putative GPI-attachment site; secreted by regenerating protoplasts; up-regulated by activation of the cell integrity pathway, as mediated by Rlm1p; upregulated by cell wall damage via disruption of FKS1
YDL243C	2.05926	HAP4	YDL243C|AAD4|S000002402|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase, involved in the oxidative stress response
YIL013C	2.02652	HAP4	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
YNL093W	2.01775	HAP4	YNL093W|YPT53|S000005037|GTPase, similar to Ypt51p and Ypt52p and to mammalian rab5; required for vacuolar protein sorting and endocytosis
YPR197C	2.01084	HAP4	YPR197C||S000006401|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YFL021W	1.99947	HAP4	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
YOR192C-C	1.98864	HAP4	YOR192C-C||S000028857|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YBR039W	1.98205	HAP4	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
YLR041W	1.97384	HAP4	YLR041W||S000004031|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YLR040C
YNR069C	1.95592	HAP4	YNR069C|BSC5|S000005352|Protein of unknown function, ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
YPR198W	1.95562	HAP4	YPR198W|SGE1|S000006402|Plasma membrane multidrug transporter of the major facilitator superfamily, acts as an extrusion permease; partial multicopy suppressor of gal11 mutations
YGL045W	1.9449	HAP4	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
YIL012W	1.93652	HAP4	YIL012W||S000001274|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGL083W	1.93424	HAP4	YGL083W|SCY1|S000003051|Putative kinase, suppressor of GTPase mutant, similar to bovine rhodopsin kinase
YML081W	1.89771	HAP4	YML081W||S000004546|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YML081w is not an essential gene
YPL134C	1.88931	HAP4	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
YNR058W	1.88567	HAP4	YNR058W|BIO3|S000005341|7,8-diamino-pelargonic acid aminotransferase (DAPA), catalyzes the second step in the biotin biosynthesis pathway; BIO3 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis
YOL118C	1.87775	HAP4	YOL118C||S000005478|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YPR201W	1.87366	HAP4	YPR201W|ARR3|S000006405|Arsenite transporter of the plasma membrane, required for resistance to arsenic compounds; transcription is activated by Arr1p in the presence of arsenite
YJR106W	1.86285	HAP4	YJR106W|ECM27|S000003867|Non-essential protein of unknown function
YJL217W	1.86109	HAP4	YJL217W||S000003753|Cytoplasmic protein of unknown function; expression induced by calcium shortage and via the copper sensing transciption factor Mac1p during conditons of copper deficiency; mRNA is cell cycle regulated, peaking in G1 phase
YGL227W	1.84618	HAP4	YGL227W|VID30|S000003196|Protein involved in proteasome-dependent catabolite degradation of fructose-1,6-bisphosphatase (FBPase); shifts the balance of nitrogen metabolism toward the production of glutamate; localized to the nucleus and the cytoplasm
YOR134W	1.83795	HAP4	YOR134W|BAG7|S000005660|Rho GTPase activating protein (RhoGAP), stimulates the intrinsic GTPase activity of Rho1p, which plays a role in actin cytoskeleton organization and control of cell wall synthesis; structurally and functionally related to Sac7p
YOL085W-A	1.83036	HAP4	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
YJR150C	1.82722	HAP4	YJR150C|DAN1|S000003911|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YPL021W	1.82352	HAP4	YPL021W|ECM23|S000005942|Non-essential protein of unconfirmed function; affects pre-rRNA processing, may act as a negative regulator of the transcription of genes involved in pseudohyphal growth; homologous to Srd1p
YJL166W	1.82028	HAP4	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
YLR377C	1.81405	HAP4	YLR377C|FBP1|S000004369|Fructose-1,6-bisphosphatase, key regulatory enzyme in the gluconeogenesis pathway, required for glucose metabolism
YOR027W	1.81243	HAP4	YOR027W|STI1|S000005553|Hsp90 cochaperone, interacts with the Ssa group of the cytosolic Hsp70 chaperones; activates the ATPase activity of Ssa1p; homolog of mammalian Hop protein
YDR171W	1.80833	HAP4	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
YPL203W	1.80507	HAP4	YPL203W|TPK2|S000006124|cAMP-dependent protein kinase catalytic subunit; promotes vegetative growth in response to nutrients via the Ras-cAMP signaling pathway; inhibited by regulatory subunit Bcy1p in the absence of cAMP; partially redundant with Tpk1p and Tpk3p
YBR147W	1.79505	HAP4	YBR147W|RTC2|S000000351|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; null mutant displays fluconazole resistance and suppresses cdc13-1 temperature sensitivity
YAL039C	1.79498	HAP4	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)
YNL094W	1.77061	HAP4	YNL094W|APP1|S000005038|Protein of unknown function, interacts with Rvs161p and Rvs167p; computational analysis of protein-protein interactions in large-scale studies suggests a possible role in actin filament organization
YMR081C	1.76046	HAP4	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
YJR080C	1.75382	HAP4	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
YJL206C	1.72568	HAP4	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
YOL066C	1.71729	HAP4	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
YDL066W	1.66656	HAP4	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
YGR043C	1.65187	HAP4	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
YEL072W	1.6219	HAP4	YEL072W|RMD6|S000000798|Protein required for sporulation
YAR023C	1.62141	HAP4	YAR023C||S000000074|Putative integral membrane protein, member of DUP240 gene family
YGR144W	1.61944	HAP4	YGR144W|THI4|S000003376|Thiazole synthase, catalyzes formation of the thiazole moiety of thiamin pyrophosphate; required for thiamine biosynthesis and for mitochondrial genome stability
YGR087C	1.60239	HAP4	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
YEL012W	1.59499	HAP4	YEL012W|UBC8|S000000738|Ubiquitin-conjugating enzyme that negatively regulates gluconeogenesis by mediating the glucose-induced ubiquitination of fructose-1,6-bisphosphatase (FBPase); cytoplasmic enzyme that catalyzes the ubiquitination of histones in vitro
YNL200C	1.59314	HAP4	YNL200C||S000005144|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YKL202W	1.5892	HAP4	YKL202W||S000001685|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPR120C	1.5634	HAP4	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
YLL056C	1.55615	HAP4	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
YGL124C	1.5479	HAP4	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
YPL189W	1.54399	HAP4	YPL189W|GUP2|S000006110|Probable membrane protein with a possible role in proton symport of glycerol; member of the MBOAT family of putative membrane-bound O-acyltransferases; Gup1p homolog
YOR221C	1.54138	HAP4	YOR221C|MCT1|S000005747|Predicted malonyl-CoA:ACP transferase, putative component of a type-II mitochondrial fatty acid synthase that produces intermediates for phospholipid remodeling
YLL055W	1.53716	HAP4	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
YDR277C	1.52804	HAP4	YDR277C|MTH1|S000002685|Negative regulator of the glucose-sensing signal transduction pathway, required for repression of transcription by Rgt1p; interacts with Rgt1p and the Snf3p and Rgt2p glucose sensors; phosphorylated by Yck1p, triggering Mth1p degradation
YER187W	1.51419	HAP4	YER187W||S000000989|Putative protein of unknown function; induced in respiratory-deficient cells
YDL115C	1.50873	HAP4	YDL115C|IWR1|S000002273|Protein of unknown function, deletion causes hypersensitivity to the K1 killer toxin
YER097W	1.50833	HAP4	YER097W||S000000899|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL084C	1.50732	HAP4	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
YGR289C	1.50093	HAP4	YGR289C|MAL11|S000003521|Inducible high-affinity maltose transporter (alpha-glucoside transporter); encoded in the MAL1 complex locus; member of the 12 transmembrane domain superfamily of sugar transporters; broad substrate specificity that includes maltotriose
YIL058W	1.48688	HAP4	YIL058W||S000001320|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YMR271C	1.48289	HAP4	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
YDL004W	1.46718	HAP4	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
YFR045W	1.45902	HAP4	YFR045W||S000001941|Putative mitochondrial transport protein; null mutant is viable, exhibits decreased levels of chitin and normal resistance to calcofluor white
YHR180W	1.45744	HAP4	YHR180W||S000001223|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR381W	1.44016	HAP4	YOR381W|FRE3|S000005908|Ferric reductase, reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
YDL170W	1.42114	HAP4	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
YOL047C	1.41871	HAP4	YOL047C||S000005407|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YGR039W	1.41796	HAP4	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
YJR039W	1.41751	HAP4	YJR039W||S000003800|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDR542W	1.41396	HAP4	YDR542W|PAU10|S000002950|Hypothetical protein
YLL041C	1.40135	HAP4	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
YDR528W	1.40026	HAP4	YDR528W|HLR1|S000002936|Protein involved in regulation of cell wall composition and integrity and response to osmotic stress; overproduction suppresses a lysis sensitive PKC mutation; similar to Lre1p, which functions antagonistically to protein kinase A
YFR047C	1.39562	HAP4	YFR047C|BNA6|S000001943|Quinolinate phosphoribosyl transferase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
YPL109C	1.38847	HAP4	YPL109C||S000006030|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YNL095C	1.38014	HAP4	YNL095C||S000005039|Putative protein of unknown function predicted to contain a transmembrane domain; YNL095C is not an essential gene
YMR013C	1.37218	HAP4	YMR013C|SEC59|S000004615|Dolichol kinase, catalyzes the terminal step in dolichyl monophosphate (Dol-P) biosynthesis; required for viability and for normal rates of lipid intermediate synthesis and protein N-glycosylation
YHL046W-A	1.34936	HAP4	YHL046W-A||S000028775|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGL117W	1.34578	HAP4	YGL117W||S000003085|Putative protein of unknown function
YKL217W	1.32898	HAP4	YKL217W|JEN1|S000001700|Lactate transporter, required for uptake of lactate and pyruvate; phosphorylated; expression is derepressed by transcriptional activator Cat8p during respiratory growth, and repressed in the presence of glucose, fructose, and mannose
YPL257W	1.32813	HAP4	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
YOL119C	1.32569	HAP4	YOL119C|MCH4|S000005479|Protein with similarity to mammalian monocarboxylate permeases, which are involved in transport of monocarboxylic acids across the plasma membrane; mutant is not deficient in monocarboxylate transport
YGR225W	1.32206	HAP4	YGR225W|AMA1|S000003457|Activator of meiotic anaphase promoting complex (APC/C); Cdc20p family member; required for initiation of spore wall assembly; required for Clb1p degradation during meiosis
YMR018W	1.31079	HAP4	YMR018W||S000004620|Putative protein of unknown function with similarity to human PEX5Rp (peroxin protein 5 related protein); transcription increases during colony development similar to genes involved in peroxisome biogenesis; YMR018W is not an essential gene
YGR290W	1.30754	HAP4	YGR290W||S000003522|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; putative HLH protein; partially overlaps the verified ORF MAL11/YGR289C (a high-affinity maltose transporter)
YDL174C	1.30353	HAP4	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
YMR141C	1.30066	HAP4	YMR141C||S000004749|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDR381C-A	1.2901	HAP4	YDR381C-A||S000007650|Protein of unknown function, localized to the mitochondrial outer membrane
YKL044W	1.27671	HAP4	YKL044W||S000001527|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YMR316C-B	1.26562	HAP4	YMR316C-B||S000004934|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJL045W	1.25687	HAP4	YJL045W||S000003581|Minor succinate dehydrogenase isozyme; homologous to Sdh1p, the major isozyme reponsible for the oxidation of succinate and transfer of electrons to ubiquinone; induced during the diauxic shift in a Cat8p-dependent manner
YNR057C	1.25201	HAP4	YNR057C|BIO4|S000005340|Dethiobiotin synthetase, catalyzes the third step in the biotin biosynthesis pathway; BIO4 is in a cluster of 3 genes (BIO3, BIO4, and BIO5) that mediate biotin synthesis; expression appears to be repressed at low iron levels
YNL037C	1.25074	HAP4	YNL037C|IDH1|S000004982|Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle
YBR291C	1.23566	HAP4	YBR291C|CTP1|S000000495|Mitochondrial inner membrane citrate transporter, member of the mitochondrial carrier family
YPL216W	1.23362	HAP4	YPL216W||S000006137|Putative protein of unknown function; YPL216W is not an essential gene
YFL034W	1.23161	HAP4	YFL034W||S000001860|Putative integral membrane protein that interacts with Rpp0p, which is a component of the ribosomal stalk
YHL037C	1.22769	HAP4	YHL037C||S000001029|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHL047C	1.22753	HAP4	YHL047C|ARN2|S000001039|Transporter, member of the ARN family of transporters that specifically recognize siderophore-iron chelates; responsible for uptake of iron bound to the siderophore triacetylfusarinine C
YEL059C-A	1.21424	HAP4	YEL059C-A|SOM1|S000002954|Subunit of the mitochondrial inner membrane peptidase, which is required for maturation of mitochondrial proteins of the intermembrane space; Som1p facilitates cleavage of a subset of substrates
YDR032C	1.21377	HAP4	YDR032C|PST2|S000002439|Protein with similarity to members of a family of flavodoxin-like proteins; induced by oxidative stress in a Yap1p dependent manner; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YGR149W	1.21022	HAP4	YGR149W||S000003381|Putative protein of unknown function; predicted to be an integal membrane protein
YPR193C	1.20827	HAP4	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
YJL174W	1.20496	HAP4	YJL174W|KRE9|S000003710|Glycoprotein involved in cell wall beta-glucan assembly; null mutation leads to severe growth defects, aberrant multibudded morphology, and mating defects
YLR121C	1.20411	HAP4	YLR121C|YPS3|S000004111|Aspartic protease, attached to the plasma membrane via a glycosylphosphatidylinositol (GPI) anchor
YKL105C	1.18834	HAP4	YKL105C||S000001588|Putative protein of unknown function
YOR374W	1.187	HAP4	YOR374W|ALD4|S000005901|Mitochondrial aldehyde dehydrogenase, required for growth on ethanol and conversion of acetaldehyde to acetate; phosphorylated; activity is K+ dependent; utilizes NADP+ or NAD+ equally as coenzymes; expression is glucose repressed
YFR040W	1.18612	HAP4	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
YGR045C	1.18502	HAP4	YGR045C||S000003277|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YEL070W	1.18479	HAP4	YEL070W|DSF1|S000000796|Deletion suppressor of mpt5 mutation
YBR056W-A	1.17258	HAP4	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
YDL194W	1.1663	HAP4	YDL194W|SNF3|S000002353|Plasma membrane glucose sensor that regulates glucose transport; has 12 predicted transmembrane segments; long cytoplasmic C-terminal tail is required for low glucose induction of hexose transporter genes HXT2 and HXT4
YIR030C	1.1584	HAP4	YIR030C|DCG1|S000001469|Protein of unknown function, expression is sensitive to nitrogen catabolite repression and regulated by Dal80p; contains transmembrane domain
YBR008C	1.14831	HAP4	YBR008C|FLR1|S000000212|Plasma membrane multidrug transporter of the major facilitator superfamily, involved in efflux of fluconazole, diazaborine, benomyl, methotrexate, and other drugs
YJL161W	1.13782	HAP4	YJL161W|FMP33|S000003697|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR136W	1.13559	HAP4	YOR136W|IDH2|S000005662|Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle; phosphorylated
YMR317W	1.12761	HAP4	YMR317W||S000004936|Putative protein of unknown function with some similarity to sialidase from Trypanosoma; YMR317W is not an essential gene
YGL071W	1.1265	HAP4	YGL071W|AFT1|S000003039|Transcription factor involved in iron utilization and homeostasis; binds the consensus site PyPuCACCCPu and activates the expression of target genes in response to changes in iron availability
YAL066W	1.11543	HAP4	YAL066W||S000000061|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR505C	1.10438	HAP4	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
YCR046C	1.09824	HAP4	YCR046C|IMG1|S000000642|Mitochondrial ribosomal protein of the large subunit, required for respiration and for maintenance of the mitochondrial genome
YNL025C	1.08131	HAP4	YNL025C|SSN8|S000004970|Cyclin-like component of the RNA polymerase II holoenzyme, involved in phosphorylation of the RNA polymerase II C-terminal domain; involved in glucose repression and telomere maintenance
YDL007C-A	1.07921	HAP4	YDL007C-A||S000113557|Putative protein of unknown function
YDR281C	1.06072	HAP4	YDR281C|PHM6|S000002689|Protein of unknown function, expression is regulated by phosphate levels
YIL083C	1.05927	HAP4	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
YDL238C	1.05901	HAP4	YDL238C|GUD1|S000002397|Guanine deaminase, a catabolic enzyme of the guanine salvage pathway producing xanthine and ammonia from guanine; activity is low in exponentially-growing cultures but expression is increased in post-diauxic and stationary-phase cultures
YGL166W	1.05806	HAP4	YGL166W|CUP2|S000003134|Copper-binding transcription factor; activates transcription of the metallothionein genes CUP1-1 and CUP1-2 in response to elevated copper concentrations
YGR292W	1.05655	HAP4	YGR292W|MAL12|S000003524|Maltase (alpha-D-glucosidase), inducible protein involved in maltose catabolism; encoded in the MAL1 complex locus
YPL184C	1.05611	HAP4	YPL184C|MRN1|S000006105|Putative RNA binding protein
YGL205W	1.05036	HAP4	YGL205W|POX1|S000003173|Fatty-acyl coenzyme A oxidase, involved in the fatty acid beta-oxidation pathway; localized to the peroxisomal matrix
YGR269W	1.05014	HAP4	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
YOL055C	1.04571	HAP4	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
YDR247W	1.0404	HAP4	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
YLR004C	1.03844	HAP4	YLR004C|THI73|S000003994|Putative plasma membrane permease proposed to be involved in carboxylic acid uptake and repressed by thiamine; substrate of Dbf2p/Mob1p kinase; transcription is altered if mitochondrial dysfunction occurs
YCL068C	1.03691	HAP4	YCL068C||S000000573|Putative protein of unknown function
YOR171C	1.02812	HAP4	YOR171C|LCB4|S000005697|Sphingoid long-chain base kinase, responsible for synthesis of long-chain base phosphates, which function as signaling molecules, regulates synthesis of ceramide from exogenous long-chain bases, localizes to the Golgi and late endosomes
YER186C	1.02499	HAP4	YER186C||S000000988|Putative protein of unknown function
YDR092W	1.02377	HAP4	YDR092W|UBC13|S000002499|Ubiquitin-conjugating enzyme involved in the error-free DNA postreplication repair pathway; interacts with Mms2p to assemble ubiquitin chains at the Ub Lys-63 residue; DNA damage triggers redistribution from the cytoplasm to the nucleus
YHL024W	1.02307	HAP4	YHL024W|RIM4|S000001016|Putative RNA-binding protein required for the expression of early and middle sporulation genes
YGL204C	1.02286	HAP4	YGL204C||S000003172|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YKL004W	1.01668	HAP4	YKL004W|AUR1|S000001487|Phosphatidylinositol:ceramide phosphoinositol transferase (IPC synthase), required for sphingolipid synthesis; can mutate to confer aureobasidin A resistance
YPR083W	1.01087	HAP4	YPR083W|MDM36|S000006287|Protein required for normal mitochondrial morphology and inheritance
YLR218C	1.00913	HAP4	YLR218C||S000004208|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR218C is not essential; mutants exhibit glycogen storage defects and growth defects on a non-fermentable carbon source
YDR286C	0.998804	HAP4	YDR286C||S000002694|Putative protein of unknown function; predicted to have thiol-disulfide oxidoreductase active site
YPR145W	0.99367	HAP4	YPR145W|ASN1|S000006349|Asparagine synthetase, isozyme of Asn2p; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway
YGR088W	0.987264	HAP4	YGR088W|CTT1|S000003320|Cytosolic catalase T, has a role in protection from oxidative damage by hydrogen peroxide
YOR211C	0.974061	HAP4	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
YPL274W	0.971692	HAP4	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
YOL025W	0.970247	HAP4	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
YPR196W	0.960774	HAP4	YPR196W||S000006400|Putative maltose activator
YDR541C	0.956841	HAP4	YDR541C||S000002949|Putative dihydrokaempferol 4-reductase
YOR213C	0.953258	HAP4	YOR213C|SAS5|S000005739|Subunit of the SAS complex (Sas2p, Sas4p, Sas5p), which acetylates free histones and nucleosomes and regulates transcriptional silencing; stimulates Sas2p HAT activity
YBR185C	0.941871	HAP4	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
YLR248W	0.940407	HAP4	YLR248W|RCK2|S000004238|Protein kinase involved in the response to oxidative and osmotic stress; identified as suppressor of S. pombe cell cycle checkpoint mutations
YLR259C	0.929204	HAP4	YLR259C|HSP60|S000004249|Tetradecameric mitochondrial chaperonin required for ATP-dependent folding of precursor polypeptides and complex assembly; prevents aggregation and mediates protein refolding after heat shock; role in mtDNA transmission; phosphorylated
YCL057W	0.912961	HAP4	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
YBR067C	0.90843	HAP4	YBR067C|TIP1|S000000271|Major cell wall mannoprotein with possible lipase activity; transcription is induced by heat- and cold-shock; member of the Srp1p/Tip1p family of serine-alanine-rich proteins
YOL100W	0.907378	HAP4	YOL100W|PKH2|S000005460|Serine/threonine protein kinase involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; redundant with Pkh1p
YOL099C	0.903684	HAP4	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
YPL181W	0.900933	HAP4	YPL181W|CTI6|S000006102|Protein that relieves transcriptional repression by binding to the Cyc8p-Tup1p corepressor and recruiting the SAGA complex to the repressed promoter; contains a PHD finger domain
YGL089C	0.900265	HAP4	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
YOR227W	0.896536	HAP4	YOR227W||S000005753|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YJL079C	0.89069	HAP4	YJL079C|PRY1|S000003615|Protein of unknown function, has similarity to Pry2p and Pry3p and to the plant PR-1 class of pathogen related proteins
YBR006W	0.887832	HAP4	YBR006W|UGA2|S000000210|Succinate semialdehyde dehydrogenase involved in the utilization of gamma-aminobutyrate (GABA) as a nitrogen source; part of the 4-aminobutyrate and glutamate degradation pathways; localized to the cytoplasm
YOR135C	0.885977	HAP4	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
YDR537C	0.881302	HAP4	YDR537C||S000002945|Dubious open reading frame unlikely to encode a protein, almost completely overlaps verified ORF PAD1/YDR538W
YCL025C	0.867977	HAP4	YCL025C|AGP1|S000000530|Low-affinity amino acid permease with broad substrate range, involved in uptake of asparagine, glutamine, and other amino acids; expression is regulated by the SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p)
YKL043W	0.866631	HAP4	YKL043W|PHD1|S000001526|Transcriptional activator that enhances pseudohyphal growth; regulates expression of FLO11, an adhesin required for pseudohyphal filament formation; similar to StuA, an A. nidulans developmental regulator; potential Cdc28p substrate
YDL013W	0.864981	HAP4	YDL013W|SLX5|S000002171|Subunit of the Slx5-Slx8 substrate-specific ubiquitin ligase complex; stimulated by prior attachment of SUMO to the substrate
YER075C	0.858297	HAP4	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
YLR252W	0.85671	HAP4	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
YDR403W	0.85307	HAP4	YDR403W|DIT1|S000002811|Sporulation-specific enzyme required for spore wall maturation, involved in the production of a soluble LL-dityrosine-containing precursor of the spore wall; transcripts accumulate at the time of prospore enclosure
YKL005C	0.847709	HAP4	YKL005C|BYE1|S000001488|Negative regulator of transcription elongation, contains a TFIIS-like domain and a PHD finger, multicopy suppressor of temperature-sensitive ess1 mutations, probably binds RNA polymerase II large subunit
YOR017W	0.844348	HAP4	YOR017W|PET127|S000005543|Protein with a role in 5'-end processing of mitochondrial RNAs, located in the mitochondrial membrane
YIL065C	0.841091	HAP4	YIL065C|FIS1|S000001327|Mitochondrial outer membrane protein involved in membrane fission, required for localization of Dnm1p and Mdv1p during mitochondrial division; mediates ethanol-induced apoptosis and ethanol-induced mitochondrial fragmentation
YOR072W	0.839278	HAP4	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
YDR476C	0.834647	HAP4	YDR476C||S000002884|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the endoplasmic reticulum; YDR476C is not an essential gene
YPR098C	0.831978	HAP4	YPR098C||S000006302|Protein of unknown function, localized to the mitochondrial outer membrane
YER145C	0.828518	HAP4	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
YNL181W	0.828113	HAP4	YNL181W||S000005125|Putative oxidoreductase; required for cell viability
YMR311C	0.825343	HAP4	YMR311C|GLC8|S000004928|Regulatory subunit of protein phosphatase 1 (Glc7p), involved in glycogen metabolism and chromosome segregation; proposed to regulate Glc7p activity via conformational alteration; ortholog of the mammalian protein phosphatase inhibitor 2
YPL234C	0.822183	HAP4	YPL234C|TFP3|S000006155|Vacuolar ATPase V0 domain subunit c', involved in proton transport activity; hydrophobic integral membrane protein (proteolipid) containing four transmembrane segments; N and C termini are in the vacuolar lumen
YPL182C	0.820365	HAP4	YPL182C||S000006103|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene CTI6/YPL181W
YOL089C	0.819206	HAP4	YOL089C|HAL9|S000005449|Putative transcription factor containing a zinc finger; overexpression increases salt tolerance through increased expression of the ENA1 (Na+/Li+ extrusion pump) gene while gene disruption decreases both salt tolerance and ENA1 expression
YDR437W	0.8124	HAP4	YDR437W|GPI19|S000002845|Subunit of GPI-GlcNAc transferase involved in synthesis of N-acetylglucosaminyl phosphatidylinositol (GlcNAc-PI), which is the first intermediate in glycosylphosphatidylinositol (GPI) anchor synthesis, shares similarity with mammalian PIG-P
YMR287C	0.801031	HAP4	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
YGR042W	0.798955	HAP4	YGR042W||S000003274|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
YAL067W-A	0.79822	HAP4	YAL067W-A||S000028593|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YGR213C	0.79441	HAP4	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
YGR072W	0.792632	HAP4	YGR072W|UPF3|S000003304|Component of the nonsense-mediated mRNA decay (NMD) pathway, along with Nam7p and Nmd2p; involved in decay of mRNA containing nonsense codons; involved in telomere maintenance
YDR223W	0.781993	HAP4	YDR223W|CRF1|S000002631|Transcriptional corepressor involved in the regulation of ribosomal protein gene transcription via the TOR signaling pathway and protein kinase A, phosphorylated by activated Yak1p which promotes accumulation of Crf1p in the nucleus
YBR109W-A	0.779719	HAP4	YBR109W-A||S000028737|Putative protein of unknown function; questionable ORF from MIPS
YKL010C	0.778579	HAP4	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
YEL069C	0.77831	HAP4	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
YCL038C	0.769345	HAP4	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
YGR258C	0.769022	HAP4	YGR258C|RAD2|S000003490|Single-stranded DNA endonuclease, cleaves single-stranded DNA during nucleotide excision repair to excise damaged DNA; subunit of Nucleotide Excision Repair Factor 3 (NEF3); homolog of human XPG protein
YBL020W	0.765844	HAP4	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
YOR328W	0.765056	HAP4	YOR328W|PDR10|S000005855|ATP-binding cassette (ABC) transporter, multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p
YGL249W	0.764223	HAP4	YGL249W|ZIP2|S000003218|Meiosis-specific protein involved in normal synaptonemal complex formation and pairing between homologous chromosomes during meiosis
YKL104C	0.763603	HAP4	YKL104C|GFA1|S000001587|Glutamine-fructose-6-phosphate amidotransferase, catalyzes the formation of glucosamine-6-P and glutamate from fructose-6-P and glutamine in the first step of chitin biosynthesis
YDL106C	0.763515	HAP4	YDL106C|PHO2|S000002264|Homeobox transcription factor; regulatory targets include genes involved in phosphate metabolism; binds cooperatively with Pho4p to the PHO5 promoter; phosphorylation of Pho2p facilitates interaction with Pho4p
YKL203C	0.745696	HAP4	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
YJL210W	0.737228	HAP4	YJL210W|PEX2|S000003746|RING-finger peroxin, peroxisomal membrane protein with a C-terminal zinc-binding RING domain, forms translocation subcomplex with Pex10p and Pex12p which functions in peroxisomal matrix protein import
YOR316C	0.726844	HAP4	YOR316C|COT1|S000005843|Vacuolar transporter that mediates zinc transport into the vacuole; overexpression confers resistance to cobalt and rhodium
YGR182C	0.725395	HAP4	YGR182C||S000003414|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF TIM13/YGR181W
YHR048W	0.724447	HAP4	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
YOR071C	0.723188	HAP4	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
YOR173W	0.720066	HAP4	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.
YHR146W	0.719359	HAP4	YHR146W|CRP1|S000001189|Protein that binds to cruciform DNA structures
YPL013C	0.716846	HAP4	YPL013C|MRPS16|S000005934|Mitochondrial ribosomal protein of the small subunit
YDR453C	0.711786	HAP4	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
YER163C	0.700976	HAP4	YER163C||S000000965|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YIL068W-A	0.699227	HAP4	YIL068W-A||S000028792|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YGR008C	0.69811	HAP4	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
YER067W	0.694982	HAP4	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
YOL050C	0.688552	HAP4	YOL050C||S000005410|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps verified gene GAL11; deletion confers sensitivity to 4-(N-(S-glutathionylacetyl)amino) phenylarsenoxide (GSAO)
YPL214C	0.683967	HAP4	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
YPL060W	0.682719	HAP4	YPL060W|LPE10|S000005981|Mitochondrial inner membrane magnesium transporter, involved in maintenance of magnesium concentrations inside mitochondria; indirectly affects splicing of group II introns; functionally and structurally related to Mrs2p
YOR072W-A	0.6774	HAP4	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
YGL052W	0.675511	HAP4	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
YKL058W	0.67215	HAP4	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
YMR297W	0.664224	HAP4	YMR297W|PRC1|S000004912|Vacuolar carboxypeptidase Y (proteinase C), broad-specificity C-terminal exopeptidase involved in non-specific protein degradation in the vacuole; member of the serine carboxypeptidase family
YJR036C	0.660696	HAP4	YJR036C|HUL4|S000003797|Protein with similarity to hect domain E3 ubiquitin-protein ligases, not essential for viability
YIR027C	0.660382	HAP4	YIR027C|DAL1|S000001466|Allantoinase, converts allantoin to allantoate in the first step of allantoin degradation; expression sensitive to nitrogen catabolite repression
YNL104C	0.660285	HAP4	YNL104C|LEU4|S000005048|Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the first step in the leucine biosynthesis pathway
YPL034W	0.65877	HAP4	YPL034W||S000005955|Putative protein of unknown function; YPL034W is not essential gene
YMR014W	0.651046	HAP4	YMR014W|BUD22|S000004616|Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
YOL009C	0.650467	HAP4	YOL009C|MDM12|S000005369|Mitochondrial outer membrane protein, required for transmission of mitochondria to daughter cells; component of the Mdm10-Mdm12-Mmm1 complex involved in import and assembly of outer membrane beta-barrel proteins
YJL112W	0.650119	HAP4	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
YPR124W	0.645953	HAP4	YPR124W|CTR1|S000006328|High-affinity copper transporter of the plasma membrane, mediates nearly all copper uptake under low copper conditions; transcriptionally induced at low copper levels and degraded at high copper levels
YOR172W	0.639374	HAP4	YOR172W|YRM1|S000005698|Zn2-Cys6 zinc-finger transcription factor that activates genes involved in multidrug resistance; paralog of Yrr1p, acting on an overlapping set of target genes
YLR392C	0.635745	HAP4	YLR392C||S000004384|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR392C is not an essential gene
YMR151W	0.630877	HAP4	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
YOR010C	0.626971	HAP4	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
YDL138W	0.625918	HAP4	YDL138W|RGT2|S000002297|Plasma membrane glucose receptor, highly similar to Snf3p; both Rgt2p and Snf3p serve as transmembrane glucose sensors generating an intracellular signal that induces expression of glucose transporter (HXT) genes
YPR082C	0.625084	HAP4	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
YER093C	0.619435	HAP4	YER093C|TSC11|S000000895|Subunit of TORC2 (Tor2p-Lst8p-Avo1-Avo2-Tsc11p-Bit61p), a membrane-associated complex that regulates actin cytoskeletal dynamics during polarized growth and cell wall integrity; involved in sphingolipid metabolism; contains a RasGEFN domain
YKL059C	0.6168	HAP4	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
YOR246C	0.615216	HAP4	YOR246C||S000005772|Protein with similarity to oxidoreductases, found in lipid particles; required for replication of Brome mosaic virus in S. cerevisiae, which is a model system for studying replication of positive-strand RNA viruses in their natural hosts
YPR123C	0.612426	HAP4	YPR123C||S000006327|Hypothetical protein
YGR221C	0.61022	HAP4	YGR221C|TOS2|S000003453|Protein involved in localization of Cdc24p to the site of bud growth; may act as a membrane anchor; localizes to the bud neck and bud tip; potentially phosphorylated by Cdc28p
YLR366W	0.601036	HAP4	YLR366W||S000004358|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the dubious ORF YLR364C-A
YLR001C	0.600346	HAP4	YLR001C||S000003991|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YLR001C is not an essential gene
YOL001W	0.599828	HAP4	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
YHR080C	0.599044	HAP4	YHR080C||S000001122|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR016C	0.597436	HAP4	YOR016C|ERP4|S000005542|Protein with similarity to Emp24p and Erv25p, member of the p24 family involved in ER to Golgi transport
YKR067W	0.597242	HAP4	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
YKL176C	0.590816	HAP4	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
YOL117W	0.580918	HAP4	YOL117W|RRI2|S000005477|Subunit of the COP9 signalosome (CSN) complex that cleaves the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; plays a role in the mating pheromone response
YDL105W	0.578057	HAP4	YDL105W|NSE4|S000002263|Nuclear protein that plays a role in the function of the Smc5p-Rhc18p complex
YMR101C	0.57211	HAP4	YMR101C|SRT1|S000004707|Cis-prenyltransferase involved in synthesis of long-chain dolichols (19-22 isoprene units; as opposed to Rer2p which synthesizes shorter-chain dolichols); localizes to lipid bodies; transcription is induced during stationary phase
YJR159W	0.570183	HAP4	YJR159W|SOR1|S000003920|Sorbitol dehydrogenase; expression is induced in the presence of sorbitol
YAL020C	0.568559	HAP4	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
YHR050W-A	0.557885	HAP4	YHR050W-A||S000028832|Protein of unknown function; identified by expression profiling and mass spectrometry
YPR155C	0.557181	HAP4	YPR155C|NCA2|S000006359|Protein involved in regulation of mitochondrial expression of subunits 6 (Atp6p) and 8 (Atp8p) of the Fo-F1 ATP synthase; functions with Nca3p
YLR228C	0.552317	HAP4	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
YJR160C	0.551407	HAP4	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
YAR069C	0.549534	HAP4	YAR069C||S000000092|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR186W	0.545208	HAP4	YOR186W||S000005712|Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent
YML129C	0.543664	HAP4	YML129C|COX14|S000004598|Mitochondrial membrane protein, involved in translational regulation of Cox1p and assembly of cytochrome c oxidase (complex IV); associates with complex IV assembly intermediates and complex III/complex IV supercomplexes
YIL154C	0.543268	HAP4	YIL154C|IMP2'|S000001416|Transcriptional activator involved in maintenance of ion homeostasis and protection against DNA damage caused by bleomycin and other oxidants, contains a C-terminal leucine-rich repeat
YNL319W	0.542678	HAP4	YNL319W||S000005263|Dubious open reading frame unlikely to encode a protein; partially overlaps the verified gene HXT14
YAR070C	0.54142	HAP4	YAR070C||S000000093|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGL136C	0.538907	HAP4	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
YER142C	0.526466	HAP4	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
YAR027W	0.521129	HAP4	YAR027W|UIP3|S000000075|Putative integral membrane protein of unknown function; interacts with Ulp1p at the nuclear periphery; member of DUP240 gene family
YNL288W	0.519208	HAP4	YNL288W|CAF40|S000005232|Evolutionarily conserved subunit of the CCR4-NOT complex involved in controlling mRNA initiation, elongation and degradation; binds Cdc39p
YBR035C	0.519111	HAP4	YBR035C|PDX3|S000000239|Pyridoxine (pyridoxamine) phosphate oxidase, has homologs in E. coli and Myxococcus xanthus; transcription is under the general control of nitrogen metabolism
YDL237W	0.518284	HAP4	YDL237W|LRC1|S000002396|Putative protein of unknown function; YDL237W is not an essential gene; null mutant displays decreased frequency of mitochondrial genome loss (petite formation) and severe growth defect in minimal glycerol media
YKL054C	0.518162	HAP4	YKL054C|DEF1|S000001537|RNAPII degradation factor, forms a complex with Rad26p in chromatin, enables ubiquitination and proteolysis of RNAPII present in an elongation complex; mutant is deficient in Zip1p loading onto chromosomes during meiosis
YLR347C	0.51649	HAP4	YLR347C|KAP95|S000004339|Karyopherin beta, forms a dimeric complex with Srp1p (Kap60p) that mediates nuclear import of cargo proteins via a nuclear localization signal (NLS), interacts with nucleoporins to guide transport across the nuclear pore complex
YAL019W-A	0.514636	HAP4	YAL019W-A||S000028729|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YMR089C	0.513849	HAP4	YMR089C|YTA12|S000004695|Component, with Afg3p, of the mitochondrial inner membrane m-AAA protease that mediates degradation of misfolded or unassembled proteins and is also required for correct assembly of mitochondrial enzyme complexes
YNL285W	0.509558	HAP4	YNL285W||S000005229|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJR107W	0.508721	HAP4	YJR107W||S000003868|Putative protein of unknown function; has sequence or structural similarity to lipases
YIL082W	0.503997	HAP4	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
YPR116W	0.502018	HAP4	YPR116W||S000006320|Putative protein of unknown function
YOL026C	0.501768	HAP4	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
YJR152W	0.495099	HAP4	YJR152W|DAL5|S000003913|Allantoin permease; ureidosuccinate permease; expression is constitutive but sensitive to nitrogen catabolite repression
YNL250W	0.48274	HAP4	YNL250W|RAD50|S000005194|Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining
YMR188C	0.481813	HAP4	YMR188C|MRPS17|S000004800|Mitochondrial ribosomal protein of the small subunit
YKR066C	0.480209	HAP4	YKR066C|CCP1|S000001774|Mitochondrial cytochrome-c peroxidase; degrades reactive oxygen species in mitochondria, involved in the response to oxidative stress
YHR171W	0.478807	HAP4	YHR171W|ATG7|S000001214|Autophagy-related protein and dual specificity member of the E1 family of ubiquitin-activating enzymes; mediates the conjugation of Atg12p with Atg5p and Atg8p with phosphatidylethanolamine, required steps in autophagosome formation
YOR200W	0.477241	HAP4	YOR200W||S000005726|Hypothetical protein
YNL254C	0.477023	HAP4	YNL254C|RTC4|S000005198|Hypothetical protein; null mutation suppresses cdc13-1 temperature sensitivity
YIL090W	0.475923	HAP4	YIL090W|ICE2|S000001352|Integral ER membrane protein with type-III transmembrane domains; mutations cause defects in cortical ER morphology in both the mother and daughter cells
YCR026C	0.475676	HAP4	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
YMR189W	0.47331	HAP4	YMR189W|GCV2|S000004801|P subunit of the mitochondrial glycine decarboxylase complex, required for the catabolism of glycine to 5,10-methylene-THF; expression is regulated by levels of 5,10-methylene-THF in the cytoplasm
YOR336W	0.472951	HAP4	YOR336W|KRE5|S000005863|Protein required for beta-1,6 glucan biosynthesis; mutations result in aberrant morphology and severe growth defects
YGL217C	0.470408	HAP4	YGL217C||S000003185|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF KIP3/YGL216W
YAR068W	0.466459	HAP4	YAR068W||S000000091|Fungal-specific protein of unknown function; induced in respiratory-deficient cells
YPL059W	0.465213	HAP4	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
YHR002W	0.463827	HAP4	YHR002W|LEU5|S000001044|Mitochondrial carrier protein involved in the accumulation of CoA in the mitochondrial matrix; homolog of human Graves disease protein; does not encode an isozyme of Leu4p, as first hypothesized
YPR009W	0.463713	HAP4	YPR009W|SUT2|S000006213|Putative transcription factor; multicopy suppressor of mutations that cause low activity of the cAMP/protein kinase A pathway; highly similar to Sut1p
YHR130C	0.461894	HAP4	YHR130C||S000001172|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOR095C	0.460929	HAP4	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
YOR322C	0.459814	HAP4	YOR322C|LDB19|S000005849|Protein of unknown function involved in maintenance of proper telomere length; null mutant shows a reduced affinity for the alcian blue dye suggesting a decreased net negative charge of the cell surface
YBL093C	0.453305	HAP4	YBL093C|ROX3|S000000189|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme
YKL098W	0.4458	HAP4	YKL098W|MTC2|S000001581|Putative protein of unknown function; YKL098W is synthetically sick with cdc13-1
YJL156W-A	0.444407	HAP4	YJL156W-A||S000007613|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGR046W	0.443186	HAP4	YGR046W|TAM41|S000003278|Mitochondrial protein involved in protein import into the mitochondrial matrix; maintains the functional integrity of the TIM23 protein translocator complex; viability of null mutant is strain-dependent; mRNA is targeted to the bud
YPL035C	0.442933	HAP4	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
YJR037W	0.439584	HAP4	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.
YAL056W	0.436392	HAP4	YAL056W|GPB2|S000000052|Multistep regulator of cAMP-PKA signaling; inhibits PKA downstream of Gpa2p and Cyr1p, thereby increasing cAMP dependency; inhibits Ras activity through direct interactions with Ira1p/2p; regulated by G-alpha protein Gpa2p; homolog of Gpb1p
YLR387C	0.428248	HAP4	YLR387C|REH1|S000004379|Protein of unknown function, similar to Rei1p but not involved in bud growth; contains dispersed C2H2 zinc finger domains
YKR018C	0.427185	HAP4	YKR018C||S000001726|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus
YDL246C	0.424548	HAP4	YDL246C|SOR2|S000002405|Protein of unknown function, computational analysis of large-scale protein-protein interaction data suggests a possible role in fructose or mannose metabolism
YGL167C	0.423589	HAP4	YGL167C|PMR1|S000003135|High affinity Ca2+/Mn2+ P-type ATPase required for Ca2+ and Mn2+ transport into Golgi; involved in Ca2+ dependent protein sorting and processing; mutations in human homolog ATP2C1 cause acantholytic skin condition Hailey-Hailey disease
YLR258W	0.419994	HAP4	YLR258W|GSY2|S000004248|Glycogen synthase, similar to Gsy1p; expression induced by glucose limitation, nitrogen starvation, heat shock, and stationary phase; activity regulated by cAMP-dependent, Snf1p and Pho85p kinases as well as by the Gac1p-Glc7p phosphatase
YEL073C	0.410208	HAP4	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
YGR232W	0.406711	HAP4	YGR232W|NAS6|S000003464|Regulatory, non-ATPase subunit of the 26S proteasome; homolog of the human oncoprotein gankyrin, which interacts with the retinoblastoma tumor suppressor (Rb) and cyclin-dependent kinase 4/6
YFL050C	0.405849	HAP4	YFL050C|ALR2|S000001844|Probable Mg(2+) transporter; overexpression confers increased tolerance to Al(3+) and Ga(3+) ions; plays a role in regulating Ty1 transposition
YDL033C	0.405161	HAP4	YDL033C|SLM3|S000002191|tRNA-specific 2-thiouridylase, responsible for 2-thiolation of the wobble base of mitochondrial tRNAs; human ortholog is implicated in myoclonus epilepsy associated with ragged red fibers (MERRF)
YFR016C	0.403737	HAP4	YFR016C||S000001912|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and bud; interacts with Spa2p; YFL016C is not an essential gene
YPL002C	0.402832	HAP4	YPL002C|SNF8|S000005923|Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome; appears to be functionally related to SNF7; involved in glucose derepression
YGR044C	0.402832	HAP4	YGR044C|RME1|S000003276|Zinc finger protein involved in control of meiosis; prevents meiosis by repressing IME1 expression and promotes mitosis by activating CLN2 expression; directly repressed by a1-a2 regulator; mediates cell type control of sporulation
YDL119C	0.401485	HAP4	YDL119C||S000002277|Putative mitochondrial transport protein; GFP-fusion protein is induced in response to the DNA-damaging agent MMS; the authentic, non-tagged protein is detected in purified mitochondria
YDL046W	0.400526	HAP4	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
YKR065C	0.397641	HAP4	YKR065C|PAM17|S000001773|Presequence translocase-associated motor subunit, required for stable complex formation between cochaperones Pam16p and Pam18p, promotes association of Pam16p-Pam18p with the presequence translocase
YER041W	0.396628	HAP4	YER041W|YEN1|S000000843|Protein of unknown function, has similarity to endonuclease Rth1p; potentially phosphorylated by Cdc28p
YGR254W	0.391136	HAP4	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
YDR058C	0.389593	HAP4	YDR058C|TGL2|S000002465|Protein with lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli; role in yeast lipid degradation is unclear
YNR004W	0.381783	HAP4	YNR004W||S000005287|Putative protein of unknown function; haploid disruptant exhibits slow growth rate on glucose-minimal medium at 15 C
YLR365W	0.380792	HAP4	YLR365W||S000004357|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps dubious gene YLR364C-A; YLR365W is not an essential gene
YOL129W	0.380467	HAP4	YOL129W|VPS68|S000005489|Vacuolar membrane protein of unknown function involved in vacuolar protein sorting; also detected in the mitochondria
YPR138C	0.380185	HAP4	YPR138C|MEP3|S000006342|Ammonium permease of high capacity and low affinity; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation ammonia permease
YDR077W	0.378556	HAP4	YDR077W|SED1|S000002484|Major stress-induced structural GPI-cell wall glycoprotein in stationary-phase cells, associates with translating ribosomes, possible role in mitochondrial genome maintenance; ORF contains two distinct variable minisatellites
YBR110W	0.377612	HAP4	YBR110W|ALG1|S000000314|Mannosyltransferase, involved in asparagine-linked glycosylation in the endoplasmic reticulum (ER); essential for viability, mutation is functionally complemented by human ortholog
YLR425W	0.377139	HAP4	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
YNL336W	0.371656	HAP4	YNL336W|COS1|S000005280|Protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YDR006C	0.370068	HAP4	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
YHL042W	0.367932	HAP4	YHL042W||S000001034|Putative protein of unknown function; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YHR009C	0.363903	HAP4	YHR009C||S000001051|Putative protein of unknown function; not an essential gene
YNR063W	0.358998	HAP4	YNR063W||S000005346|Putative zinc-cluster protein of unknown function
YOR292C	0.356749	HAP4	YOR292C||S000005818|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YOR292C is not an essential gene
YCR001W	0.354583	HAP4	YCR001W||S000000594|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YCR001W is not an essential gene
YLR095C	0.352834	HAP4	YLR095C|IOC2|S000004085|Member of a complex (Isw1b) with Isw1p and Ioc4p that exhibits nucleosome-stimulated ATPase activity and acts within coding regions to coordinate transcription elongation with termination and processing, contains a PHD finger motif
YLR193C	0.347987	HAP4	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
YKR050W	0.345514	HAP4	YKR050W|TRK2|S000001758|Component of the Trk1p-Trk2p potassium transport system
YEL060C	0.345005	HAP4	YEL060C|PRB1|S000000786|Vacuolar proteinase B (yscB), a serine protease of the subtilisin family; involved in protein degradation in the vacuole and required for full protein degradation during sporulation
YCL065W	0.341798	HAP4	YCL065W||S000000570|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps HMLALPHA1
YBR209W	0.340444	HAP4	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
YMR292W	0.339102	HAP4	YMR292W|GOT1|S000004906|Evolutionarily conserved non-essential protein present in early Golgi cisternae that may be involved in ER-Golgi transport at a step after vesicle tethering to Golgi membranes, exhibits membrane topology similar to that of Sft2p
YGL216W	0.334519	HAP4	YGL216W|KIP3|S000003184|Kinesin-related motor protein involved in mitotic spindle positioning
YMR312W	0.330942	HAP4	YMR312W|ELP6|S000004929|Subunit of Elongator complex, which is required for modification of wobble nucleosides in tRNA; required for Elongator structural integrity
YDL118W	0.330727	HAP4	YDL118W||S000002276|Non-essential protein of unconfirmed function; mutants are defective in telomere maintenance, and are synthetically sick or lethal with alpha-synuclein
YPR103W	0.325385	HAP4	YPR103W|PRE2|S000006307|Beta 5 subunit of the 20S proteasome, responsible for the chymotryptic activity of the proteasome
YBR060C	0.319355	HAP4	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
YKL132C	0.317805	HAP4	YKL132C|RMA1|S000001615|Putative dihydrofolate synthetase; has similarity to Fol3p and to E. coli folylpolyglutamate synthetase/dihydrofolate synthetase; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YBL029C-A	0.313488	HAP4	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
YBL042C	0.312393	HAP4	YBL042C|FUI1|S000000138|High affinity uridine permease, localized to the plasma membrane; not involved in uracil transport
YBR103W	0.31063	HAP4	YBR103W|SIF2|S000000307|WD40 repeat-containing subunit of the Set3C histone deacetylase complex, which represses early/middle sporulation genes; antagonizes telomeric silencing; binds specifically to the Sir4p N-terminus
YDL049C	0.308768	HAP4	YDL049C|KNH1|S000002207|Protein with similarity to Kre9p, which is involved in cell wall beta 1,6-glucan synthesis; overproduction suppresses growth defects of a kre9 null mutant
YDL032W	0.301089	HAP4	YDL032W||S000002190|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps verified gene SLM3/YDL033C; YDL032W is not an essential gene
YER153C	0.300302	HAP4	YER153C|PET122|S000000955|Mitochondrial translational activator specific for the COX3 mRNA, acts together with Pet54p and Pet494p; located in the mitochondrial inner membrane
YKL170W	0.299392	HAP4	YKL170W|MRPL38|S000001653|Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL34 and YmL38) on two-dimensional SDS gels
YOR068C	0.294269	HAP4	YOR068C|VAM10|S000005594|Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering
YOR141C	0.293776	HAP4	YOR141C|ARP8|S000005667|Nuclear actin-related protein involved in chromatin remodeling, component of chromatin-remodeling enzyme complexes
YKR040C	0.293172	HAP4	YKR040C||S000001748|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF YKR041W
YFR012W	0.292048	HAP4	YFR012W||S000001908|Putative protein of unknown function
YPL233W	0.290765	HAP4	YPL233W|NSL1|S000006154|Essential component of the MIND kinetochore complex (Mtw1p Including Nnf1p-Nsl1p-Dsn1p) which joins kinetochore subunits contacting DNA to those contacting microtubules; required for accurate chromosome segregation
YNL103W	0.28082	HAP4	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
YHR135C	0.274545	HAP4	YHR135C|YCK1|S000001177|Palmitoylated, plasma membrane-bound casein kinase I isoform; shares redundant functions with Yck2p in morphogenesis, proper septin assembly, endocytic trafficking; provides an essential function overlapping with that of Yck2p
YER047C	0.269705	HAP4	YER047C|SAP1|S000000849|Putative ATPase of the AAA family, interacts with the Sin1p transcriptional repressor in the two-hybrid system
YJL084C	0.267858	HAP4	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
YOR070C	0.267617	HAP4	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
YNL156C	0.266627	HAP4	YNL156C|NSG2|S000005100|Protein involved in regulation of sterol biosynthesis; specifically stabilizes Hmg2p, one of two HMG-CoA isoenzymes that catalyze the rate-limiting step in sterol biosynthesis; homolog of mammalian INSIG proteins
YGL051W	0.264917	HAP4	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
YGL033W	0.263943	HAP4	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
YKR077W	0.262227	HAP4	YKR077W|MSA2|S000001785|Putative transcriptional activator, that interacts with G1-specific transcription factor, MBF and G1-specific promoters; ortholog of Msa2p, an MBF and SBF activator that regulates G1-specific transcription and cell cycle initiation
YER180C	0.261572	HAP4	YER180C|ISC10|S000000982|Protein required for sporulation, transcript is induced 7.5 hours after induction of meiosis, expected to play significant role in the formation of reproductive cells
YDL089W	0.261042	HAP4	YDL089W||S000002247|Protein of unknown function; interacts with meiotic division protein Csm1p; green fluorescent protein (GFP)-fusion protein localizes to the nuclear periphery, potential Cdc28p substrate
YER125W	0.260201	HAP4	YER125W|RSP5|S000000927|Ubiquitin-protein ligase involved in ubiquitin-mediated protein degradation; functions in multivesicular body sorting, heat shock response and ubiquitylation of arrested RNAPII; contains a hect (homologous to E6-AP carboxyl terminus) domain
YCL052C	0.254967	HAP4	YCL052C|PBN1|S000000557|Essential component of glycosylphosphatidylinositol-mannosyltransferase I, required for the autocatalytic post-translational processing of the protease B precursor Prb1p, localizes to ER in lumenal orientation; homolog of mammalian PIG-X
YAL016W	0.253259	HAP4	YAL016W|TPD3|S000000014|Regulatory subunit A of the heterotrimeric protein phosphatase 2A, which also contains regulatory subunit Cdc55p and either catalytic subunit Pph21p or Pph22p; required for cell morphogenesis and for transcription by RNA polymerase III
YNL339C	0.252921	HAP4	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
YGR203W	0.252829	HAP4	YGR203W||S000003435|Putative protein with sequence similarity to protein tyrosine phosphatases of the CDC25-like phosphatase family; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
YOR142W	0.251327	HAP4	YOR142W|LSC1|S000005668|Alpha subunit of succinyl-CoA ligase, which is a mitochondrial enzyme of the TCA cycle that catalyzes the nucleotide-dependent conversion of succinyl-CoA to succinate; phosphorylated
YGR009C	0.250662	HAP4	YGR009C|SEC9|S000003241|t-SNARE protein important for fusion of secretory vesicles with the plasma membrane; similar to but not functionally redundant with Spo20p; SNAP-25 homolog
YGR260W	0.247382	HAP4	YGR260W|TNA1|S000003492|High affinity nicotinic acid plasma membrane permease, responsible for uptake of low levels of nicotinic acid; expression of the gene increases in the absence of extracellular nicotinic acid or para-aminobenzoate (PABA)
YJL176C	0.245537	HAP4	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
YPR149W	0.245103	HAP4	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)
YNL177C	0.243767	HAP4	YNL177C|MRPL22|S000005121|Mitochondrial ribosomal protein of the large subunit
YDR402C	0.24302	HAP4	YDR402C|DIT2|S000002810|N-formyltyrosine oxidase, sporulation-specific microsomal enzyme involved in the production of N,N-bisformyl dityrosine required for spore wall maturation, homologous to cytochrome P-450s
YML061C	0.23989	HAP4	YML061C|PIF1|S000004526|DNA helicase involved in telomere formation and elongation; acts as a catalytic inhibitor of telomerase; also plays a role in repair and recombination of mitochondrial DNA
YNL073W	0.239841	HAP4	YNL073W|MSK1|S000005017|Mitochondrial lysine-tRNA synthetase, required for import of both aminoacylated and deacylated forms of tRNA(Lys) into mitochondria
YER095W	0.238266	HAP4	YER095W|RAD51|S000000897|Strand exchange protein, forms a helical filament with DNA that searches for homology; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; homolog of Dmc1p and bacterial RecA protein
YOR117W	0.237624	HAP4	YOR117W|RPT5|S000005643|One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription
YPL107W	0.235804	HAP4	YPL107W||S000006028|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YPL107W is not an essential gene
YER013W	0.235618	HAP4	YER013W|PRP22|S000000815|DEAH-box RNA-dependent ATPase/ATP-dependent RNA helicase, associates with lariat intermediates before the second catalytic step of splicing; mediates ATP-dependent mRNA release from the spliceosome and unwinds RNA duplexes
YCR048W	0.233081	HAP4	YCR048W|ARE1|S000000644|Acyl-CoA:sterol acyltransferase, isozyme of Are2p; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the absence of oxygen
YPR002C-A	0.232662	HAP4	YPR002C-A||S000007254|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the Ty1 long terminal repeat, YPRWdelta12
YJL211C	0.228142	HAP4	YJL211C||S000003747|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YJL210W/PEX2
YDL139C	0.221155	HAP4	YDL139C|SCM3|S000002298|Nonhistone component of centromeric chromatin that binds stoichiometrically to CenH3-H4 histones, required for kinetochore assembly; contains nuclear export signal (NES); required for G2/M progression and localization of Cse4p
YCR018C-A	0.219883	HAP4	YCR018C-A||S000007230|Putative protein of unknown function; encoded opposite a Ty1 LTR
YOR307C	0.21966	HAP4	YOR307C|SLY41|S000005834|Protein involved in ER-to-Golgi transport
YJR059W	0.218417	HAP4	YJR059W|PTK2|S000003820|Putative serine/threonine protein kinase involved in regulation of ion transport across plasma membrane; enhances spermine uptake
YAL037W	0.218387	HAP4	YAL037W||S000000035|Putative protein of unknown function
YBR220C	0.217484	HAP4	YBR220C||S000000424|Putative protein of unknown function; YBR220C is not an essential gene
YDR024W	0.215922	HAP4	YDR024W|FYV1|S000002431|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; mutation decreases survival upon exposure to K1 killer toxin
YNR066C	0.214177	HAP4	YNR066C||S000005349|Putative membrane-localized protein of unknown function
YGR288W	0.204521	HAP4	YGR288W|MAL13|S000003520|MAL-activator protein, part of complex locus MAL1; nonfunctional in genomic reference strain S288C
YLR153C	0.201219	HAP4	YLR153C|ACS2|S000004143|Acetyl-coA synthetase isoform which, along with Acs1p, is the nuclear source of acetyl-coA for histone acetylation; mutants affect global transcription; required for growth on glucose; expressed under anaerobic conditions
YOR344C	0.199957	HAP4	YOR344C|TYE7|S000005871|Serine-rich protein that contains a basic-helix-loop-helix (bHLH) DNA binding motif; binds E-boxes of glycolytic genes and contributes to their activation; may function as a transcriptional activator in Ty1-mediated gene expression
YOR097C	0.193657	HAP4	YOR097C||S000005623|Putative protein of unknown function; identified as interacting with Hsp82p in a high-throughput two-hybrid screen; YOR097C is not an essential gene
YLL025W	0.188502	HAP4	YLL025W|PAU17|S000003948|Putative protein of unknown function; YLL025W is not an essential gene
YOR194C	0.183894	HAP4	YOR194C|TOA1|S000005720|TFIIA large subunit; involved in transcriptional activation, acts as antirepressor or as coactivator; homologous to largest and second largest subunits of human and Drosophila TFIIA
YNL335W	0.180918	HAP4	YNL335W|DDI3|S000005279|Hypothetical protein
YBR208C	0.179244	HAP4	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
YHR185C	0.177118	HAP4	YHR185C|PFS1|S000001228|Sporulation protein required for prospore membrane formation at selected spindle poles, ensures functionality of all four spindle pole bodies during meiosis II; not required for meiotic recombination or meiotic chromosome segregation
YJL175W	0.174888	HAP4	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
YDR136C	0.174494	HAP4	YDR136C|VPS61|S000002543|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 4% of ORF overlaps the verified gene RGP1; deletion causes a vacuolar protein sorting defect
YAL016C-A	0.173743	HAP4	YAL016C-A||S000028728|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YAL051W	0.170606	HAP4	YAL051W|OAF1|S000000048|Oleate-activated transcription factor, acts alone and as a heterodimer with Pip2p; activates genes involved in beta-oxidation of fatty acids and peroxisome organization and biogenesis
YBR262C	0.167817	HAP4	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
YIL153W	0.167433	HAP4	YIL153W|RRD1|S000001415|Peptidyl-prolyl cis/trans-isomerase, activator of the phosphotyrosyl phosphatase activity of PP2A; involved in G1 phase progression, microtubule dynamics, bud morphogenesis and DNA repair; subunit of the Tap42p-Sit4p-Rrd1p complex
YBR219C	0.166778	HAP4	YBR219C||S000000423|Putative protein of unknown function; YBR219C is not an essential gene
YHR161C	0.166702	HAP4	YHR161C|YAP1801|S000001204|Protein involved in clathrin cage assembly; binds Pan1p and clathrin; homologous to Yap1802p, member of the AP180 protein family
YER154W	0.163946	HAP4	YER154W|OXA1|S000000956|Mitochondrial inner membrane insertase, mediates the insertion of both mitochondrial- and nuclear-encoded proteins from the matrix into the inner membrane, interacts with mitochondrial ribosomes; conserved from bacteria to animals
YBR294W	0.16275	HAP4	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
YMR204C	0.159014	HAP4	YMR204C|INP1|S000004817|Peripheral membrane protein of peroxisomes involved in peroxisomal inheritance
YOR199W	0.15679	HAP4	YOR199W||S000005725|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL042W	0.15571	HAP4	YNL042W|BOP3|S000004987|Protein of unknown function, potential Cdc28p substrate; overproduction suppresses a pam1 slv3 double null mutation and confers resistance to methylmercury
YLR114C	0.154118	HAP4	YLR114C|AVL9|S000004104|Conserved protein involved in exocytic transport from the Golgi; mutation is synthetically lethal with apl2 vps1 double mutation; member of a protein superfamily with orthologs in diverse organisms
YER164W	0.151848	HAP4	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
YHR095W	0.15118	HAP4	YHR095W||S000001137|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJR103W	0.151085	HAP4	YJR103W|URA8|S000003864|Minor CTP synthase isozyme (see also URA7), catalyzes the ATP-dependent transfer of the amide nitrogen from glutamine to UTP, forming CTP, the final step in de novo biosynthesis of pyrimidines; involved in phospholipid biosynthesis
YOR116C	0.146578	HAP4	YOR116C|RPO31|S000005642|RNA polymerase III subunit C160, part of core enzyme; similar to bacterial beta-prime subunit
YGR033C	0.146379	HAP4	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
YOR247W	0.145847	HAP4	YOR247W|SRL1|S000005773|Mannoprotein that exhibits a tight association with the cell wall, required for cell wall stability in the absence of GPI-anchored mannoproteins; has a high serine-threonine content; expression is induced in cell wall mutants
YGR010W	0.145469	HAP4	YGR010W|NMA2|S000003242|Nicotinic acid mononucleotide adenylyltransferase, involved in de novo and salvage synthesis of NAD(+)
YLR005W	0.139499	HAP4	YLR005W|SSL1|S000003995|Component of the core form of RNA polymerase transcription factor TFIIH, which has both protein kinase and DNA-dependent ATPase/helicase activities and is essential for transcription and nucleotide excision repair; interacts with Tfb4p
YNL097C	0.139038	HAP4	YNL097C|PHO23|S000005041|Probable component of the Rpd3 histone deacetylase complex, involved in transcriptional regulation of PHO5; C-terminus has similarity to human candidate tumor suppressor p33(ING1)
YOR183W	0.135766	HAP4	YOR183W|FYV12|S000005709|Protein of unknown function, required for survival upon exposure to K1 killer toxin
YNR071C	0.133331	HAP4	YNR071C||S000005354|Putative protein of unknown function
YKL195W	0.133048	HAP4	YKL195W|MIA40|S000001678|Essential protein of the mitochondrial intermembrane space (IMS); promotes retention of newly imported proteins; may do so by stabilizing client protein folding as part of a disulfide relay system or transferring metal to client proteins
YIR028W	0.132149	HAP4	YIR028W|DAL4|S000001467|Allantoin permease; expression sensitive to nitrogen catabolite repression and induced by allophanate, an intermediate in allantoin degradation
YBR186W	0.13003	HAP4	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
YDR293C	0.12705	HAP4	YDR293C|SSD1|S000002701|Protein with a role in maintenance of cellular integrity, interacts with components of the TOR pathway; ssd1 mutant of a clinical S. cerevisiae strain displays elevated virulence
YBR277C	0.125862	HAP4	YBR277C||S000000481|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR278W
YAL016C-B	0.12327	HAP4	YAL016C-B||S000028528|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YBR085C-A	0.123094	HAP4	YBR085C-A||S000007522|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
YGR222W	0.12173	HAP4	YGR222W|PET54|S000003454|Mitochondrial inner membrane protein that binds to the 5' UTR of the COX3 mRNA to activate its translation together with Pet122p and Pet494p; also binds to the COX1 Group I intron AI5 beta to facilitate exon ligation during splicing
YGR109C	0.119947	HAP4	YGR109C|CLB6|S000003341|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
YJL182C	0.116407	HAP4	YJL182C||S000003718|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps uncharacterized ORF YJL181W
YMR278W	0.116011	HAP4	YMR278W|PGM3|S000004891|Phosphoglucomutase, catalyzes interconversion of glucose-1-phosphate and glucose-6-phospate; transcription induced in response to stress; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; non-essential
YLR115W	0.114832	HAP4	YLR115W|CFT2|S000004105|Subunit of the mRNA cleavage and polyadenlylation factor (CPF); required for pre-mRNA cleavage, polyadenylation and poly(A) site recognition, 43% similarity with the mammalian CPSF-100 protein.
YKL094W	0.114351	HAP4	YKL094W|YJU3|S000001577|Serine hydrolase with sequence similarity to monoglyceride lipase (MGL), localizes to lipid particles
YJR129C	0.114041	HAP4	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
YLR430W	0.112821	HAP4	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
YDL227C	0.11259	HAP4	YDL227C|HO|S000002386|Site-specific endonuclease required for gene conversion at the MAT locus (homothallic switching) through the generation of a ds DNA break; expression restricted to mother cells in late G1 as controlled by Swi4p-Swi6p, Swi5p and Ash1p
YOR128C	0.110749	HAP4	YOR128C|ADE2|S000005654|Phosphoribosylaminoimidazole carboxylase, catalyzes a step in the 'de novo' purine nucleotide biosynthetic pathway; red pigment accumulates in mutant cells deprived of adenine
YNL042W-B	0.108204	HAP4	YNL042W-B||S000028850|Putative protein of unknown function
YGR246C	0.107572	HAP4	YGR246C|BRF1|S000003478|TFIIIB B-related factor, one of three subunits of RNA polymerase III transcription initiation factor TFIIIB, binds TFIIIC and TBP and recruits RNA pol III to promoters, amino-terminal half is homologous to TFIIB
YDR029W	0.106569	HAP4	YDR029W||S000002436|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data
YDR294C	0.106404	HAP4	YDR294C|DPL1|S000002702|Dihydrosphingosine phosphate lyase, regulates intracellular levels of sphingolipid long-chain base phosphates (LCBPs), degrades phosphorylated long chain bases, prefers C16 dihydrosphingosine-l-phosphate as a substrate
YKL220C	0.105376	HAP4	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
YNR032W	0.102717	HAP4	YNR032W|PPG1|S000005315|Putative serine/threonine protein phosphatase, required for glycogen accumulation; interacts with Tap42p, which binds to and regulates other protein phosphatases
YMR150C	0.100646	HAP4	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
YDR135C	0.100044	HAP4	YDR135C|YCF1|S000002542|Vacuolar glutathione S-conjugate transporter of the ATP-binding cassette family, has a role in detoxifying metals such as cadmium, mercury, and arsenite; also transports unconjugated bilirubin; similar to human cystic fibrosis protein CFTR
YKR017C	0.0972186	HAP4	YKR017C||S000001725|Putative protein of unknown function; contains a RING finger motif
YJL003W	0.0942413	HAP4	YJL003W|COX16|S000003540|Mitochondrial inner membrane protein, required for assembly of cytochrome c oxidase
YOR075W	0.0918046	HAP4	YOR075W|UFE1|S000005601|t-SNARE required for ER membrane fusion and vesicular traffic, integral membrane protein that constitutes with Sec20p and Use1p the trimeric acceptor for R/v-SNAREs on Golgi-derived vesicles at the ER; part of Dsl1p complex
YHR093W	0.0912851	HAP4	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
YGL150C	0.0899031	HAP4	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
YMR163C	0.0883871	HAP4	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
YLL010C	0.0867737	HAP4	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
YPR022C	0.0861928	HAP4	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
YKL208W	0.0850075	HAP4	YKL208W|CBT1|S000001691|Protein involved in 5' end processing of mitochondrial COB, 15S_rRNA, and RPM1 transcripts; may also have a role in 3' end processing of the COB pre-mRNA; displays genetic interaction with cell cycle-regulated kinase Dbf2p
YGL056C	0.0842909	HAP4	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
YCR049C	0.0813493	HAP4	YCR049C||S000000645|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YPL213W	0.0799105	HAP4	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
YBR102C	0.0772061	HAP4	YBR102C|EXO84|S000000306|Essential protein with dual roles in spliceosome assembly and exocytosis; the exocyst complex (Sec3p, Sec5p, Sec6p, Sec8p, Sec10p, Sec15p, Exo70p, and Exo84p) mediates polarized targeting of secretory vesicles to active sites of exocytosis
YHL010C	0.0757659	HAP4	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
YKR014C	0.0757229	HAP4	YKR014C|YPT52|S000001722|GTPase, similar to Ypt51p and Ypt53p and to mammalian rab5; required for vacuolar protein sorting and endocytosis
YFR011C	0.0721632	HAP4	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
YML070W	0.072088	HAP4	YML070W|DAK1|S000004535|Dihydroxyacetone kinase, required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
YFL049W	0.0718749	HAP4	YFL049W|SWP82|S000001845|Member of the SWI/SNF chromatin remodeling complex in which it plays an as yet unidentified role; has identifiable counterparts in closely related yeast species; abundantly expressed in many growth conditions; paralog of Npl6p
YNL232W	0.0703568	HAP4	YNL232W|CSL4|S000005176|Subunit of the exosome, which is an essential complex present in both nucleus and cytoplasm that mediates RNA processing and degradation
YNL167C	0.069125	HAP4	YNL167C|SKO1|S000005111|Basic leucine zipper (bZIP) transcription factor of the ATF/CREB family, forms a complex with Tup1p and Ssn6p to both activate and repress transcription; cytosolic and nuclear protein involved in osmotic and oxidative stress responses
YIL073C	0.0680114	HAP4	YIL073C|SPO22|S000001335|Meiosis-specific protein essential for chromosome synapsis, involved in completion of nuclear divisions during meiosis; induced early in meiosis
YER133W-A	0.0678366	HAP4	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.
YGL013C	0.0623832	HAP4	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
YJR100C	0.0618517	HAP4	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
YML122C	0.0597045	HAP4	YML122C||S000004591|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YPR100W	0.0594179	HAP4	YPR100W|MRPL51|S000006304|Mitochondrial ribosomal protein of the large subunit
YOR278W	0.0579677	HAP4	YOR278W|HEM4|S000005804|Uroporphyrinogen III synthase, catalyzes the conversion of hydroxymethylbilane to uroporphyrinogen III, the fourth step in the heme biosynthetic pathway
YDL005C	0.0577993	HAP4	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
YOR072W-B	0.057329	HAP4	YOR072W-B||S000028516|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YHR058C	0.0543469	HAP4	YHR058C|MED6|S000001100|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
YER143W	0.0513583	HAP4	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
YLR260W	0.0498172	HAP4	YLR260W|LCB5|S000004250|Minor sphingoid long-chain base kinase, paralog of Lcb4p responsible for few percent of the total activity, possibly involved in synthesis of long-chain base phosphates, which function as signaling molecules
YDR026C	0.0497116	HAP4	YDR026C||S000002433|Protein of unknown function that may interact with ribosomes, based on co-purification experiments; Myb-like DNA-binding protein that may bind to the Ter region of rDNA; interacts physically with Fob1p
YDL025C	0.0465222	HAP4	YDL025C||S000002183|Putative protein kinase, potentially phosphorylated by Cdc28p; YDL025C is not an essential gene
YML099W-A	0.0422242	HAP4	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
YCR097W-A	0.0416081	HAP4	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
YHR178W	0.0392705	HAP4	YHR178W|STB5|S000001221|Activator of multidrug resistance genes, forms a heterodimer with Pdr1p; contains a Zn(II)2Cys6 zinc finger domain that interacts with a PDRE (pleotropic drug resistance element) in vitro; binds Sin3p in a two-hybrid assay
YOR195W	0.0333014	HAP4	YOR195W|SLK19|S000005721|Kinetochore-associated protein required for normal segregation of chromosomes in meiosis and mitosis; component of the FEAR regulatory network, which promotes Cdc14p release from the nucleolus during anaphase; potential Cdc28p substrate
YPL232W	0.0308488	HAP4	YPL232W|SSO1|S000006153|Plasma membrane t-SNARE involved in fusion of secretory vesicles at the plasma membrane and in vesicle fusion during sporulation; forms a complex with Sec9p that binds v-SNARE Snc2p; syntaxin homolog; functionally redundant with Sso2p
YGR231C	0.0283817	HAP4	YGR231C|PHB2|S000003463|Subunit of the prohibitin complex (Phb1p-Phb2p), a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation
YMR316C-A	0.0243772	HAP4	YMR316C-A||S000004933|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; completely overlaps the verified gene DIA1/YMR316W
YNR031C	0.0231948	HAP4	YNR031C|SSK2|S000005314|MAP kinase kinase kinase of the HOG1 mitogen-activated signaling pathway; interacts with Ssk1p, leading to autophosphorylation and activation of Ssk2p which phosphorylates Pbs2p; also mediates actin cytoskeleton recovery from osmotic stress
YNL337W	0.0199335	HAP4	YNL337W||S000005281|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNR014W	0.0193751	HAP4	YNR014W||S000005297|Putative protein of unknown function; expression is cell-cycle regulated, Azf1p-dependent, and heat-inducible
YIR038C	0.0167744	HAP4	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
YJL083W	0.0158012	HAP4	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
YML041C	0.0140835	HAP4	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
YGR259C	0.0108451	HAP4	YGR259C||S000003491|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps almost completely with the verified ORF TNA1/YGR260W
YBL021C	0.00932518	HAP4	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
YHR059W	0.00288103	HAP4	YHR059W|FYV4|S000001101|Protein of unknown function, required for survival upon exposure to K1 killer toxin
YPR072W	0.00180876	HAP4	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
