YPL250C	10.8545	RTG3	YPL250C|ICY2|S000006171|Protein of unknown function; mobilized into polysomes upon a shift from a fermentable to nonfermentable carbon source; potential Cdc28p substrate
YJL133C-A	7.87314	RTG3	YJL133C-A||S000028805|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YHL036W	5.78135	RTG3	YHL036W|MUP3|S000001028|Low affinity methionine permease, similar to Mup1p
YAL054C	4.88363	RTG3	YAL054C|ACS1|S000000050|Acetyl-coA synthetase isoform which, along with Acs2p, is the nuclear source of acetyl-coA for histone acetlyation; expressed during growth on nonfermentable carbon sources and under aerobic conditions
YCL040W	4.65229	RTG3	YCL040W|GLK1|S000000545|Glucokinase, catalyzes the phosphorylation of glucose at C6 in the first irreversible step of glucose metabolism; one of three glucose phosphorylating enzymes; expression regulated by non-fermentable carbon sources
YCL042W	4.44048	RTG3	YCL042W||S000000547|Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
YJR095W	4.16669	RTG3	YJR095W|SFC1|S000003856|Mitochondrial succinate-fumarate transporter, transports succinate into and fumarate out of the mitochondrion; required for ethanol and acetate utilization
YKL016C	4.12759	RTG3	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
YAL062W	3.94275	RTG3	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
YML120C	3.74732	RTG3	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
YNL036W	3.7166	RTG3	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
YOR348C	3.57978	RTG3	YOR348C|PUT4|S000005875|Proline permease, required for high-affinity transport of proline; also transports the toxic proline analog azetidine-2-carboxylate (AzC); PUT4 transcription is repressed in ammonia-grown cells
YJR138W	3.56655	RTG3	YJR138W|IML1|S000003899|Protein of unknown function, green fluorescent protein (GFP)-fusion protein localizes to the vacuolar membrane
YJR146W	3.42867	RTG3	YJR146W||S000003907|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene HMS2
YJR137C	3.32422	RTG3	YJR137C|ECM17|S000003898|Sulfite reductase beta subunit, involved in amino acid biosynthesis, transcription repressed by methionine
YPL024W	3.31171	RTG3	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)
YMR081C	3.24294	RTG3	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
YNL063W	2.9395	RTG3	YNL063W|MTQ1|S000005007|S-adenosylmethionine-dependent methyltransferase; methylates translational release factor Mrf1p; similar to E.coli PrmC; is not an essential gene
YIL107C	2.89604	RTG3	YIL107C|PFK26|S000001369|6-phosphofructo-2-kinase, inhibited by phosphoenolpyruvate and sn-glycerol 3-phosphate, has negligible fructose-2,6-bisphosphatase activity, transcriptional regulation involves protein kinase A
YMR271C	2.76079	RTG3	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
YPL018W	2.70482	RTG3	YPL018W|CTF19|S000005939|Outer kinetochore protein, required for accurate mitotic chromosome segregation; component of the kinetochore sub-complex COMA (Ctf19p, Okp1p, Mcm21p, Ame1p) that functions as a platform for kinetochore assembly
YMR194C-B	2.54706	RTG3	YMR194C-B||S000028514|Putative protein of unknown function
YAR053W	2.53051	RTG3	YAR053W||S000000085|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YJL116C	2.52345	RTG3	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
YMR013C	2.49085	RTG3	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
YPL026C	2.49014	RTG3	YPL026C|SKS1|S000005947|Putative serine/threonine protein kinase; involved in the adaptation to low concentrations of glucose independent of the SNF3 regulated pathway
YHR001W-A	2.37804	RTG3	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
YJR150C	2.3728	RTG3	YJR150C|DAN1|S000003911|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YJL045W	2.34942	RTG3	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
YER091C-A	2.33647	RTG3	YER091C-A||S000007238|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGR065C	2.30845	RTG3	YGR065C|VHT1|S000003297|High-affinity plasma membrane H+-biotin (vitamin H) symporter; mutation results in fatty acid auxotrophy; 12 transmembrane domain containing major facilitator subfamily member; mRNA levels negatively regulated by iron deprivation and biotin
YPR001W	2.29296	RTG3	YPR001W|CIT3|S000006205|Dual specificity mitochondrial citrate and methylcitrate synthase; catalyzes the condensation of acetyl-CoA and oxaloacetate to form citrate and that of propionyl-CoA and oxaloacetate to form 2-methylcitrate
YFL024C	2.26562	RTG3	YFL024C|EPL1|S000001870|Component of NuA4, which is an essential histone H4/H2A acetyltransferase complex; homologous to Drosophila Enhancer of Polycomb
YNL104C	2.24647	RTG3	YNL104C|LEU4|S000005048|Alpha-isopropylmalate synthase (2-isopropylmalate synthase); the main isozyme responsible for the first step in the leucine biosynthesis pathway
YJL166W	2.23193	RTG3	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
YHR033W	2.21821	RTG3	YHR033W||S000001075|Putative protein of unknown function; epitope-tagged protein localizes to the cytoplasm
YOR346W	2.19813	RTG3	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
YOR152C	2.14347	RTG3	YOR152C||S000005678|Putative protein of unknown function; has no similarity to any known protein; YOR152C is not an essential gene
YLR438W	2.09832	RTG3	YLR438W|CAR2|S000004430|L-ornithine transaminase (OTAse), catalyzes the second step of arginine degradation, expression is dually-regulated by allophanate induction and a specific arginine induction process; not nitrogen catabolite repression sensitive
YML081C-A	2.02038	RTG3	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
YLR092W	2.01757	RTG3	YLR092W|SUL2|S000004082|High affinity sulfate permease; sulfate uptake is mediated by specific sulfate transporters Sul1p and Sul2p, which control the concentration of endogenous activated sulfate intermediates
YMR017W	2.0147	RTG3	YMR017W|SPO20|S000004619|Meiosis-specific subunit of the t-SNARE complex, required for prospore membrane formation during sporulation; similar to but not functionally redundant with Sec9p; SNAP-25 homolog
YDR542W	2.00922	RTG3	YDR542W|PAU10|S000002950|Hypothetical protein
YPR036W-A	2.00671	RTG3	YPR036W-A||S000028425|Protein of unknown function; transcription is regulated by Pdr1p
YCL001W-B	1.99064	RTG3	YCL001W-B||S000007596|Putative protein of unknown function; identified by homology
YEL024W	1.97192	RTG3	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
YAR060C	1.96872	RTG3	YAR060C||S000000086|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR149C	1.95987	RTG3	YLR149C||S000004139|Putative protein of unknown function; YLR149C is not an essential gene
YDR055W	1.92146	RTG3	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
YKL085W	1.90785	RTG3	YKL085W|MDH1|S000001568|Mitochondrial malate dehydrogenase, catalyzes interconversion of malate and oxaloacetate; involved in the tricarboxylic acid (TCA) cycle; phosphorylated
YDR530C	1.9059	RTG3	YDR530C|APA2|S000002938|Diadenosine 5',5''-P1,P4-tetraphosphate phosphorylase II (AP4A phosphorylase), involved in catabolism of bis(5'-nucleosidyl) tetraphosphates; has similarity to Apa1p
YNL037C	1.89873	RTG3	YNL037C|IDH1|S000004982|Subunit of mitochondrial NAD(+)-dependent isocitrate dehydrogenase, which catalyzes the oxidation of isocitrate to alpha-ketoglutarate in the TCA cycle
YOR345C	1.87181	RTG3	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
YLR437C-A	1.8624	RTG3	YLR437C-A||S000028684|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF CAR2/YLR438W
YMR306W	1.81483	RTG3	YMR306W|FKS3|S000004923|Protein involved in spore wall assembly, has similarity to 1,3-beta-D-glucan synthase catalytic subunits Fks1p and Gsc2p; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDL067C	1.81248	RTG3	YDL067C|COX9|S000002225|Subunit VIIa of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain
YER065C	1.81154	RTG3	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
YFR049W	1.74091	RTG3	YFR049W|YMR31|S000001945|Mitochondrial ribosomal protein of the small subunit, has similarity to human mitochondrial ribosomal protein MRP-S36
YLR402W	1.71249	RTG3	YLR402W||S000004394|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGL045W	1.70136	RTG3	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
YJR115W	1.70106	RTG3	YJR115W||S000003876|Putative protein of unknown function
YPL189C-A	1.69885	RTG3	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
YDR022C	1.68067	RTG3	YDR022C|CIS1|S000002429|Autophagy-specific protein required for autophagosome formation; may form a complex with Atg17p and Atg29p that localizes other proteins to the pre-autophagosomal structure; high-copy suppressor of CIK1 deletion
YDR169C	1.68028	RTG3	YDR169C|STB3|S000002576|Protein that binds Sin3p in a two-hybrid assay
YBL078C	1.66865	RTG3	YBL078C|ATG8|S000000174|Conserved protein that is a component of autophagosomes and Cvt vesicles; undergoes C-terminal conjugation to phosphatidylethanolamine (PE), Atg8p-PE is anchored to membranes and may mediate membrane fusion during autophagosome formation
YLR403W	1.66531	RTG3	YLR403W|SFP1|S000004395|Transcription factor that controls expression of many ribosome biogenesis genes in response to nutrients and stress, regulates G2/M transitions during mitotic cell cycle and DNA-damage response, involved in cell size modulation
YDR381C-A	1.65654	RTG3	YDR381C-A||S000007650|Protein of unknown function, localized to the mitochondrial outer membrane
YKL217W	1.65319	RTG3	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
YAR050W	1.64089	RTG3	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
YOR328W	1.6403	RTG3	YOR328W|PDR10|S000005855|ATP-binding cassette (ABC) transporter, multidrug transporter involved in the pleiotropic drug resistance network; regulated by Pdr1p and Pdr3p
YLL055W	1.62415	RTG3	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
YCR005C	1.61506	RTG3	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
YFR030W	1.61164	RTG3	YFR030W|MET10|S000001926|Subunit alpha of assimilatory sulfite reductase, which is responsible for the conversion of sulfite into sulfide
YLL056C	1.58956	RTG3	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
YDR504C	1.57596	RTG3	YDR504C|SPG3|S000002912|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
YIL162W	1.56241	RTG3	YIL162W|SUC2|S000001424|Invertase, sucrose hydrolyzing enzyme; a secreted, glycosylated form is regulated by glucose repression, and an intracellular, nonglycosylated enzyme is produced constitutively
YAL061W	1.5442	RTG3	YAL061W|BDH2|S000000057|Putative medium-chain alcohol dehydrogenase with similarity to BDH1; transcription induced by constitutively active PDR1 and PDR3; BDH2 is an essential gene
YMR165C	1.53819	RTG3	YMR165C|PAH1|S000004775|Mg2+-dependent phosphatidate (PA) phosphatase, catalyzes the dephosphorylation of PA to yield diacylglycerol and Pi, responsible for de novo lipid synthesis; homologous to mammalian lipin 1
YOR065W	1.53734	RTG3	YOR065W|CYT1|S000005591|Cytochrome c1, component of the mitochondrial respiratory chain; expression is regulated by the heme-activated, glucose-repressed Hap2p/3p/4p/5p CCAAT-binding complex
YBR296C	1.53141	RTG3	YBR296C|PHO89|S000000500|Na+/Pi cotransporter, active in early growth phase; similar to phosphate transporters of Neurospora crassa; transcription regulated by inorganic phosphate concentrations and Pho4p
YDL085W	1.52778	RTG3	YDL085W|NDE2|S000002243|Mitochondrial external NADH dehydrogenase, catalyzes the oxidation of cytosolic NADH; Nde1p and Nde2p are involved in providing the cytosolic NADH to the mitochondrial respiratory chain
YLR327C	1.51597	RTG3	YLR327C|TMA10|S000004319|Protein of unknown function that associates with ribosomes
YHR082C	1.49724	RTG3	YHR082C|KSP1|S000001124|Nonessential putative serine/threonine protein kinase of unknown cellular role; overproduction causes allele-specific suppression of the prp20-10 mutation
YLR304C	1.49631	RTG3	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
YKL192C	1.47736	RTG3	YKL192C|ACP1|S000001675|Mitochondrial matrix acyl carrier protein, involved in biosynthesis of octanoate, which is a precursor to lipoic acid; activated by phosphopantetheinylation catalyzed by Ppt2p
YPL206C	1.46397	RTG3	YPL206C|PGC1|S000006127|Phosphatidyl Glycerol phospholipase C; regulates the phosphatidylglycerol (PG) content via a phospholipase C-type degradation mechanism; contains glycerophosphodiester phosphodiesterase motifs
YOR072W-A	1.45391	RTG3	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
YBR072W	1.44913	RTG3	YBR072W|HSP26|S000000276|Small heat shock protein (sHSP) with chaperone activity; forms hollow, sphere-shaped oligomers that suppress unfolded proteins aggregation; oligomer activation requires a heat-induced conformational change; not expressed in unstressed cells
YOR072W	1.43832	RTG3	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
YJR155W	1.42724	RTG3	YJR155W|AAD10|S000003916|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase; mutational analysis has not yet revealed a physiological role
YLR326W	1.4002	RTG3	YLR326W||S000004318|Hypothetical protein
YOR289W	1.39643	RTG3	YOR289W||S000005815|Putative protein of unknown function; transcription induced by the unfolded protein response; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and the nucleus
YKL086W	1.39	RTG3	YKL086W|SRX1|S000001569|Sulfiredoxin, contributes to oxidative stress resistance by reducing cysteine-sulfinic acid groups in the peroxiredoxins Tsa1p and Ahp1p that are formed upon exposure to oxidants; conserved in higher eukaryotes
YAR047C	1.38472	RTG3	YAR047C||S000000083|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR541C	1.38117	RTG3	YDR541C||S000002949|Putative dihydrokaempferol 4-reductase
YMR195W	1.37803	RTG3	YMR195W|ICY1|S000004808|Protein of unknown function, required for viability in rich media of cells lacking mitochondrial DNA; mutants have an invasive growth defect with elongated morphology; induced by amino acid starvation
YFR053C	1.37297	RTG3	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
YBL030C	1.33993	RTG3	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
YNL055C	1.33791	RTG3	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
YCR011C	1.33411	RTG3	YCR011C|ADP1|S000000604|Putative ATP-dependent permease of the ABC transporter family of proteins
YDL210W	1.31507	RTG3	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
YDR438W	1.30041	RTG3	YDR438W|THI74|S000002846|Mitochondrial transporter repressible by thiamine
YBR255C-A	1.29773	RTG3	YBR255C-A||S000007649|Putative protein of unknown function; identified by sequence comparison with hemiascomycetous yeast species
YDL113C	1.29407	RTG3	YDL113C|ATG20|S000002271|Sorting nexin family member required for the cytoplasm-to-vacuole targeting (Cvt) pathway and for endosomal sorting; has a Phox homology domain that binds phosphatidylinositol-3-phosphate; interacts with Snx4p; potential Cdc28p substrate
YLR136C	1.28301	RTG3	YLR136C|TIS11|S000004126|mRNA-binding protein expressed during iron starvation; binds to a sequence element in the 3'-untranslated regions of specific mRNAs to mediate their degradation; involved in iron homeostasis
YOR054C	1.27607	RTG3	YOR054C|VHS3|S000005580|Functionally redundant (see also SIS2) inhibitory subunit of Ppz1p, a PP1c-related ser/thr protein phosphatase Z isoform; synthetically lethal with sis2; putative phosphopantothenoylcysteine decarboxylase involved in coenzyme A biosynthesis
YER187W	1.27593	RTG3	YER187W||S000000989|Putative protein of unknown function; induced in respiratory-deficient cells
YBR145W	1.26837	RTG3	YBR145W|ADH5|S000000349|Alcohol dehydrogenase isoenzyme V; involved in ethanol production
YPL223C	1.26513	RTG3	YPL223C|GRE1|S000006144|Hydrophilin of unknown function; stress induced (osmotic, ionic, oxidative, heat shock and heavy metals); regulated by the HOG pathway
YOR071C	1.2595	RTG3	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
YBL064C	1.25065	RTG3	YBL064C|PRX1|S000000160|Mitochondrial peroxiredoxin (1-Cys Prx) with thioredoxin peroxidase activity, has a role in reduction of hydroperoxides; induced during respiratory growth and under conditions of oxidative stress; phosphorylated
YNL115C	1.24246	RTG3	YNL115C||S000005059|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YNL115C is not an essential gene
YCL041C	1.24031	RTG3	YCL041C||S000000546|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps both the verified gene PDI1/YCL043C and the uncharacterized gene YCL042W
YNL240C	1.2339	RTG3	YNL240C|NAR1|S000005184|Nuclear architecture related protein; component of the cytosolic iron-sulfur (FeS) protein assembly machinery, required for maturation of cytosolic and nuclear FeS proteins; homologous to human Narf
YIL047C	1.21824	RTG3	YIL047C|SYG1|S000001309|Plasma membrane protein of unknown function; truncation and overexpression suppresses lethality of G-alpha protein deficiency
YEL044W	1.21186	RTG3	YEL044W|IES6|S000000770|Protein that associates with the INO80 chromatin remodeling complex under low-salt conditions
YPL025C	1.21136	RTG3	YPL025C||S000005946|Hypothetical protein
YJR147W	1.2035	RTG3	YJR147W|HMS2|S000003908|Protein with similarity to heat shock transcription factors; overexpression suppresses the pseudohyphal filamentation defect of a diploid mep1 mep2 homozygous null mutant
YOR120W	1.20307	RTG3	YOR120W|GCY1|S000005646|Putative NADP(+) coupled glycerol dehydrogenase, proposed to be involved in an alternative pathway for glycerol catabolism; member of the aldo-keto reductase (AKR) family
YBR116C	1.20171	RTG3	YBR116C||S000000320|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TKL2
YBR250W	1.19577	RTG3	YBR250W|SPO23|S000000454|Protein of unknown function; associates with meiosis-specific protein Spo1p
YBR287W	1.19226	RTG3	YBR287W||S000000491|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the ER; YBR287W is not an essential gene
YDR441C	1.16845	RTG3	YDR441C|APT2|S000002849|Apparent pseudogene, not transcribed or translated under normal conditions; encodes a protein with similarity to adenine phosphoribosyltransferase, but artificially expressed protein exhibits no enzymatic activity
YMR253C	1.1537	RTG3	YMR253C||S000004866|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern; YMR253C is not an essential gene
YPL058C	1.14758	RTG3	YPL058C|PDR12|S000005979|Plasma membrane ATP-binding cassette (ABC) transporter, weak-acid-inducible multidrug transporter required for weak organic acid resistance; induced by sorbate and benzoate and regulated by War1p; mutants exhibit sorbate hypersensitivity
YCR088W	1.1447	RTG3	YCR088W|ABP1|S000000684|Actin-binding protein of the cortical actin cytoskeleton, important for activation of the Arp2/3 complex that plays a key role actin in cytoskeleton organization
YCL054W	1.14062	RTG3	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
YAL063C	1.1405	RTG3	YAL063C|FLO9|S000000059|Lectin-like protein with similarity to Flo1p, thought to be expressed and involved in flocculation
YPL236C	1.13126	RTG3	YPL236C||S000006157|Putative protein kinase that exhibits Akr1p-dependent palmitoylation
YOL082W	1.13086	RTG3	YOL082W|ATG19|S000005442|Receptor protein for the cytoplasm-to-vacuole targeting (Cvt) pathway; recognizes cargo proteins aminopeptidase I (Lap4p) and alpha-mannosidase (Ams1p) and delivers them to the preautophagosomal structure for packaging into Cvt vesicles
YOR376W	1.12028	RTG3	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.
YNL103W	1.11356	RTG3	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
YDR034C	1.10863	RTG3	YDR034C|LYS14|S000002441|Transcriptional activator involved in regulation of genes of the lysine biosynthesis pathway; requires 2-aminoadipate semialdehyde as co-inducer
YIR039C	1.09793	RTG3	YIR039C|YPS6|S000001478|Putative GPI-anchored aspartic protease
YLR307C-A	1.08971	RTG3	YLR307C-A||S000028525|Putative protein of unknown function
YGR110W	1.08953	RTG3	YGR110W||S000003342|Putative protein of unknown function; transcription is increased in response to genotoxic stress; plays a role in restricting Ty1 transposition
YOR055W	1.08787	RTG3	YOR055W||S000005581|Dubious open reading frame unlikely to encode a functional protein; based on available experimental and comparative sequence data
YDR114C	1.08635	RTG3	YDR114C||S000002521|Putative protein of unknown function; deletion mutant exhibits poor growth at elevated pH and calcium
YOR298C-A	1.08577	RTG3	YOR298C-A|MBF1|S000007253|Transcriptional coactivator that bridges the DNA-binding region of Gcn4p and TATA-binding protein Spt15p; suppressor of frameshift mutations
YCL035C	1.08212	RTG3	YCL035C|GRX1|S000000540|Hydroperoxide and superoxide-radical responsive heat-stable glutathione-dependent disulfide oxidoreductase with active site cysteine pair; protects cells from oxidative damage
YGL072C	1.06305	RTG3	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
YNL014W	1.05761	RTG3	YNL014W|HEF3|S000004959|Translational elongation factor EF-3; paralog of YEF3 and member of the ABC superfamily; stimulates EF-1 alpha-dependent binding of aminoacyl-tRNA by the ribosome; normally expressed in zinc deficient cells
YHL037C	1.04443	RTG3	YHL037C||S000001029|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YNL116W	1.04152	RTG3	YNL116W|DMA2|S000005060|Protein involved in ubiquitin ligation; plays a role in regulating spindle position and orientation; functionally redundant with Dma1p; orthologous to human RNF8 protein, also has sequence similarity to human Chfr.
YDR171W	1.03379	RTG3	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
YMR014W	1.03361	RTG3	YMR014W|BUD22|S000004616|Protein involved in bud-site selection; diploid mutants display a random budding pattern instead of the wild-type bipolar pattern
YKL031W	1.0252	RTG3	YKL031W||S000001514|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species
YML089C	1.0157	RTG3	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
YOR378W	1.00447	RTG3	YOR378W||S000005905|Putative protein of unknown function; belongs to the DHA2 family of drug:H+ antiporters; YOR378W is not an essential gene
YBR039W	1.00157	RTG3	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
YKL044W	1.00092	RTG3	YKL044W||S000001527|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJL100W	0.995158	RTG3	YJL100W|LSB6|S000003636|Type II phosphatidylinositol 4-kinase that binds Las17p, which is a homolog of human Wiskott-Aldrich Syndrome protein involved in actin patch assembly and actin polymerization
YPL240C	0.993443	RTG3	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
YIL033C	0.984947	RTG3	YIL033C|BCY1|S000001295|Regulatory subunit of the cyclic AMP-dependent protein kinase (PKA), a component of a signaling pathway that controls a variety of cellular processes, including metabolism, cell cycle, stress response, stationary phase, and sporulation
YDR115W	0.983215	RTG3	YDR115W||S000002522|Putative mitochondrial ribosomal protein of the large subunit, has similarity to E. coli L34 ribosomal protein; required for respiratory growth, as are most mitochondrial ribosomal proteins
YPR196W	0.974631	RTG3	YPR196W||S000006400|Putative maltose activator
YFL063W	0.974261	RTG3	YFL063W||S000001831|Dubious open reading frame, based on available experimental and comparative sequence data
YNL180C	0.971395	RTG3	YNL180C|RHO5|S000005124|Non-essential small GTPase of the Rho/Rac subfamily of Ras-like proteins, likely involved in protein kinase C (Pkc1p)-dependent signal transduction pathway that controls cell integrity
YPL135W	0.964675	RTG3	YPL135W|ISU1|S000006056|Conserved protein of the mitochondrial matrix, performs a scaffolding function during assembly of iron-sulfur clusters, interacts physically and functionally with yeast frataxin (Yfh1p); isu1 isu2 double mutant is inviable
YNL277W	0.961642	RTG3	YNL277W|MET2|S000005221|L-homoserine-O-acetyltransferase, catalyzes the conversion of homoserine to O-acetyl homoserine which is the first step of the methionine biosynthetic pathway
YGR045C	0.957892	RTG3	YGR045C||S000003277|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YAL018C	0.95472	RTG3	YAL018C||S000000016|Putative protein of unknown function
YKL109W	0.952551	RTG3	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
YNL283C	0.947968	RTG3	YNL283C|WSC2|S000005227|Partially redundant sensor-transducer of the stress-activated PKC1-MPK1 signaling pathway involved in maintenance of cell wall integrity and recovery from heat shock; secretory pathway Wsc2p is required for the arrest of secretion response
YJL127C-B	0.942996	RTG3	YJL127C-B||S000028522|Putative protein of unknown function; identified based on homology to the filamentous fungus, Ashbya gossypii
YDR442W	0.926478	RTG3	YDR442W||S000002850|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YAL039C	0.9243	RTG3	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)
YGR221C	0.91353	RTG3	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
YFL064C	0.912533	RTG3	YFL064C||S000001830|Putative protein of unknown function
YFL055W	0.898025	RTG3	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
YKR102W	0.897993	RTG3	YKR102W|FLO10|S000001810|Lectin-like protein with similarity to Flo1p, thought to be involved in flocculation
YOR192C	0.897959	RTG3	YOR192C|THI72|S000005718|Transporter of thiamine or related compound; shares sequence similarity with Thi7p
YMR251W	0.890528	RTG3	YMR251W|GTO3|S000004863|Omega class glutathione transferase; putative cytosolic localization
YHR212C	0.878596	RTG3	YHR212C||S000001255|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YKR069W	0.876384	RTG3	YKR069W|MET1|S000001777|S-adenosyl-L-methionine uroporphyrinogen III transmethylase, involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
YNL179C	0.876051	RTG3	YNL179C||S000005123|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; deletion in cyr1 mutant results in loss of stress resistance
YOL081W	0.8743	RTG3	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
YDL020C	0.864665	RTG3	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
YLR410W	0.863912	RTG3	YLR410W|VIP1|S000004402|Inositol hexakisphosphate (IP6) and inositol heptakisphosphate (IP7) kinase; generation of IP7 by Vip1p is important for phosphate signaling; likely involved in cortical actin cytoskeleton function, by analogy with S. pombe ortholog asp1
YNL094W	0.86321	RTG3	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
YBL015W	0.861882	RTG3	YBL015W|ACH1|S000000111|Acetyl-coA hydrolase, primarily localized to mitochondria; phosphorylated; required for acetate utilization and for diploid pseudohyphal growth
YHR138C	0.860785	RTG3	YHR138C||S000001180|Putative protein of unknown function; has similarity to Pbi2p; double null mutant lacking Pbi2p and Yhr138p exhibits highly fragmented vacuoles
YPR054W	0.856818	RTG3	YPR054W|SMK1|S000006258|Middle sporulation-specific mitogen-activated protein kinase (MAPK) required for production of the outer spore wall layers; negatively regulates activity of the glucan synthase subunit Gsc2p
YDR178W	0.844838	RTG3	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
YHR212W-A	0.840163	RTG3	YHR212W-A||S000028650|Putative protein of unknown function; identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YOR192C-C	0.840087	RTG3	YOR192C-C||S000028857|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YHR204W	0.838451	RTG3	YHR204W|MNL1|S000001247|Alpha mannosidase-like protein of the endoplasmic reticulum required for degradation of glycoproteins but not for processing of N-linked oligosaccharides
YFL062W	0.834303	RTG3	YFL062W|COS4|S000001832|Protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YOR377W	0.834173	RTG3	YOR377W|ATF1|S000005904|Alcohol acetyltransferase with potential roles in lipid and sterol metabolism; responsible for the major part of volatile acetate ester production during fermentation
YMR196W	0.830288	RTG3	YMR196W||S000004809|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YMR196W is not an essential gene
YLR375W	0.82589	RTG3	YLR375W|STP3|S000004367|Zinc-finger protein of unknown function, possibly involved in pre-tRNA splicing and in uptake of branched-chain amino acids
YFR026C	0.820925	RTG3	YFR026C||S000001922|Putative protein of unknown function
YOR173W	0.818204	RTG3	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.
YAL017W	0.812883	RTG3	YAL017W|PSK1|S000000015|One of two (see also PSK2) PAS domain containing S/T protein kinases; coordinately regulates protein synthesis and carbohydrate metabolism and storage in response to a unknown metabolite that reflects nutritional status
YOR121C	0.811907	RTG3	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
YER186C	0.802336	RTG3	YER186C||S000000988|Putative protein of unknown function
YJL052W	0.801501	RTG3	YJL052W|TDH1|S000003588|Glyceraldehyde-3-phosphate dehydrogenase, isozyme 1, involved in glycolysis and gluconeogenesis; tetramer that catalyzes the reaction of glyceraldehyde-3-phosphate to 1,3 bis-phosphoglycerate; detected in the cytoplasm and cell-wall
YPR151C	0.794988	RTG3	YPR151C|SUE1|S000006355|Mitochondrial protein required for degradation of unstable forms of cytochrome c
YDR277C	0.794005	RTG3	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
YDR528W	0.784407	RTG3	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
YPL187W	0.780285	RTG3	YPL187W|MF(ALPHA)1|S000006108|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)2, although MF(ALPHA)1 produces most alpha-factor
YNL220W	0.778254	RTG3	YNL220W|ADE12|S000005164|Adenylosuccinate synthase, catalyzes the first step in synthesis of adenosine monophosphate from inosine 5'monophosphate during purine nucleotide biosynthesis; exhibits binding to single-stranded autonomously replicating (ARS) core sequence
YBR033W	0.775001	RTG3	YBR033W|EDS1|S000000237|Putative zinc cluster protein; YBR033W is not an essential gene
YNR073C	0.771301	RTG3	YNR073C||S000005356|Putative mannitol dehydrogenase
YJL133W	0.766827	RTG3	YJL133W|MRS3|S000003669|Mitochondrial iron transporter of the mitochondrial carrier family (MCF), very similar to and functionally redundant with Mrs4p; functions under low-iron conditions; may transport other cations in addition to iron
YML122C	0.766791	RTG3	YML122C||S000004591|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR031W	0.764524	RTG3	YOR031W|CRS5|S000005557|Copper-binding metallothionein, required for wild-type copper resistance
YGR236C	0.75964	RTG3	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
YFL018C	0.7589	RTG3	YFL018C|LPD1|S000001876|Dihydrolipoamide dehydrogenase, the lipoamide dehydrogenase component (E3) of the pyruvate dehydrogenase and 2-oxoglutarate dehydrogenase multi-enzyme complexes
YMR107W	0.755315	RTG3	YMR107W|SPG4|S000004713|Protein required for survival at high temperature during stationary phase; not required for growth on nonfermentable carbon sources
YNL282W	0.754874	RTG3	YNL282W|POP3|S000005226|Subunit of both RNase MRP, which cleaves pre-rRNA, and nuclear RNase P, which cleaves tRNA precursors to generate mature 5' ends
YJL149W	0.753258	RTG3	YJL149W|DAS1|S000003685|Putative SCF ubiquitin ligase F-box protein; interacts physically with both Cdc53p and Skp1 and genetically with CDC34; similar to putative F-box protein YDR131C; null mutant suppresses dst1delta sensitivity for 6-azauracil
YLR374C	0.749482	RTG3	YLR374C||S000004366|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the uncharacterized ORF STP3/YLR375W
YKL043W	0.748589	RTG3	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
YOR211C	0.742602	RTG3	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
YER111C	0.738548	RTG3	YER111C|SWI4|S000000913|DNA binding component of the SBF complex (Swi4p-Swi6p), a transcriptional activator that in concert with MBF (Mbp1-Swi6p) regulates late G1-specific transcription of targets including cyclins and genes required for DNA synthesis and repair
YHR217C	0.737638	RTG3	YHR217C||S000001260|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; located in the telomeric region TEL08R.
YGL248W	0.736694	RTG3	YGL248W|PDE1|S000003217|Low-affinity cyclic AMP phosphodiesterase, controls glucose and intracellular acidification-induced cAMP signaling, target of the cAMP-protein kinase A (PKA) pathway; glucose induces transcription and inhibits translation
YKR049C	0.732971	RTG3	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
YKL026C	0.731527	RTG3	YKL026C|GPX1|S000001509|Phospholipid hydroperoxide glutathione peroxidase induced by glucose starvation that protects cells from phospholipid hydroperoxides and nonphospholipid peroxides during oxidative stress
YJR153W	0.727027	RTG3	YJR153W|PGU1|S000003914|Endo-polygalacturonase, pectolytic enzyme that hydrolyzes the alpha-1,4-glycosidic bonds in the rhamnogalacturonan chains in pectins
YFL058W	0.719834	RTG3	YFL058W|THI5|S000001836|Protein involved in synthesis of the thiamine precursor hydroxymethylpyrimidine (HMP); member of a subtelomeric gene family including THI5, THI11, THI12, and THI13
YGL255W	0.715114	RTG3	YGL255W|ZRT1|S000003224|High-affinity zinc transporter of the plasma membrane, responsible for the majority of zinc uptake; transcription is induced under low-zinc conditions by the Zap1p transcription factor
YMR164C	0.713918	RTG3	YMR164C|MSS11|S000004774|Transcription factor involved in regulation of invasive growth and starch degradation; controls the activation of MUC1 and STA2 in response to nutritional signals
YLR203C	0.712161	RTG3	YLR203C|MSS51|S000004193|Nuclear encoded protein required for translation of COX1 mRNA; binds to Cox1 protein
YEL043W	0.711596	RTG3	YEL043W||S000000769|Predicted cytoskeleton protein involved in intracellular signalling based on quantitative analysis of protein-protein interaction maps; may interact with ribosomes, based on co-purification studies; contains fibronectin type III domain fold
YLR205C	0.706892	RTG3	YLR205C|HMX1|S000004195|ER localized, heme-binding peroxidase involved in the degradation of heme; does not exhibit heme oxygenase activity despite similarity to heme oxygenases; expression regulated by AFT1
YLL039C	0.705836	RTG3	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
YER088C	0.694417	RTG3	YER088C|DOT6|S000000890|Protein of unknown function, involved in telomeric gene silencing and filamentation
YMR105C	0.687302	RTG3	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
YBR047W	0.6861	RTG3	YBR047W|FMP23|S000000251|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR381W	0.683253	RTG3	YOR381W|FRE3|S000005908|Ferric reductase, reduces siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
YML132W	0.671242	RTG3	YML132W|COS3|S000004601|Protein involved in salt resistance; interacts with sodium:hydrogen antiporter Nha1p; member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YMR216C	0.669696	RTG3	YMR216C|SKY1|S000004829|SR protein kinase (SRPK) involved in regulating proteins involved in mRNA metabolism and cation homeostasis; similar to human SRPK1
YPL190C	0.666811	RTG3	YPL190C|NAB3|S000006111|Single stranded RNA binding protein; acidic ribonucleoprotein; required for termination of non-poly(A) transcripts and efficient splicing; interacts with Nrd1p
YDR246W-A	0.664034	RTG3	YDR246W-A||S000028542|Putative protein of unknown function; identified by fungal homology and RT-PCR
YBR083W	0.658198	RTG3	YBR083W|TEC1|S000000287|Transcription factor required for full Ty1 epxression, Ty1-mediated gene activation, and haploid invasive and diploid pseudohyphal growth; TEA/ATTS DNA-binding domain family member
YKL038W	0.652251	RTG3	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
YMR206W	0.651157	RTG3	YMR206W||S000004819|Putative protein of unknown function; YMR206W is not an essential gene
YIL122W	0.6399	RTG3	YIL122W|POG1|S000001384|Putative transcriptional activator that promotes recovery from pheromone induced arrest; inhibits both alpha-factor induced G1 arrest and repression of CLN1 and CLN2 via SCB/MCB promoter elements; potential Cdc28p substrate; SBF regulated
YGR032W	0.626517	RTG3	YGR032W|GSC2|S000003264|Catalytic subunit of 1,3-beta-glucan synthase, involved in formation of the inner layer of the spore wall; activity positively regulated by Rho1p and negatively by Smk1p; has similarity to an alternate catalytic subunit, Fks1p (Gsc1p)
YDR058C	0.625161	RTG3	YDR058C|TGL2|S000002465|Protein with lipolytic activity towards triacylglycerols and diacylglycerols when expressed in E. coli; role in yeast lipid degradation is unclear
YMR135C	0.621496	RTG3	YMR135C|GID8|S000004742|Protein of unknown function, involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; contains LisH and CTLH domains, like Vid30p; dosage-dependent regulator of START
YAL005C	0.621295	RTG3	YAL005C|SSA1|S000000004|ATPase involved in protein folding and nuclear localization signal (NLS)-directed nuclear transport; member of heat shock protein 70 (HSP70) family; forms a chaperone complex with Ydj1p; localized to the nucleus, cytoplasm, and cell wall
YMR254C	0.621131	RTG3	YMR254C||S000004867|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLL060C	0.617872	RTG3	YLL060C|GTT2|S000003983|Glutathione S-transferase capable of homodimerization; functional overlap with Gtt2p, Grx1p, and Grx2p
YIL057C	0.614699	RTG3	YIL057C||S000001319|Putative protein of unknown function; expression induced under carbon limitation and repressed under high glucose
YKL163W	0.610281	RTG3	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
YOR023C	0.609592	RTG3	YOR023C|AHC1|S000005549|Subunit of the Ada histone acetyltransferase complex, required for structural integrity of the complex
YER066W	0.609454	RTG3	YER066W||S000000868|Putative protein of unknown function; YER066W is not an essential gene
YBR201C-A	0.608641	RTG3	YBR201C-A||S000087085|Putative protein of unknown function
YDR254W	0.605667	RTG3	YDR254W|CHL4|S000002662|Outer kinetochore protein required for chromosome stability, interacts with kinetochore proteins Ctf19p, Ctf3p, and Iml3p; exhibits a two-hybrid interaction with Mif2p; association with CEN DNA requires Ctf19p
YOR231W	0.603645	RTG3	YOR231W|MKK1|S000005757|Mitogen-activated kinase kinase involved in protein kinase C signaling pathway that controls cell integrity; upon activation by Bck1p phosphorylates downstream target, Slt2p; functionally redundant with Mkk2p
YER004W	0.601571	RTG3	YER004W|FMP52|S000000806|Protein of unknown function, localized to the mitochondrial outer membrane; induced by treatment with 8-methoxypsoralen and UVA irradiation
YER053C	0.59965	RTG3	YER053C|PIC2|S000000855|Mitochondrial phosphate carrier, imports inorganic phosphate into mitochondria; functionally redundant with Mir1p but less abundant than Mir1p under normal conditions; expression is induced at high temperature
YNL095C	0.597596	RTG3	YNL095C||S000005039|Putative protein of unknown function predicted to contain a transmembrane domain; YNL095C is not an essential gene
YER060W-A	0.595327	RTG3	YER060W-A|FCY22|S000002958|Putative purine-cytosine permease, very similar to Fcy2p but cannot substitute for its function
YML133C	0.592948	RTG3	YML133C||S000004602|Putative protein of unknown function with similarity to helicases; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YML133C contains an intron
YML090W	0.588193	RTG3	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
YIL166C	0.587755	RTG3	YIL166C||S000001428|Putative protein with similarity to the allantoate permease (Dal5p) subfamily of the major facilitator superfamily; mRNA expression is elevated by sulfur limitation; YIL166C is a non-essential gene
YFL052W	0.587229	RTG3	YFL052W||S000001842|Putative zinc cluster protein that contains a DNA binding domain; null mutant sensitive to calcofluor white, low osmolarity and heat, suggesting a role for YFL052Wp in cell wall integrity
YOL100W	0.587115	RTG3	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
YAR069C	0.585381	RTG3	YAR069C||S000000092|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YML081W	0.582667	RTG3	YML081W||S000004546|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YML081w is not an essential gene
YGL163C	0.5819	RTG3	YGL163C|RAD54|S000003131|DNA-dependent ATPase, stimulates strand exchange by modifying the topology of double-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; member of the SWI/SNF family
YBR046C	0.574434	RTG3	YBR046C|ZTA1|S000000250|Zeta-crystallin homolog, found in the cytoplasm and nucleus; has similarity to E. coli quinone oxidoreductase and to human zeta-crystallin, which has quinone oxidoreductase activity
YGL096W	0.570825	RTG3	YGL096W|TOS8|S000003064|Homeodomain-containing transcription factor; SBF regulated target gene that in turn regulates expression of genes involved in G1/S phase events such as bud site selection, bud emergence and cell cycle progression; similarity to Cup9p
YOR227W	0.568877	RTG3	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
YPR103W	0.567133	RTG3	YPR103W|PRE2|S000006307|Beta 5 subunit of the 20S proteasome, responsible for the chymotryptic activity of the proteasome
YPR192W	0.56274	RTG3	YPR192W|AQY1|S000006396|Spore-specific water channel that mediates the transport of water across cell membranes, developmentally controlled; may play a role in spore maturation, probably by allowing water outflow, may be involved in freeze tolerance
YJL151C	0.559453	RTG3	YJL151C|SNA3|S000003687|Integral membrane protein localized to vacuolar intralumenal vesicles, computational analysis of large-scale protein-protein interaction data suggests a possible role in either cell wall synthesis or protein-vacuolar targeting
YLR231C	0.558886	RTG3	YLR231C|BNA5|S000004221|Kynureninase, required for the de novo biosynthesis of NAD from tryptophan via kynurenine; expression regulated by Hst1p
YAR068W	0.557414	RTG3	YAR068W||S000000091|Fungal-specific protein of unknown function; induced in respiratory-deficient cells
YHL046W-A	0.55595	RTG3	YHL046W-A||S000028775|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YER150W	0.555859	RTG3	YER150W|SPI1|S000000952|GPI-anchored cell wall protein involved in weak acid resistance; basal expression requires Msn2p/Msn4p; expression is induced under conditions of stress and during the diauxic shift; similar to Sed1p
YJR089W	0.551034	RTG3	YJR089W|BIR1|S000003849|Essential chromosomal passenger protein involved in coordinating cell cycle events for proper chromosome segregation; C-terminal region binds Sli15p, and the middle region, upon phosphorylation, localizes Cbf2p to the spindle at anaphase
YOR010C	0.550461	RTG3	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
YOR098C	0.549492	RTG3	YOR098C|NUP1|S000005624|Nuclear pore complex (NPC) subunit, involved in protein import/export and in export of RNAs, possible karyopherin release factor that accelerates release of karyopherin-cargo complexes after transport across NPC; potential Cdc28p substrate
YER125W	0.547393	RTG3	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
YMR181C	0.546631	RTG3	YMR181C||S000004793|Protein of unknown function; mRNA transcribed as part of a bicistronic transcript with a predicted transcriptional repressor RGM1/YMR182C; mRNA is destroyed by nonsense-mediated decay (NMD); YMR181C is not an essential gene
YKL148C	0.542989	RTG3	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
YFL030W	0.53879	RTG3	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
YPL222W	0.536062	RTG3	YPL222W|FMP40|S000006143|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YPL189W	0.534372	RTG3	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
YCR007C	0.527586	RTG3	YCR007C||S000000600|Putative integral membrane protein, member of DUP240 gene family; YCR007C is not an essential gene
YOR387C	0.518614	RTG3	YOR387C||S000005914|Putative protein of unknown function; regulated by the metal-responsive Aft1p transcription factor; highly inducible in zinc-depleted conditions; localizes to the soluble fraction
YIL088C	0.514279	RTG3	YIL088C|AVT7|S000001350|Putative transporter, member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
YDR338C	0.513317	RTG3	YDR338C||S000002746|Hypothetical protein
YPR065W	0.512064	RTG3	YPR065W|ROX1|S000006269|Heme-dependent repressor of hypoxic genes; contains an HMG domain that is responsible for DNA bending activity
YAL067C	0.509448	RTG3	YAL067C|SEO1|S000000062|Putative permease, member of the allantoate transporter subfamily of the major facilitator superfamily; mutation confers resistance to ethionine sulfoxide
YDR014W-A	0.50614	RTG3	YDR014W-A|HED1|S000113613|Meiosis-specific protein that down-regulates Rad51p-mediated mitotic recombination when the meiotic recombination machinery is impaired; early meiotic gene, transcribed specifically during meiotic prophase
YDR216W	0.504522	RTG3	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
YDR042C	0.500825	RTG3	YDR042C||S000002449|Putative protein of unknown function; expression is increased in ssu72-ts69 mutant
YJL101C	0.497723	RTG3	YJL101C|GSH1|S000003637|Gamma glutamylcysteine synthetase catalyzes the first step in glutathione (GSH) biosynthesis; expression induced by oxidants, cadmium, and mercury
YDR036C	0.49731	RTG3	YDR036C|EHD3|S000002443|3-hydroxyisobutyryl-CoA hydrolase, member of a family of enoyl-CoA hydratase/isomerases; non-tagged protein is detected in highly purified mitochondria in high-throughput studies; phosphorylated; mutation affects fluid-phase endocytosis
YPR078C	0.49473	RTG3	YPR078C||S000006282|Putative protein of unknown function; possible role in DNA metabolism and/or in genome stability; expression is heat-inducible
YGR019W	0.491548	RTG3	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
YBR019C	0.488333	RTG3	YBR019C|GAL10|S000000223|UDP-glucose-4-epimerase, catalyzes the interconversion of UDP-galactose and UDP-D-glucose in galactose metabolism; also catalyzes the conversion of alpha-D-glucose or alpha-D-galactose to their beta-anomers
YHL047C	0.484671	RTG3	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
YCR089W	0.480167	RTG3	YCR089W|FIG2|S000000685|Cell wall adhesin, expressed specifically during mating; may be involved in maintenance of cell wall integrity during mating
YGR254W	0.478927	RTG3	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
YML017W	0.476995	RTG3	YML017W|PSP2|S000004479|Asn rich cytoplasmic protein that contains RGG motifs; high-copy suppressor of group II intron-splicing defects of a mutation in MRS2 and of a conditional mutation in POL1 (DNA polymerase alpha); possible role in mitochondrial mRNA splicing
YHR180W	0.476201	RTG3	YHR180W||S000001223|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNL134C	0.468234	RTG3	YNL134C||S000005078|Putative protein of unknown function with similarity to dehydrogenases from other model organisms; green fluorescent protein (GFP)-fusion protein localizes to both the cytoplasm and nucleus and is induced by the DNA-damaging agent MMS
YEL072W	0.465618	RTG3	YEL072W|RMD6|S000000798|Protein required for sporulation
YHR218W	0.462777	RTG3	YHR218W||S000001261|Helicase-like protein encoded within the telomeric Y' element
YJL152W	0.46276	RTG3	YJL152W||S000003688|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YIR017C	0.46191	RTG3	YIR017C|MET28|S000001456|Transcriptional activator in the Cbf1p-Met4p-Met28p complex, participates in the regulation of sulfur metabolism
YAR070C	0.460964	RTG3	YAR070C||S000000093|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YFL023W	0.454654	RTG3	YFL023W|BUD27|S000001871|Protein involved in bud-site selection, nutrient signaling, and gene expression controlled by TOR kinase; diploid mutants show a random budding pattern rather than the wild-type bipolar pattern; plays a role in regulating Ty1 transposition
YMR090W	0.454302	RTG3	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
YML091C	0.454059	RTG3	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
YKL103C	0.448587	RTG3	YKL103C|LAP4|S000001586|Vacuolar aminopeptidase, often used as a marker protein in studies of autophagy and cytosol to vacuole targeting (CVT) pathway
YGL192W	0.447991	RTG3	YGL192W|IME4|S000003160|Probable mRNA N6-adenosine methyltransferase that is required for IME1 transcript accumulation and for sporulation; expression is induced in starved MATa/MAT alpha diploid cells
YGL193C	0.444648	RTG3	YGL193C||S000003161|Haploid-specific gene repressed by a1-alpha2, turned off in sir3 null strains, absence enhances the sensitivity of rad52-327 cells to campothecin almost 100-fold
YMR255W	0.442125	RTG3	YMR255W|GFD1|S000004868|Coiled-coiled protein of unknown function, identified as a high-copy suppressor of a dbp5 mutation
YFR022W	0.440615	RTG3	YFR022W|ROG3|S000001918|Protein that binds to Rsp5p, which is a hect-type ubiquitin ligase, via its 2 PY motifs; has similarity to Rod1p; mutation suppresses the temperature sensitivity of an mck1 rim11 double mutant
YEL009C-A	0.428578	RTG3	YEL009C-A||S000028741|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YJL217W	0.426881	RTG3	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
YGR286C	0.426619	RTG3	YGR286C|BIO2|S000003518|Biotin synthase, catalyzes the conversion of dethiobiotin to biotin, which is the last step of the biotin biosynthesis pathway; complements E. coli bioB mutant
YGR281W	0.425067	RTG3	YGR281W|YOR1|S000003513|Plasma membrane ATP-binding cassette (ABC) transporter, multidrug transporter mediates export of many different organic anions including oligomycin
YPL061W	0.424714	RTG3	YPL061W|ALD6|S000005982|Cytosolic aldehyde dehydrogenase, activated by Mg2+ and utilizes NADP+ as the preferred coenzyme; required for conversion of acetaldehyde to acetate; constitutively expressed; locates to the mitochondrial outer surface upon oxidative stress
YBR082C	0.422237	RTG3	YBR082C|UBC4|S000000286|Ubiquitin-conjugating enzyme (E2), mediates degradation of short-lived and abnormal proteins; interacts with E3-CaM in ubiquitinating calmodulin; interacts with many SCF ubiquitin protein ligases; component of the cellular stress response
YLR356W	0.421123	RTG3	YLR356W||S000004348|Putative protein of unknown function with similarity to SCM4; green fluorescent protein (GFP)-fusion protein localizes to mitochondria; YLR356W is not an essential gene
YLR279W	0.418046	RTG3	YLR279W||S000004269|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YCR021C	0.415288	RTG3	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
YBL045C	0.414095	RTG3	YBL045C|COR1|S000000141|Core subunit of the ubiquinol-cytochrome c reductase complex (bc1 complex), which is a component of the mitochondrial inner membrane electron transport chain
YLR346C	0.41263	RTG3	YLR346C||S000004338|Putative protein of unknown function found in mitochondria; expression is regulated by transcription factors involved in pleiotropic drug resistance, Pdr1p and Yrr1p; YLR346C is not an essential gene
YKL039W	0.408131	RTG3	YKL039W|PTM1|S000001522|Protein of unknown function, copurifies with late Golgi vesicles containing the v-SNARE Tlg2p
YBR144C	0.407522	RTG3	YBR144C||S000000348|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YBR144C is not an essential gene
YCR037C	0.406241	RTG3	YCR037C|PHO87|S000000633|Low-affinity inorganic phosphate (Pi) transporter, involved in activation of PHO pathway; expression is independent of Pi concentration and Pho4p activity; contains 12 membrane-spanning segments
YLR189C	0.405437	RTG3	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
YDR490C	0.40192	RTG3	YDR490C|PKH1|S000002898|Serine/threonine protein kinase involved in sphingolipid-mediated signaling pathway that controls endocytosis; activates Ypk1p and Ykr2p, components of signaling cascade required for maintenance of cell wall integrity; redundant with Pkh2p
YDR409W	0.400601	RTG3	YDR409W|SIZ1|S000002817|SUMO/Smt3 ligase that promotes the attachment of sumo (Smt3p; small ubiquitin-related modifier) to proteins; binds Ubc9p and may bind septins; specifically required for sumoylation of septins in vivo; localized to the septin ring
YIR018W	0.398977	RTG3	YIR018W|YAP5|S000001457|Basic leucine zipper (bZIP) transcription factor
YFL033C	0.396953	RTG3	YFL033C|RIM15|S000001861|Glucose-repressible protein kinase involved in signal transduction during cell proliferation in response to nutrients, specifically the establishment of stationary phase; identified as a regulator of IME2; substrate of Pho80p-Pho85p kinase
YNL336W	0.389833	RTG3	YNL336W|COS1|S000005280|Protein of unknown function, member of the DUP380 subfamily of conserved, often subtelomerically-encoded proteins
YDL181W	0.388432	RTG3	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
YOL047C	0.386884	RTG3	YOL047C||S000005407|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YCR025C	0.386381	RTG3	YCR025C||S000000620|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; YCR025C is not an essential gene
YER188C-A	0.383422	RTG3	YER188C-A||S000028764|Putative protein of unknown function
YAL001C	0.372679	RTG3	YAL001C|TFC3|S000000001|Largest of six subunits of the RNA polymerase III transcription initiation factor complex (TFIIIC); part of the TauB domain of TFIIIC that binds DNA at the BoxB promoter sites of tRNA and similar genes; cooperates with Tfc6p in DNA binding
YPL015C	0.370452	RTG3	YPL015C|HST2|S000005936|Cytoplasmic member of the silencing information regulator 2 (Sir2) family of NAD(+)-dependent protein deacetylases; modulates nucleolar (rDNA) and telomeric silencing; possesses NAD(+)-dependent histone deacetylase activity in vitro
YOR147W	0.369969	RTG3	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
YGR046W	0.369322	RTG3	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
YDR537C	0.36892	RTG3	YDR537C||S000002945|Dubious open reading frame unlikely to encode a protein, almost completely overlaps verified ORF PAD1/YDR538W
YJL135W	0.366656	RTG3	YJL135W||S000003671|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified genes YJL134W/LCB3
YGL162W	0.36341	RTG3	YGL162W|SUT1|S000003130|Transcription factor of the Zn[II]2Cys6 family involved in sterol uptake; involved in induction of hypoxic gene expression
YEL071W	0.36104	RTG3	YEL071W|DLD3|S000000797|D-lactate dehydrogenase, part of the retrograde regulon which consists of genes whose expression is stimulated by damage to mitochondria and reduced in cells grown with glutamate as the sole nitrogen source, located in the cytoplasm
YDR186C	0.360796	RTG3	YDR186C||S000002594|Putative protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YDR466W	0.360287	RTG3	YDR466W|PKH3|S000002874|Protein kinase with similarity to mammalian phosphoinositide-dependent kinase 1 (PDK1) and yeast Pkh1p and Pkh2p, two redundant upstream activators of Pkc1p; identified as a multicopy suppressor of a pkh1 pkh2 double mutant
YOR064C	0.358167	RTG3	YOR064C|YNG1|S000005590|Subunit of the NuA3 histone acetyltransferase complex that acetylates histone H3; contains PHD finger domain that interacts with methylated histone H3, has similarity to the human tumor suppressor ING1
YGL071W	0.355437	RTG3	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
YOR072W-B	0.354286	RTG3	YOR072W-B||S000028516|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YHR116W	0.353909	RTG3	YHR116W|COX23|S000001158|Mitochondrial intermembrane space protein that functions in mitochondrial copper homeostasis, essential for functional cytochrome oxidase expression; homologous to Cox17p
YJR151C	0.353707	RTG3	YJR151C|DAN4|S000003912|Cell wall mannoprotein with similarity to Tir1p, Tir2p, Tir3p, and Tir4p; expressed under anaerobic conditions, completely repressed during aerobic growth
YPR007C	0.351729	RTG3	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
YAR035W	0.349411	RTG3	YAR035W|YAT1|S000000080|Outer mitochondrial carnitine acetyltransferase, minor ethanol-inducible enzyme involved in transport of activated acyl groups from the cytoplasm into the mitochondrial matrix; phosphorylated
YKL087C	0.348687	RTG3	YKL087C|CYT2|S000001570|Cytochrome c1 heme lyase, involved in maturation of cytochrome c1, which is a subunit of the mitochondrial ubiquinol-cytochrome-c reductase; links heme covalently to apocytochrome c1
YER189W	0.347859	RTG3	YER189W||S000000991|Putative protein of unknown function
YEL046C	0.346363	RTG3	YEL046C|GLY1|S000000772|Threonine aldolase, catalyzes the cleavage of L-allo-threonine and L-threonine to glycine; involved in glycine biosynthesis
YOL140W	0.342579	RTG3	YOL140W|ARG8|S000005500|Acetylornithine aminotransferase, catalyzes the fourth step in the biosynthesis of the arginine precursor ornithine
YDR236C	0.341213	RTG3	YDR236C|FMN1|S000002644|Riboflavin kinase, phosphorylates riboflavin to form riboflavin monophosphate (FMN), which is a necessary cofactor for many enzymes; localizes to microsomes and to the mitochondrial inner membrane
YKL020C	0.339385	RTG3	YKL020C|SPT23|S000001503|ER membrane protein involved in regulation of OLE1 transcription, acts with homolog Mga2p; inactive ER form dimerizes and one subunit is then activated by ubiquitin/proteasome-dependent processing followed by nuclear targeting
YAL020C	0.338298	RTG3	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
YJL062W-A	0.335254	RTG3	YJL062W-A||S000007611|Putative protein of unknown function, identified based on comparison to related yeast species; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YBL050W	0.334816	RTG3	YBL050W|SEC17|S000000146|Peripheral membrane protein required for vesicular transport between ER and Golgi and for the 'priming' step in homotypic vacuole fusion, part of the cis-SNARE complex; has similarity to alpha-SNAP
YPR010C-A	0.334633	RTG3	YPR010C-A||S000122558|Putative protein of unknown function; conserved among Saccharomyces sensu stricto species
YOR113W	0.331459	RTG3	YOR113W|AZF1|S000005639|Zinc-finger transcription factor, involved in induction of CLN3 transcription in response to glucose; genetic and physical interactions indicate a possible role in mitochondrial transcription or genome maintenance
YPR030W	0.329925	RTG3	YPR030W|CSR2|S000006234|Nuclear protein with a potential regulatory role in utilization of galactose and nonfermentable carbon sources; overproduction suppresses the lethality at high temperature of a chs5 spa2 double null mutation; potential Cdc28p substrate
YDL079C	0.327642	RTG3	YDL079C|MRK1|S000002237|Glycogen synthase kinase 3 (GSK-3) homolog; one of four GSK-3 homologs in S. cerevisiae that function to activate Msn2p-dependent transcription of stress responsive genes and that function in protein degradation
YDR403W	0.327537	RTG3	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
YDL026W	0.326338	RTG3	YDL026W||S000002184|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data
YLR053C	0.320016	RTG3	YLR053C||S000004043|Putative protein of unknown function
YPR120C	0.319509	RTG3	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
YPL152W	0.318664	RTG3	YPL152W|RRD2|S000006073|Activator of the phosphotyrosyl phosphatase activity of PP2A,peptidyl-prolyl cis/trans-isomerase; regulates G1 phase progression, the osmoresponse, microtubule dynamics; subunit of the Tap42p-Pph21p-Rrd2p complex
YDR343C	0.317982	RTG3	YDR343C|HXT6|S000002751|High-affinity glucose transporter of the major facilitator superfamily, nearly identical to Hxt7p, expressed at high basal levels relative to other HXTs, repression of expression by high glucose requires SNF3
YDR368W	0.317929	RTG3	YDR368W|YPR1|S000002776|2-methylbutyraldehyde reductase, may be involved in isoleucine catabolism
YCL057C-A	0.316095	RTG3	YCL057C-A||S000007547|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YOR388C	0.315929	RTG3	YOR388C|FDH1|S000005915|NAD(+)-dependent formate dehydrogenase, may protect cells from exogenous formate
YFR027W	0.315669	RTG3	YFR027W|ECO1|S000001923|Acetyltransferase required for the establishment of sister chromatid cohesion during DNA replication and in response to double-strand breaks; also required for postreplicative double-strand break repair
YJL130C	0.315407	RTG3	YJL130C|URA2|S000003666|Bifunctional carbamoylphosphate synthetase (CPSase)-aspartate transcarbamylase (ATCase), catalyzes the first two enzymatic steps in the de novo biosynthesis of pyrimidines; both activities are subject to feedback inhibition by UTP
YDR281C	0.315323	RTG3	YDR281C|PHM6|S000002689|Protein of unknown function, expression is regulated by phosphate levels
YNL160W	0.314351	RTG3	YNL160W|YGP1|S000005104|Cell wall-related secretory glycoprotein; induced by nutrient deprivation-associated growth arrest and upon entry into stationary phase; may be involved in adaptation prior to stationary phase entry; has similarity to Sps100p
YEL010W	0.306545	RTG3	YEL010W||S000000736|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHR139C	0.306518	RTG3	YHR139C|SPS100|S000001181|Protein required for spore wall maturation; expressed during sporulation; may be a component of the spore wall
YLR094C	0.305839	RTG3	YLR094C|GIS3|S000004084|Protein of unknown function
YAL019W-A	0.300161	RTG3	YAL019W-A||S000028729|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YLR232W	0.296813	RTG3	YLR232W||S000004222|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene BNA5
YIL055C	0.295837	RTG3	YIL055C||S000001317|Putative protein of unknown function
YDL227C	0.295778	RTG3	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
YGR044C	0.294146	RTG3	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
YDL066W	0.294125	RTG3	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
YBR235W	0.293547	RTG3	YBR235W||S000000439|Putative ion transporter, similar to mammalian electroneutral Na(+)-(K+)-C1- cotransporter family; YBR235W is not an essential gene
YBR020W	0.292364	RTG3	YBR020W|GAL1|S000000224|Galactokinase, phosphorylates alpha-D-galactose to alpha-D-galactose-1-phosphate in the first step of galactose catabolism; expression regulated by Gal4p
YKL102C	0.291764	RTG3	YKL102C||S000001585|Dubious open reading frame unlikely to encode a functional protein; deletion confers sensitivity to citric acid; predicted protein would include a thiol-disulfide oxidoreductase active site
YGR087C	0.291266	RTG3	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
YPR064W	0.290607	RTG3	YPR064W||S000006268|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YMR124W	0.289857	RTG3	YMR124W||S000004731|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; interacts with Crm1p in two-hybrid assay; YMR124W is not an essential gene
YGL215W	0.289183	RTG3	YGL215W|CLG1|S000003183|Cyclin-like protein that interacts with Pho85p; has sequence similarity to G1 cyclins PCL1 and PCL2
YLR373C	0.28912	RTG3	YLR373C|VID22|S000004365|Glycosylated integral membrane protein localized to the plasma membrane; plays a role in fructose-1,6-bisphosphatase (FBPase) degradation; involved in FBPase transport from the cytosol to Vid (vacuole import and degradation) vesicles
YCR010C	0.287485	RTG3	YCR010C|ADY2|S000000603|Acetate transporter required for normal sporulation; phosphorylated in mitochondria
YOR389W	0.287012	RTG3	YOR389W||S000005916|Putative protein of unknown function; expression regulated by copper levels
YPR193C	0.285947	RTG3	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
YML098W	0.285672	RTG3	YML098W|TAF13|S000004564|TFIID subunit (19 kDa), involved in RNA polymerase II transcription initiation, similar to histone H4 with atypical histone fold motif of Spt3-like transcription factors
YPR013C	0.280345	RTG3	YPR013C||S000006217|Putative zinc finger protein; YPR013C is not an essential gene
YMR186W	0.280235	RTG3	YMR186W|HSC82|S000004798|Cytoplasmic chaperone of the Hsp90 family, redundant in function and nearly identical with Hsp82p, and together they are essential; expressed constitutively at 10-fold higher basal levels than HSP82 and induced 2-3 fold by heat shock
YOL126C	0.279216	RTG3	YOL126C|MDH2|S000005486|Cytoplasmic malate dehydrogenase, one of three isozymes that catalyze interconversion of malate and oxaloacetate; involved in the glyoxylate cycle and gluconeogenesis during growth on two-carbon compounds; interacts with Pck1p and Fbp1
YKL032C	0.279166	RTG3	YKL032C|IXR1|S000001515|Protein that binds DNA containing intrastrand cross-links formed by cisplatin, contains two HMG (high mobility group box) domains, which confer the ability to bend cisplatin-modified DNA; mediates aerobic transcriptional repression of COX5b
YOR024W	0.279009	RTG3	YOR024W||S000005550|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YHR112C	0.278421	RTG3	YHR112C||S000001154|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YLR278C	0.278379	RTG3	YLR278C||S000004268|Zinc-cluster protein; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; mutant shows moderate growth defect on caffeine; YLR278C is not an essential gene
YGR256W	0.277896	RTG3	YGR256W|GND2|S000003488|6-phosphogluconate dehydrogenase (decarboxylating), catalyzes an NADPH regenerating reaction in the pentose phosphate pathway; required for growth on D-glucono-delta-lactone
YDR440W	0.277689	RTG3	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
YDL027C	0.275885	RTG3	YDL027C||S000002185|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YDL027C is not an essential gene
YNL144C	0.274814	RTG3	YNL144C||S000005088|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies; YNL144C is not an essential gene
YCR030C	0.274803	RTG3	YCR030C|SYP1|S000000626|Protein with a potential role in actin cytoskeletal organization; overexpression suppresses a pfy1 (profilin) null mutation
YOL084W	0.27449	RTG3	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
YCR069W	0.273561	RTG3	YCR069W|CPR4|S000000665|Peptidyl-prolyl cis-trans isomerase (cyclophilin), catalyzes the cis-trans isomerization of peptide bonds N-terminal to proline residues; has a potential role in the secretory pathway
YBR016W	0.272782	RTG3	YBR016W||S000000220|Plasma membrane protein of unknown function; has similarity to hydrophilins, which are hydrophilic, glycine-rich proteins involved in the adaptive response to hyperosmotic conditions
YDR237W	0.268751	RTG3	YDR237W|MRPL7|S000002645|Mitochondrial ribosomal protein of the large subunit
YPL048W	0.26866	RTG3	YPL048W|CAM1|S000005969|Nuclear protein required for transcription of MXR1; binds the MXR1 promoter in the presence of other nuclear factors; binds calcium and phospholipids; has similarity to translational cofactor EF-1 gamma
YIL060W	0.268148	RTG3	YIL060W||S000001322|Putative protein of unknown function; mutant accumulates less glycogen than does wild type; YIL060W is not an essential gene
YDR379W	0.267723	RTG3	YDR379W|RGA2|S000002787|GTPase-activating protein for the polarity-establishment protein Cdc42p; implicated in control of septin organization, pheromone response, and haploid invasive growth; regulated by Pho85p and Cdc28p
YHR211W	0.266008	RTG3	YHR211W|FLO5|S000001254|Lectin-like cell wall protein (flocculin) involved in flocculation, binds to mannose chains on the surface of other cells, confers floc-forming ability that is chymotrypsin resistant but heat labile; similar to Flo1p
YHR042W	0.261125	RTG3	YHR042W|NCP1|S000001084|NADP-cytochrome P450 reductase; involved in ergosterol biosynthesis; associated and coordinately regulated with Erg11p
YNL285W	0.260955	RTG3	YNL285W||S000005229|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YPR202W	0.256499	RTG3	YPR202W||S000006406|Putative protein of unknown function with similarity to telomere-encoded helicases; YPR202W is not an essential gene; transcript is predicted to be spliced but there is no evidence that it is spliced in vivo
YBL086C	0.256273	RTG3	YBL086C||S000000182|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery
YNR047W	0.255604	RTG3	YNR047W||S000005330|Putative protein kinase that, when overexpressed, interferes with pheromone-induced growth arrest; localizes to the cytoplasm; potential Cdc28p substrate
YHR099W	0.25521	RTG3	YHR099W|TRA1|S000001141|Subunit of SAGA and NuA4 histone acetyltransferase complexes; interacts with acidic activators (e.g., Gal4p) which leads to transcription activation; similar to human TRRAP, which is a cofactor for c-Myc mediated oncogenic transformation
YFR023W	0.252691	RTG3	YFR023W|PES4|S000001919|Poly(A) binding protein, suppressor of DNA polymerase epsilon mutation, similar to Mip6p
YGR222W	0.250509	RTG3	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
YNL305C	0.250475	RTG3	YNL305C||S000005249|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YNL305C is not an essential gene
YPR023C	0.249845	RTG3	YPR023C|EAF3|S000006227|Esa1p-associated factor, nonessential component of the NuA4 acetyltransferase complex, homologous to Drosophila dosage compensation protein MSL3; plays a role in regulating Ty1 transposition
YJR152W	0.248432	RTG3	YJR152W|DAL5|S000003913|Allantoin permease; ureidosuccinate permease; expression is constitutive but sensitive to nitrogen catabolite repression
YIL102C	0.246408	RTG3	YIL102C||S000001364|Putative protein of unknown function
YDR031W	0.245695	RTG3	YDR031W|MIC14|S000002438|Mitochondrial intermembrane space cysteine motif protein of 14 kDa
YEL074W	0.245635	RTG3	YEL074W||S000000800|Hypothetical protein
YNL339C	0.242384	RTG3	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
YLL010C	0.239799	RTG3	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
YER075C	0.239613	RTG3	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
YOR285W	0.239518	RTG3	YOR285W||S000005811|Protein of unknown function, localized to the mitochondrial outer membrane
YOR350C	0.239249	RTG3	YOR350C|MNE1|S000005877|Mitochondrial protein similar to Lucilia illustris mitochondrial cytochrome oxidase
YOR186W	0.238671	RTG3	YOR186W||S000005712|Putative protein of unknown function; proper regulation of expression during heat stress is sphingolipid-dependent
YJL185C	0.238076	RTG3	YJL185C||S000003721|Putative protein of unknown function; mRNA is weakly cell cycle regulated, peaking in G2 phase; YJL185C is a non-essential gene
YDR061W	0.237439	RTG3	YDR061W||S000002468|Protein with similarity to ATP-binding cassette (ABC) transporter family members; lacks predicted membrane-spanning regions; transcriptionally activated by Yrm1p along with genes involved in multidrug resistance
YMR291W	0.237427	RTG3	YMR291W||S000004905|Putative kinase of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YMR291W is not an essential gene
YDR192C	0.237217	RTG3	YDR192C|NUP42|S000002600|Subunit of the nuclear pore complex (NPC) that localizes exclusively to the cytoplasmic side; involved in RNA export, most likely at a terminal step; interacts with Gle1p
YOR149C	0.2368	RTG3	YOR149C|SMP3|S000005675|Alpha 1,2-mannosyltransferase involved in glycosyl phosphatidyl inositol (GPI) biosynthesis; required for addition of the fourth, side branching mannose to the GPI core structure
YKR068C	0.235493	RTG3	YKR068C|BET3|S000001776|Hydrophilic protein that acts in conjunction with SNARE proteins in targeting and fusion of ER to Golgi transport vesicles; component of the TRAPP (transport protein particle) complex
YJL141C	0.233907	RTG3	YJL141C|YAK1|S000003677|Serine-threonine protein kinase that is part of a glucose-sensing system involved in growth control in response to glucose availability; translocates from the cytoplasm to the nucleus and phosphorylates Pop2p in response to a glucose signal
YOL051W	0.23217	RTG3	YOL051W|GAL11|S000005411|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; affects transcription by acting as target of activators and repressors
YMR069W	0.232002	RTG3	YMR069W|NAT4|S000004673|N alpha-acetyl-transferase, involved in acetylation of the N-terminal residues of histones H4 and H2A
YDR030C	0.227364	RTG3	YDR030C|RAD28|S000002437|Protein involved in DNA repair, related to the human CSA protein that is involved in transcription-coupled repair nucleotide excision repair
YLR378C	0.226623	RTG3	YLR378C|SEC61|S000004370|Essential subunit of Sec61 complex (Sec61p, Sbh1p, and Sss1p); forms a channel for SRP-dependent protein import and retrograde transport of misfolded proteins out of the ER; with Sec63 complex allows SRP-independent protein import into ER
YKR015C	0.225128	RTG3	YKR015C||S000001723|Putative protein of unknown function
YBL017C	0.224165	RTG3	YBL017C|PEP1|S000000113|Type I transmembrane sorting receptor for multiple vacuolar hydrolases; cycles between the late-Golgi and prevacuolar endosome-like compartments
YDR301W	0.221781	RTG3	YDR301W|CFT1|S000002709|RNA-binding subunit of the mRNA cleavage and polyadenylation factor; involved in poly(A) site recognition and required for both pre-mRNA cleavage and polyadenylation, 51% sequence similarity with mammalian AAUAA-binding subunit of CPSF
YFL031W	0.220736	RTG3	YFL031W|HAC1|S000001863|bZIP transcription factor (ATF/CREB1 homolog) that regulates the unfolded protein response, via UPRE binding, and membrane biogenesis; ER stress-induced splicing pathway utilizing Ire1p, Trl1p and Ada5p facilitates efficient Hac1p synthesis
YFL012W	0.220527	RTG3	YFL012W||S000001882|Putative protein of unknown function; transcribed during sporulation; null mutant exhibits increased resistance to rapamycin
YKL146W	0.220377	RTG3	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
YLR379W	0.220257	RTG3	YLR379W||S000004371|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the essential ORF SEC61/YLR378C
YDR516C	0.219969	RTG3	YDR516C|EMI2|S000002924|Non-essential protein of unknown function required for transcriptional induction of the early meiotic-specific transcription factor IME1; required for sporulation; expression is regulated by glucose-repression transcription factors Mig1/2p
YIR011C	0.219749	RTG3	YIR011C|STS1|S000001450|Protein that interacts with the karyopherin Srp1p; may have a role with Srp1p in ubiquitin-mediated protein degradation
YDR193W	0.219543	RTG3	YDR193W||S000002601|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YBR133C	0.218818	RTG3	YBR133C|HSL7|S000000337|Protein arginine N-methyltransferase that exhibits septin and Hsl1p-dependent bud neck localization and periodic Hsl1p-dependent phosphorylation; required along with Hsl1p for bud neck recruitment, phosphorylation, and degradation of Swe1p
YHR113W	0.218744	RTG3	YHR113W||S000001155|Cytoplasmic aspartyl aminopeptidase; cleaves unblocked N-terminal acidic amino acid residues from peptide substrates; forms a 12 subunit homo-oligomeric complex; M18 metalloprotease family member; may interact with ribosomes
YGR258C	0.218353	RTG3	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
YDR426C	0.218144	RTG3	YDR426C||S000002834|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified ORF SNX41
YGL187C	0.217208	RTG3	YGL187C|COX4|S000003155|Subunit IV of cytochrome c oxidase, which is the terminal member of the mitochondrial inner membrane electron transport chain; N-terminal 25 residues of precursor are cleaved during mitochondrial import; phosphorylated
YER099C	0.216404	RTG3	YER099C|PRS2|S000000901|5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes
YOL154W	0.216211	RTG3	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
YFR007W	0.211998	RTG3	YFR007W|YFH7|S000001903|Putative kinase with similarity to the phosphoribulokinase/uridine kinase/bacterial pantothenate kinase (PRK/URK/PANK) subfamily of P-loop kinases; null mutant displays decreased frequency of mitochondrial genome loss (petite formation)
YDR006C	0.211827	RTG3	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
YER190W	0.211691	RTG3	YER190W|YRF1-2|S000000992|Helicase encoded by the Y' element of subtelomeric regions, highly expressed in the mutants lacking the telomerase component TLC1; potentially phosphorylated by Cdc28p; induced by treatment with 8-methoxypsoralen and UVA irradiation
YBR085C-A	0.210573	RTG3	YBR085C-A||S000007522|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and to the nucleus
YNL142W	0.210424	RTG3	YNL142W|MEP2|S000005086|Ammonium permease involved in regulation of pseudohyphal growth; belongs to a ubiquitous family of cytoplasmic membrane proteins that transport only ammonium (NH4+); expression is under the nitrogen catabolite repression regulation
YGR088W	0.209893	RTG3	YGR088W|CTT1|S000003320|Cytosolic catalase T, has a role in protection from oxidative damage by hydrogen peroxide
YBR134W	0.208728	RTG3	YBR134W||S000000338|Dubious open reading frame, unlikely to encode a functional protein; based on available experimental and comparative sequence data
YJL186W	0.20867	RTG3	YJL186W|MNN5|S000003722|Alpha-1,2-mannosyltransferase, responsible for addition of the second alpha-1,2-linked mannose of the branches on the mannan backbone of oligosaccharides, localizes to an early Golgi compartment
YER185W	0.208287	RTG3	YER185W|PUG1|S000000987|Plasma membrane protein with roles in the uptake of protoprophyrin IX and the efflux of heme; expression is induced under both low-heme and low-oxygen conditions
YKL147C	0.207719	RTG3	YKL147C||S000001630|Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; partially overlaps the verified gene AVT3
YOR186C-A	0.207337	RTG3	YOR186C-A||S000028715|Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YGR230W	0.205039	RTG3	YGR230W|BNS1|S000003462|Protein with some similarity to Spo12p; overexpression bypasses need for Spo12p, but not required for meiosis
YBR284W	0.204678	RTG3	YBR284W||S000000488|Putative protein of unknown function; YBR284W is not an essential gene; null mutant exhibits decreased resistance to rapamycin and wortmannin
YML004C	0.204488	RTG3	YML004C|GLO1|S000004463|Monomeric glyoxalase I, catalyzes the detoxification of methylglyoxal (a by-product of glycolysis) via condensation with glutathione to produce S-D-lactoylglutathione; expression regulated by methylglyoxal levels and osmotic stress
YGL180W	0.203343	RTG3	YGL180W|ATG1|S000003148|Protein serine/threonine kinase required for vesicle formation in autophagy and the cytoplasm-to-vacuole targeting (Cvt) pathway; structurally required for pre-autophagosome formation; during autophagy forms a complex with Atg13p and Atg17p
YLR332W	0.201843	RTG3	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
YEL075C	0.201558	RTG3	YEL075C||S000000801|Putative protein of unknown function
YLL026W	0.201366	RTG3	YLL026W|HSP104|S000003949|Heat shock protein that cooperates with Ydj1p (Hsp40) and Ssa1p (Hsp70) to refold and reactivate previously denatured, aggregated proteins; responsive to stresses including: heat, ethanol, and sodium arsenite; involved in [PSI+] propagation
YJR061W	0.201277	RTG3	YJR061W||S000003822|Putative protein of unknown function; non-essential gene with similarity to Mnn4, a putative membrane protein involved in glycosylation; transcription repressed by Rm101p
YEL073C	0.200145	RTG3	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
YNL295W	0.198504	RTG3	YNL295W||S000005239|Putative protein of unknown function
YLL057C	0.198013	RTG3	YLL057C|JLP1|S000003980|Fe(II)-dependent sulfonate/alpha-ketoglutarate dioxygenase, involved in sulfonate catabolism for use as a sulfur source, contains sequence that closely resembles a J domain (typified by the E. coli DnaJ protein)
YLR331C	0.197962	RTG3	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
YLR267W	0.195113	RTG3	YLR267W|BOP2|S000004257|Protein of unknown function, overproduction suppresses a pam1 slv3 double null mutation
YGL033W	0.193151	RTG3	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
YLR236C	0.192839	RTG3	YLR236C||S000004226|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YOR292C	0.192701	RTG3	YOR292C||S000005818|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the vacuole; YOR292C is not an essential gene
YGL194C	0.192013	RTG3	YGL194C|HOS2|S000003162|Histone deacetylase required for gene activation via specific deacetylation of lysines in H3 and H4 histone tails; subunit of the Set3 complex, a meiotic-specific repressor of sporulation specific genes that contains deacetylase activity
YPR005C	0.191723	RTG3	YPR005C|HAL1|S000006209|Cytoplasmic protein involved in halotolerance; decreases intracellular Na+ (via Ena1p) and increases intracellular K+ by decreasing efflux; expression repressed by Ssn6p-Tup1p and Sko1p and induced by NaCl, KCl, and sorbitol through Gcn4p
YJL042W	0.190745	RTG3	YJL042W|MHP1|S000003578|Microtubule-associated protein involved in assembly and stabilization of microtubules; overproduction results in cell cycle arrest at G2 phase; similar to Drosophila protein MAP and to mammalian MAP4 proteins
YBR050C	0.189977	RTG3	YBR050C|REG2|S000000254|Regulatory subunit of the Glc7p type-1 protein phosphatase; involved with Reg1p, Glc7p, and Snf1p in regulation of glucose-repressible genes, also involved in glucose-induced proteolysis of maltose permease
YKR053C	0.187991	RTG3	YKR053C|YSR3|S000001761|Dihydrosphingosine 1-phosphate phosphatase, membrane protein involved in sphingolipid metabolism; has similarity to Lcb3p
YER035W	0.18783	RTG3	YER035W|EDC2|S000000837|RNA-binding protein, activates mRNA decapping directly by binding to the mRNA substrate and enhancing the activity of the decapping proteins Dcp1p and Dcp2p
YOR344C	0.187771	RTG3	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
YJR160C	0.187728	RTG3	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
YLR070C	0.186398	RTG3	YLR070C|XYL2|S000004060|Xylitol dehydrogenase, converts xylitol to D-xylulose in the endogenous xylose utilization pathway
YML025C	0.186335	RTG3	YML025C|YML6|S000004487|Mitochondrial ribosomal protein of the large subunit, has similarity to E. coli L4 ribosomal protein and human mitoribosomal MRP-L4 protein; essential for viability, unlike most other mitoribosomal proteins
YBR051W	0.185296	RTG3	YBR051W||S000000255|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partiallly overlaps the REG2/YBR050C regulatory subunit of the Glc7p type-1 protein phosphatase
YMR120C	0.185271	RTG3	YMR120C|ADE17|S000004727|Enzyme of 'de novo' purine biosynthesis containing both 5-aminoimidazole-4-carboxamide ribonucleotide transformylase and inosine monophosphate cyclohydrolase activities, isozyme of Ade16p; ade16 ade17 mutants require adenine and histidine
YOR150W	0.184858	RTG3	YOR150W|MRPL23|S000005676|Mitochondrial ribosomal protein of the large subunit
YDL021W	0.184515	RTG3	YDL021W|GPM2|S000002179|Homolog of Gpm1p phosphoglycerate mutase which converts 3-phosphoglycerate to 2-phosphoglycerate in glycolysis; may be non-functional derivative of a gene duplication event
YJL112W	0.183663	RTG3	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
YPL111W	0.182502	RTG3	YPL111W|CAR1|S000006032|Arginase, responsible for arginine degradation, expression responds to both induction by arginine and nitrogen catabolite repression; disruption enhances freeze tolerance
YBR018C	0.180713	RTG3	YBR018C|GAL7|S000000222|Galactose-1-phosphate uridyl transferase, synthesizes glucose-1-phosphate and UDP-galactose from UDP-D-glucose and alpha-D-galactose-1-phosphate in the second step of galactose catabolism
YGR238C	0.180248	RTG3	YGR238C|KEL2|S000003470|Protein that functions in a complex with Kel1p to negatively regulate mitotic exit, interacts with Tem1p and Lte1p; localizes to regions of polarized growth; potential Cdc28p substrate
YNR060W	0.180093	RTG3	YNR060W|FRE4|S000005343|Ferric reductase, reduces a specific subset of siderophore-bound iron prior to uptake by transporters; expression induced by low iron levels
YLR382C	0.179569	RTG3	YLR382C|NAM2|S000004374|Mitochondrial leucyl-tRNA synthetase, also has a direct role in splicing of several mitochondrial group I introns; indirectly required for mitochondrial genome maintenance
YGL056C	0.178844	RTG3	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
YLR235C	0.176917	RTG3	YLR235C||S000004225|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene TOP3
YOR066W	0.17578	RTG3	YOR066W|MSA1|S000005592|Activator of G1-specific transcription factors, MBF and SBF, that regulates both the timing of G1-specific gene transcription, and cell cycle initiation; potential Cdc28p substrate
YHL006W-A	0.1732	RTG3	YHL006W-A||S000028771|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDR077W	0.173062	RTG3	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
YNR063W	0.171523	RTG3	YNR063W||S000005346|Putative zinc-cluster protein of unknown function
YMR316C-B	0.171335	RTG3	YMR316C-B||S000004934|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YKR011C	0.170989	RTG3	YKR011C||S000001719|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus
YNR014W	0.170036	RTG3	YNR014W||S000005297|Putative protein of unknown function; expression is cell-cycle regulated, Azf1p-dependent, and heat-inducible
YDL049C	0.169271	RTG3	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
YCL025C	0.168121	RTG3	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)
YER184C	0.168117	RTG3	YER184C||S000000986|Putative zinc cluster protein; deletion confers sensitivity to Calcufluor white, and prevents growth on glycerol or lactate as sole carbon source
YBR212W	0.166566	RTG3	YBR212W|NGR1|S000000416|RNA binding protein that negatively regulates growth rate; interacts with the 3' UTR of the mitochondrial porin (POR1) mRNA and enhances its degradation; overexpression impairs mitochondrial function; expressed in stationary phase
YOR208W	0.165116	RTG3	YOR208W|PTP2|S000005734|Phosphotyrosine-specific protein phosphatase involved in the inactivation of mitogen-activated protein kinase (MAPK) during osmolarity sensing; dephosporylates Hog1p MAPK and regulates its localization; localized to the nucleus
YOR017W	0.164379	RTG3	YOR017W|PET127|S000005543|Protein with a role in 5'-end processing of mitochondrial RNAs, located in the mitochondrial membrane
YOL001W	0.164154	RTG3	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
YKR009C	0.1639	RTG3	YKR009C|FOX2|S000001717|Multifunctional enzyme of the peroxisomal fatty acid beta-oxidation pathway; has 3-hydroxyacyl-CoA dehydrogenase and enoyl-CoA hydratase activities
YNL197C	0.163289	RTG3	YNL197C|WHI3|S000005141|RNA binding protein that sequesters CLN3 mRNA in cytoplasmic foci; cytoplasmic retention factor for Cdc28p and associated cyclins; regulates cell fate and dose-dependently regulates the critical cell size required for passage through Start
YBR067C	0.163158	RTG3	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
YLR352W	0.163114	RTG3	YLR352W||S000004344|Putative protein of unknown function with similarity to F-box proteins; interacts with Skp1p and Cdc53p; YLR352W is not an essential gene
YPL150W	0.161671	RTG3	YPL150W||S000006071|Putative protein kinase of unknown cellular role
YKL198C	0.1614	RTG3	YKL198C|PTK1|S000001681|Putative serine/threonine protein kinase that regulates spermine uptake; involved in polyamine transport; possible mitochondrial protein
YOR190W	0.160535	RTG3	YOR190W|SPR1|S000005716|Sporulation-specific exo-1,3-beta-glucanase; contributes to ascospore thermoresistance
YIL037C	0.159829	RTG3	YIL037C|PRM2|S000001299|Pheromone-regulated protein, predicted to have 4 transmembrane segments and a coiled coil domain; regulated by Ste12p
YLR237W	0.159508	RTG3	YLR237W|THI7|S000004227|Plasma membrane transporter responsible for the uptake of thiamine, member of the major facilitator superfamily of transporters; mutation of human ortholog causes thiamine-responsive megaloblastic anemia
YOL159C	0.158921	RTG3	YOL159C||S000005519|Soluble protein of unknown function; deletion mutants are viable and have elevated levels of Ty1 retrotransposition and Ty1 cDNA
YDR191W	0.157688	RTG3	YDR191W|HST4|S000002599|Member of the Sir2 family of NAD(+)-dependent protein deacetylases; involved along with Hst3p in silencing at telomeres, cell cycle progression, radiation resistance, genomic stability and short-chain fatty acid metabolism
YBR071W	0.156652	RTG3	YBR071W||S000000275|Putative protein of unknown function; (GFP)-fusion and epitope-tagged proteins localize to the cytoplasm; mRNA expression may be regulated by the cell cycle and/or cell wall stress
YMR317W	0.155942	RTG3	YMR317W||S000004936|Putative protein of unknown function with some similarity to sialidase from Trypanosoma; YMR317W is not an essential gene
YDR223W	0.155462	RTG3	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
YGL173C	0.155404	RTG3	YGL173C|KEM1|S000003141|Evolutionarily-conserved 5'-3' exonuclease component of cytoplasmic processing (P) bodies involved in mRNA decay; plays a role in microtubule-mediated processes, filamentous growth, ribosomal RNA maturation, and telomere maintenance
YGR233C	0.155353	RTG3	YGR233C|PHO81|S000003465|Cyclin-dependent kinase (CDK) inhibitor, regulates Pho80p-Pho85p and Pcl7p-Pho85p cyclin-CDK complexes in response to phosphate levels; inhibitory activity for Pho80p-Pho85p requires myo-D-inositol heptakisphosphate (IP7) generated by Vip1p
YML083C	0.154264	RTG3	YML083C||S000004548|Putative protein of unknown function; strong increase in transcript abundance during anaerobic growth compared to aerobic growth; cells deleted for YML083C do not exhibit growth defects in anerobic or anaerobic conditions
YJL199C	0.154241	RTG3	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
YDR227W	0.153172	RTG3	YDR227W|SIR4|S000002635|Silent information regulator that, together with SIR2 and SIR3, is involved in assembly of silent chromatin domains at telomeres and the silent mating-type loci; potentially phosphorylated by Cdc28p; some alleles of SIR4 prolong lifespan
YBR114W	0.152234	RTG3	YBR114W|RAD16|S000000318|Protein that recognizes and binds damaged DNA in an ATP-dependent manner (with Rad7p) during nucleotide excision repair; subunit of Nucleotide Excision Repair Factor 4 (NEF4) and the Elongin-Cullin-Socs (ECS) ligase complex
YKR016W	0.151598	RTG3	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
YDR293C	0.151579	RTG3	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
YDR009W	0.150451	RTG3	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
YPL174C	0.150329	RTG3	YPL174C|NIP100|S000006095|Large subunit of the dynactin complex, which is involved in partitioning the mitotic spindle between mother and daughter cells; putative ortholog of mammalian p150(glued)
YOL128C	0.149868	RTG3	YOL128C|YGK3|S000005488|Protein kinase related to mammalian glycogen synthase kinases of the GSK-3 family; GSK-3 homologs (Mck1p, Rim11p, Mrk1p, Ygk3p) are involved in control of Msn2p-dependent transcription of stress responsive genes and in protein degradation
YAL066W	0.147481	RTG3	YAL066W||S000000061|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR259C	0.146325	RTG3	YDR259C|YAP6|S000002667|Putative basic leucine zipper (bZIP) transcription factor; overexpression increases sodium and lithium tolerance
YDR387C	0.145799	RTG3	YDR387C||S000002795|Putative transporter, member of the sugar porter family; YDR387C is not an essential gene
YAL056W	0.144367	RTG3	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
YPR174C	0.143275	RTG3	YPR174C||S000006378|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nuclear periphery; potential Cdc28p substrate
YLR399C	0.14325	RTG3	YLR399C|BDF1|S000004391|Protein involved in transcription initiation at TATA-containing promoters; associates with the basal transcription factor TFIID; contains two bromodomains; corresponds to the C-terminal region of mammalian TAF1; redundant with Bdf2p
YPL151C	0.142053	RTG3	YPL151C|PRP46|S000006072|Splicing factor that is found in the Cef1p subcomplex of the spliceosome
YDL024C	0.14108	RTG3	YDL024C|DIA3|S000002182|Protein of unknown function, involved in invasive and pseudohyphal growth
YDR085C	0.139449	RTG3	YDR085C|AFR1|S000002492|Alpha-factor pheromone receptor regulator, negatively regulates pheromone receptor signaling; required for normal mating projection (shmoo) formation; required for Spa2p to recruit Mpk1p to shmoo tip during mating; interacts with Cdc12p
YNL080C	0.139176	RTG3	YNL080C|EOS1|S000005024|Protein involved in N-glycosylation; deletion mutation confers sensitivity to exidative stress and shows synthetic lethality with mutations in the spindle checkpoint genes BUB3 and MAD1; YNL080C is not an essential gene
YER116C	0.139088	RTG3	YER116C|SLX8|S000000918|Subunit of the Slx5-Slx8 substrate-specific ubiquitin ligase complex; stimulated by prior attachment of SUMO to the substrate
YML009C-A	0.13754	RTG3	YML009C-A||S000004469|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YHR097C	0.137381	RTG3	YHR097C||S000001139|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and the nucleus
YGR204W	0.135719	RTG3	YGR204W|ADE3|S000003436|Cytoplasmic trifunctional enzyme C1-tetrahydrofolate synthase, involved in single carbon metabolism and required for biosynthesis of purines, thymidylate, methionine, and histidine
YIL013C	0.135122	RTG3	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
YLR086W	0.13422	RTG3	YLR086W|SMC4|S000004076|Subunit of the condensin complex, which reorganizes chromosomes during cell division, forms a stable complex with Smc2p that has ATP-hydrolyzing and DNA-binding activity and promotes knotting of circular DNA; potential Cdc28p substrate
YHR048W	0.133233	RTG3	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
YMR075W	0.13264	RTG3	YMR075W|RCO1|S000004680|Essential subunit of the histone deacetylase Rpd3S complex; interacts with Eaf3p
YPL082C	0.132292	RTG3	YPL082C|MOT1|S000006003|Essential abundant protein involved in regulation of transcription, removes Spt15p (TBP) from DNA via its C-terminal ATPase activity, forms a complex with TBP that binds TATA DNA with high affinity but with altered specificity
YER095W	0.130936	RTG3	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
YDL120W	0.130777	RTG3	YDL120W|YFH1|S000002278|Frataxin, regulates mitochondrial iron accumulation; interacts with Isu1p which promotes Fe-S cluster assembly; interacts with electron transport chain components and may influence respiration; human homolog involved in Friedrich's ataxia
YJL174W	0.130154	RTG3	YJL174W|KRE9|S000003710|Glycoprotein involved in cell wall beta-glucan assembly; null mutation leads to severe growth defects, aberrant multibudded morphology, and mating defects
YMR162C	0.130092	RTG3	YMR162C|DNF3|S000004772|Aminophospholipid translocase (flippase) that maintains membrane lipid asymmetry in post-Golgi secretory vessicles; localizes to the trans-Golgi network; likely involved in protein transport; type 4 P-type ATPase
YHR210C	0.129318	RTG3	YHR210C||S000001253|Putative protein of unknown function; non-essential gene; highly expressed under anaeorbic conditions; sequence similarity to aldose 1-epimerases such as GAL10
YKL112W	0.128498	RTG3	YKL112W|ABF1|S000001595|DNA binding protein with possible chromatin-reorganizing activity involved in transcriptional activation, gene silencing, and DNA replication and repair
YHR115C	0.128009	RTG3	YHR115C|DMA1|S000001157|Protein involved in ubiquitin ligation; plays a role in regulating spindle position and orientation; functionally redundant with Dma2p; orthologous to human RNF8 protein, also has sequence similarity to human Chfr.
YDL114W	0.127995	RTG3	YDL114W||S000002272|Putative protein of unknown function with similarity to acyl-carrier-protein reductases; YDL114W is not an essential gene
YKL067W	0.127276	RTG3	YKL067W|YNK1|S000001550|Nucleoside diphosphate kinase, catalyzes the transfer of gamma phosphates from nucleoside triphosphates, usually ATP, to nucleoside diphosphates by a mechanism that involves formation of an autophosphorylated enzyme intermediate
YBR215W	0.127066	RTG3	YBR215W|HPC2|S000000419|Subunit of the HIR complex, a nucleosome assembly complex involved in regulation of histone gene transcription; mutants display synthetic defects with subunits of FACT, a complex that allows passage of RNA Pol II through nucleosomes
YDR205W	0.126639	RTG3	YDR205W|MSC2|S000002613|Member of the cation diffusion facilitator family, localizes to the endoplasmic reticulum and nucleus; mutations affect the cellular distribution of zinc and also confer defects in meiotic recombination between homologous chromatids
YNL005C	0.126407	RTG3	YNL005C|MRP7|S000004950|Mitochondrial ribosomal protein of the large subunit
YJR159W	0.125626	RTG3	YJR159W|SOR1|S000003920|Sorbitol dehydrogenase; expression is induced in the presence of sorbitol
YLR204W	0.125529	RTG3	YLR204W|QRI5|S000004194|Mitochondrial inner membrane protein, required for accumulation of spliced COX1 mRNA; may have an additional role in translation of COX1 mRNA
YFL012W-A	0.125524	RTG3	YFL012W-A||S000002964|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene IES1/YFL013C
YFL013C	0.125329	RTG3	YFL013C|IES1|S000001881|Subunit of the INO80 chromatin remodeling complex
YNL239W	0.124914	RTG3	YNL239W|LAP3|S000005183|Cysteine aminopeptidase with homocysteine-thiolactonase activity; protects cells against homocysteine toxicity; has bleomycin hydrolase activity in vitro; transcription is regulated by galactose via Gal4p; orthologous to human BLMH
YLR425W	0.124852	RTG3	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
YNL143C	0.124607	RTG3	YNL143C||S000005087|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNR004W	0.124057	RTG3	YNR004W||S000005287|Putative protein of unknown function; haploid disruptant exhibits slow growth rate on glucose-minimal medium at 15 C
YML099C	0.123363	RTG3	YML099C|ARG81|S000004565|Zinc-finger transcription factor of the Zn(2)-Cys(6) binuclear cluster domain type, involved in the regulation of arginine-responsive genes; acts with Arg80p and Arg82p
YFR033C	0.122151	RTG3	YFR033C|QCR6|S000001929|Subunit 6 of the ubiquinol cytochrome-c reductase complex, which is a component of the mitochondrial inner membrane electron transport chain; highly acidic protein; required for maturation of cytochrome c1
YML009W-B	0.121318	RTG3	YML009W-B||S000004471|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data; deletion mutation confers an increase in Ty1 transposition
YOL160W	0.12043	RTG3	YOL160W||S000005520|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YKL159C	0.11917	RTG3	YKL159C|RCN1|S000001642|Protein involved in calcineurin regulation during calcium signaling; has similarity to H. sapiens DSCR1 which is found in the Down Syndrome candidate region
YHR135C	0.118594	RTG3	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
YPL191C	0.118297	RTG3	YPL191C||S000006112|Putative protein of unknown function; diploid deletion strain exhibits high budding index; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YKL139W	0.118131	RTG3	YKL139W|CTK1|S000001622|Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I), which phosphorylates the C-terminal repeated domain of the RNA polymerase II large subunit (Rpo21p) to affect both transcription and pre-mRNA 3' end processing
YDL243C	0.118053	RTG3	YDL243C|AAD4|S000002402|Putative aryl-alcohol dehydrogenase with similarity to P. chrysosporium aryl-alcohol dehydrogenase, involved in the oxidative stress response
YJR004C	0.117811	RTG3	YJR004C|SAG1|S000003764|Alpha-agglutinin of alpha-cells, binds to Aga1p during agglutination, N-terminal half is homologous to the immunoglobulin superfamily and contains binding site for a-agglutinin, C-terminal half is highly glycosylated and contains GPI anchor
YER098W	0.117719	RTG3	YER098W|UBP9|S000000900|Ubiquitin carboxyl-terminal hydrolase, ubiquitin-specific protease that cleaves ubiquitin-protein fusions
YBR207W	0.117634	RTG3	YBR207W|FTH1|S000000411|Putative high affinity iron transporter involved in transport of intravacuolar stores of iron; forms complex with Fet5p; expression is regulated by iron; proposed to play indirect role in endocytosis
YEL052W	0.117015	RTG3	YEL052W|AFG1|S000000778|Conserved protein that may act as a chaperone in the degradation of misfolded or unassembled cytochrome c oxidase subunits; localized to matrix face of the mitochondrial inner membrane; member of the AAA family but lacks a protease domain
YKL084W	0.116154	RTG3	YKL084W|HOT13|S000001567|Mitochondrial intermembrane space protein, first component of a pathway mediating assembly of small TIM (Translocase of the Inner Membrane) complexes which escort hydrophobic inner membrane proteins en route to the TIM22 complex
YBL060W	0.115956	RTG3	YBL060W|YEL1|S000000156|Guanine nucleotide exchange factor specific for Arf3p; localized to the bud neck and tip; required for localization of Arf3p to the bud neck and tip
YDR397C	0.115791	RTG3	YDR397C|NCB2|S000002805|Subunit of a heterodimeric NC2 transcription regulator complex with Bur6p; complex binds to TBP and can repress transcription by preventing preinitiation complex assembly or stimulate activated transcription; homologous to human NC2beta
YDR096W	0.115037	RTG3	YDR096W|GIS1|S000002503|JmjC domain-containing histone demethylase; transcription factor involved in the expression of genes during nutrient limitation; also involved in the negative regulation of DPP1 and PHR1
YEL064C	0.114329	RTG3	YEL064C|AVT2|S000000790|Putative transporter, member of a family of seven S. cerevisiae genes (AVT1-7) related to vesicular GABA-glycine transporters
YOR016C	0.113608	RTG3	YOR016C|ERP4|S000005542|Protein with similarity to Emp24p and Erv25p, member of the p24 family involved in ER to Golgi transport
YNL337W	0.110949	RTG3	YNL337W||S000005281|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YHL007C	0.110879	RTG3	YHL007C|STE20|S000000999|Signal transducing kinase of the PAK (p21-activated kinase) family, involved in pheromone response and pseudohyphal/invasive growth pathways, activated by Cdc42p; binds Ste4p at a GBB motif present in noncatalytic domains of PAK kinases
YEL060C	0.107726	RTG3	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
YDR220C	0.106809	RTG3	YDR220C||S000002628|Dubious open reading frame, null mutant exhibits synthetic phenotype with alpha-synuclein
YPR024W	0.106605	RTG3	YPR024W|YME1|S000006228|Subunit, with Mgr1p, of the mitochondrial inner membrane i-AAA protease complex, which is responsible for degradation of unfolded or misfolded mitochondrial gene products; mutation causes an elevated rate of mitochondrial turnover
YJL161W	0.10625	RTG3	YJL161W|FMP33|S000003697|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YGL044C	0.106171	RTG3	YGL044C|RNA15|S000003012|Cleavage and polyadenylation factor I (CF I) component involved in cleavage and polyadenylation of mRNA 3' ends; interacts with the A-rich polyadenylation signal in complex with Rna14p and Hrp1p
YGL043W	0.105907	RTG3	YGL043W|DST1|S000003011|General transcription elongation factor TFIIS, enables RNA polymerase II to read through blocks to elongation by stimulating cleavage of nascent transcripts stalled at transcription arrest sites
YBR177C	0.105565	RTG3	YBR177C|EHT1|S000000381|Acyl-coenzymeA:ethanol O-acyltransferase that plays a minor role in medium-chain fatty acid ethyl ester biosynthesis; possesses short-chain esterase activity; localizes to lipid particles and the mitochondrial outer membrane
YIL012W	0.104855	RTG3	YIL012W||S000001274|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YGR232W	0.104808	RTG3	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
YLR393W	0.104375	RTG3	YLR393W|ATP10|S000004385|Mitochondrial inner membrane protein required for assembly of the F0 sector of mitochondrial F1F0 ATP synthase, interacts genetically with ATP6
YIR016W	0.10406	RTG3	YIR016W||S000001455|Putative protein of unknown function; expression directly regulated by the metabolic and meiotic transcriptional regulator Ume6p; YIR016W is a non-essential gene
YLR381W	0.103522	RTG3	YLR381W|CTF3|S000004373|Outer kinetochore protein that forms a complex with Mcm16p and Mcm22p; may bind the kinetochore to spindle microtubules
YMR073C	0.103492	RTG3	YMR073C|IRC21|S000004677|Putative protein of unknown function; proposed to be involved in resistance to carboplatin and cisplatin; shares similarity to a human cytochrome oxidoreductase; null mutant displays increased levels of spontaneous Rad52p foci
YBL051C	0.10284	RTG3	YBL051C|PIN4|S000000147|Protein involved in G2/M phase progression and response to DNA damage, interacts with Rad53p; contains an RNA recognition motif, a nuclear localization signal, and several SQ/TQ cluster domains; hyperphosphorylated in response to DNA damage
YGL188C	0.102313	RTG3	YGL188C||S000003156|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YDL097C	0.102282	RTG3	YDL097C|RPN6|S000002255|Essential, non-ATPase regulatory subunit of the 26S proteasome lid required for the assembly and activity of the 26S proteasome; the human homolog (S9 protein) partially rescues Rpn6p depletion
YBR094W	0.102249	RTG3	YBR094W|PBY1|S000000298|Putative tubulin tyrosine ligase associated with P-bodies
YIL046W-A	0.102079	RTG3	YIL046W-A||S000028836|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YNL296W	0.100691	RTG3	YNL296W||S000005240|Dubious open reading frame unlikely to encode a functional protein; deletion adversely affects sporulation; deletion mutant exhibits synthetic phenotype under expression of mutant huntingtin fragment, but gene does not have human ortholog
YNR019W	0.100604	RTG3	YNR019W|ARE2|S000005302|Acyl-CoA:sterol acyltransferase, isozyme of Are1p; endoplasmic reticulum enzyme that contributes the major sterol esterification activity in the presence of oxygen
YDR160W	0.0999875	RTG3	YDR160W|SSY1|S000002567|Component of the SPS plasma membrane amino acid sensor system (Ssy1p-Ptr3p-Ssy5p), which senses external amino acid concentration and transmits intracellular signals that result in regulation of expression of amino acid permease genes
YMR310C	0.0997079	RTG3	YMR310C||S000004927|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus; YMR310C is not an essential gene
YHL041W	0.0996984	RTG3	YHL041W||S000001033|Dubious open reading frame unlikely to encode a protein, based on experimental and comparative sequence data
YDR352W	0.0995821	RTG3	YDR352W||S000002760|Putative protein of unknown function
YLL059C	0.0994696	RTG3	YLL059C||S000003982|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YER080W	0.0981434	RTG3	YER080W|AIM9|S000000882|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)
YGR194C	0.0973381	RTG3	YGR194C|XKS1|S000003426|Xylulokinase, converts D-xylulose and ATP to xylulose 5-phosphate and ADP; rate limiting step in fermentation of xylulose; required for xylose fermentation by recombinant S. cerevisiae strains
YKL157W	0.0960571	RTG3	YKL157W|APE2|S000001640|Zinc-dependent metallopeptidase yscII, may have a role in obtaining leucine from dipeptide substrates; sequence coordinates have changed since RT-PCR analysis showed that the adjacent ORF YKL158W comprises the 5' exon of APE2/YKL157W
YDR275W	0.0947767	RTG3	YDR275W|BSC2|S000002683|Protein of unknown function, ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
YIL036W	0.0934424	RTG3	YIL036W|CST6|S000001298|Basic leucine zipper (bZIP) transcription factor of the ATF/CREB family, activates transcription of genes involved in utilization of non-optimal carbon sources; involved in telomere maintenance
YNL232W	0.0931895	RTG3	YNL232W|CSL4|S000005176|Subunit of the exosome, which is an essential complex present in both nucleus and cytoplasm that mediates RNA processing and degradation
YFL061W	0.0921665	RTG3	YFL061W|DDI2|S000001833|Protein whose expression is induced by DNA damage
YER071C	0.0916076	RTG3	YER071C||S000000873|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YNL023C	0.0913979	RTG3	YNL023C|FAP1|S000004968|Protein that binds to Fpr1p (FKBP12), conferring rapamycin resistance by competing with rapamycin for Fpr1p binding; has similarity to putative transcription factors, including D. melanogaster shuttle craft and human NFX1
YCL039W	0.0910269	RTG3	YCL039W|GID7|S000000544|Protein of unknown function, involved in proteasome-dependent catabolite inactivation of fructose-1,6-bisphosphatase; contains six WD40 repeats; computational analysis suggests that Gid7p and Moh1p have similar functions
YGR126W	0.0903869	RTG3	YGR126W||S000003358|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
YOL085W-A	0.09018	RTG3	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
YJR059W	0.0872978	RTG3	YJR059W|PTK2|S000003820|Putative serine/threonine protein kinase involved in regulation of ion transport across plasma membrane; enhances spermine uptake
YBR060C	0.0869641	RTG3	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
YBR234C	0.0864531	RTG3	YBR234C|ARC40|S000000438|Subunit of the ARP2/3 complex, which is required for the motility and integrity of cortical actin patches
YML117W	0.0864386	RTG3	YML117W|NAB6|S000004585|Putative RNA-binding protein, based on computational analysis of large-scale protein-protein interaction data
YMR007W	0.0864096	RTG3	YMR007W||S000004609|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YKL175W	0.0862691	RTG3	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
YCR026C	0.0858344	RTG3	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
YOR187W	0.0858162	RTG3	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
YGR250C	0.0846547	RTG3	YGR250C||S000003482|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YIL054W	0.0843088	RTG3	YIL054W||S000001316|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YNR001C	0.0836779	RTG3	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
YGL236C	0.0821652	RTG3	YGL236C|MTO1|S000003205|Mitochondrial protein, forms a heterodimer complex with Mss1p that performs the 5-carboxymethylaminomethyl modification of the wobble uridine base in mitochondrial tRNAs; required for respiration in paromomycin-resistant 15S rRNA mutants
YFL042C	0.081347	RTG3	YFL042C||S000001852|Putative protein of unknown function; YFL042C is not an essential gene
YNL009W	0.0810543	RTG3	YNL009W|IDP3|S000004954|Peroxisomal NADP-dependent isocitrate dehydrogenase, catalyzes oxidation of isocitrate to alpha-ketoglutarate with the formation of NADP(H+), required for growth on unsaturated fatty acids
YDL246C	0.079543	RTG3	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
YBR070C	0.0795019	RTG3	YBR070C|ALG14|S000000274|Component of UDP-GlcNAc transferase required for the second step of dolichyl-linked oligosaccharide synthesis; anchors the catalytic subunit Alg13p to the ER membrane; similar to bacterial and human glycosyltransferases
YLR383W	0.0793386	RTG3	YLR383W|SMC6|S000004375|Protein involved in structural maintenance of chromosomes; essential subunit of Mms21-Smc5-Smc6 complex; required for growth, DNA repair, interchromosomal and sister chromatid recombination; homologous to S. pombe rad18
YOR068C	0.0791043	RTG3	YOR068C|VAM10|S000005594|Protein involved in vacuole morphogenesis; acts at an early step of homotypic vacuole fusion that is required for vacuole tethering
YML003W	0.0789925	RTG3	YML003W||S000004462|Putative protein of unknown function
YOR259C	0.0784365	RTG3	YOR259C|RPT4|S000005785|One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; required for spindle pole body duplication; localized mainly to the nucleus throughout the cell cycle
YKL151C	0.078012	RTG3	YKL151C||S000001634|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YOR037W	0.07758	RTG3	YOR037W|CYC2|S000005563|Mitochondrial peripheral inner membrane protein, contains a FAD cofactor in a domain exposed in the intermembrane space; exhibits redox activity in vitro; likely participates in ligation of heme to acytochromes c and c1 (Cyc1p and Cyt1p)
YBL022C	0.0767667	RTG3	YBL022C|PIM1|S000000118|ATP-dependent Lon protease, involved in degradation of misfolded proteins in mitochondria; required for biogenesis and maintenance of mitochondria
YDR032C	0.0763263	RTG3	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
YOR262W	0.0762615	RTG3	YOR262W||S000005788|Protein of unknown function required for establishment of sister chromatid cohesion; contains an ATP/GTP binding site motif; similar to YLR243W and is highly conserved across species and homologous to human gene GPN2/ATPBD1B
YDR141C	0.0762105	RTG3	YDR141C|DOP1|S000002548|Protein of unknown function, essential for viability, involved in establishing cellular polarity and morphogenesis; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YHR139C-A	0.07571	RTG3	YHR139C-A||S000003533|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YMR089C	0.0752081	RTG3	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
YNL223W	0.0751608	RTG3	YNL223W|ATG4|S000005167|Conserved cysteine protease required for autophagy; cleaves Atg8p to a form required for autophagosome and Cvt vesicle generation; mediates attachment of autophagosomes to microtubules through interactions with Tub1p and Tub2p
YNR048W	0.075153	RTG3	YNR048W||S000005331|Protein proposed to interact with phospholipid translocases, shares similarity to Cdc50p
YDL127W	0.0751522	RTG3	YDL127W|PCL2|S000002285|G1 cyclin, associates with Pho85p cyclin-dependent kinase (Cdk) to contribute to entry into the mitotic cell cycle, essential for cell morphogenesis; localizes to sites of polarized cell growth
YCR018C-A	0.0747105	RTG3	YCR018C-A||S000007230|Putative protein of unknown function; encoded opposite a Ty1 LTR
YCR086W	0.0736651	RTG3	YCR086W|CSM1|S000000682|Nucleolar protein that forms a complex with Lrs4p which binds Mam1p at kinetochores during meiosis I to mediate accurate chromosome segregation, may be involved in premeiotic DNA replication; possible role in telomere maintenance
YER010C	0.0725492	RTG3	YER010C||S000000812|Protein of unknown function, forms a ring-shaped homotrimer; has similarity to members of the prokaryotic rraA family; possibly involved in a phosphotransfer reaction
YBR178W	0.0724677	RTG3	YBR178W||S000000382|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps the verified gene YBR177C
YOR261C	0.0711899	RTG3	YOR261C|RPN8|S000005787|Essential, non-ATPase regulatory subunit of the 26S proteasome; has similarity to the human p40 proteasomal subunit and to another S. cerevisiae regulatory subunit, Rpn11p
YNL015W	0.0709677	RTG3	YNL015W|PBI2|S000004960|Cytosolic inhibitor of vacuolar proteinase B, required for efficient vacuole inheritance; with thioredoxin forms protein complex LMA1, which assists in priming SNARE molecules and promotes vacuole fusion
YNL048W	0.0706588	RTG3	YNL048W|ALG11|S000004993|Alpha-1,2-mannosyltransferase, catalyzes sequential addition of the two terminal alpha 1,2-mannose residues to the Man5GlcNAc2-PP-dolichol intermediate during asparagine-linked glycosylation in the ER
YOL052C	0.0706044	RTG3	YOL052C|SPE2|S000005412|S-adenosylmethionine decarboxylase, required for the biosynthesis of spermidine and spermine; cells lacking Spe2p require spermine or spermidine for growth in the presence of oxygen but not when grown anaerobically
YPL257W	0.0705698	RTG3	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
YCR001W	0.0701308	RTG3	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
YKL088W	0.0699527	RTG3	YKL088W||S000001571|Predicted phosphopantothenoylcysteine decarboxylase, may be involved in coenzyme A biosynthesis; interacts with Sis2p and Vhs3p
YGR039W	0.0688459	RTG3	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
YOR316C-A	0.0686181	RTG3	YOR316C-A||S000028584|Putative protein of unknown function; identified by fungal homology and RT-PCR
YPR070W	0.0676496	RTG3	YPR070W|MED1|S000006274|Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation
YOL055C	0.0675384	RTG3	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
YDR475C	0.0671325	RTG3	YDR475C|JIP4|S000002883|Protein of unknown function; previously annotated as two separate ORFs, YDR474C and YDR475C, which were merged as a result of corrections to the systematic reference sequence
YIR035C	0.0666139	RTG3	YIR035C||S000001474|Putative cytoplasmic protein of unknown function
YMR301C	0.0661445	RTG3	YMR301C|ATM1|S000004916|Mitochondrial inner membrane ATP-binding cassette (ABC) transporter, exports mitochondrially synthesized precursors of iron-sulfur (Fe/S) clusters to the cytosol
YIL103W	0.0660175	RTG3	YIL103W|DPH1|S000001365|Protein required, along with Dph2p, Kti11p, Jjj3p, and Dph5p, for synthesis of diphthamide, which is a modified histidine residue of translation elongation factor 2 (Eft1p or Eft2p); may act in a complex with Dph2p and Kti11p
YER074W-A	0.0659233	RTG3	YER074W-A|YOS1|S000007651|Integral membrane protein required for ER to Golgi transport; localized to the Golgi, the ER, and COPII vesicles; interacts with Yip1p and Yif1p
YER097W	0.0658426	RTG3	YER097W||S000000899|Dubious open reading frame unlikely to encode a functional protein, based on available experimental and comparative sequence data
YER133W-A	0.0645288	RTG3	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.
YKL210W	0.0645011	RTG3	YKL210W|UBA1|S000001693|Ubiquitin activating enzyme (E1), involved in ubiquitin-mediated protein degradation and essential for viability
YPL162C	0.0641085	RTG3	YPL162C||S000006083|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the membrane of vacuole with cell cycle-correlated morphology
YJL159W	0.0636209	RTG3	YJL159W|HSP150|S000003695|O-mannosylated heat shock protein that is secreted and covalently attached to the cell wall via beta-1,3-glucan and disulfide bridges; required for cell wall stability; induced by heat shock, oxidative stress, and nitrogen limitation
YDR402C	0.0635696	RTG3	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
YMR088C	0.0635509	RTG3	YMR088C|VBA1|S000004694|Permease of basic amino acids in the vacuolar membrane
YER072W	0.063463	RTG3	YER072W|VTC1|S000000874|Vacuolar transporter chaperon (VTC) involved in distributing V-ATPase and other membrane proteins; together with other VTC proteins, forms a heterotetrameric complex that associates with the SNARE Nyv1p and the V0 sector of the V-ATPase
YKL019W	0.0633068	RTG3	YKL019W|RAM2|S000001502|Alpha subunit of both the farnesyltransferase and type I geranylgeranyltransferase that catalyze prenylation of proteins containing a CAAX consensus motif; essential protein required for membrane localization of Ras proteins and a-factor
YDR459C	0.0626047	RTG3	YDR459C|PFA5|S000002867|Palmitoyltransferase with autoacylation activity; likely functions in pathway(s) outside Ras; member of a family of putative palmitoyltransferases containing an Asp-His-His-Cys-cysteine rich (DHHC-CRD) domain
YNR069C	0.0625746	RTG3	YNR069C|BSC5|S000005352|Protein of unknown function, ORF exhibits genomic organization compatible with a translational readthrough-dependent mode of expression
YCR050C	0.0620744	RTG3	YCR050C||S000000646|Non-essential protein of unknown function; deletion mutant is synthetically sick or lethal with alpha-synuclein
YER145C	0.060045	RTG3	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
YBR213W	0.0599818	RTG3	YBR213W|MET8|S000000417|Bifunctional dehydrogenase and ferrochelatase, involved in the biosynthesis of siroheme, a prosthetic group used by sulfite reductase; required for sulfate assimilation and methionine biosynthesis
YBR120C	0.0591652	RTG3	YBR120C|CBP6|S000000324|Mitochondrial translational activator of the COB mRNA; phosphorylated
YNL288W	0.0591524	RTG3	YNL288W|CAF40|S000005232|Evolutionarily conserved subunit of the CCR4-NOT complex involved in controlling mRNA initiation, elongation and degradation; binds Cdc39p
YHR090C	0.057062	RTG3	YHR090C|YNG2|S000001132|Subunit of the NuA4 histone acetyltransferase complex that acetylates histone H4 and H2A; has similarity to the human tumor suppressor ING1
YPR155C	0.0564635	RTG3	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
YPL203W	0.0553284	RTG3	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
YFR034C	0.0542893	RTG3	YFR034C|PHO4|S000001930|Basic helix-loop-helix (bHLH) transcription factor of the myc-family; binds cooperatively with Pho2p to the PHO5 promoter; function is regulated by phosphorylation at multiple sites and by phosphate availability
YLR363C	0.05393	RTG3	YLR363C|NMD4|S000004355|Protein interacting with Nam7p, may be involved in the nonsense-mediated mRNA decay pathway
YDR378C	0.0539162	RTG3	YDR378C|LSM6|S000002786|Lsm (Like Sm) protein; part of heteroheptameric complexes (Lsm2p-7p and either Lsm1p or 8p): cytoplasmic Lsm1p complex involved in mRNA decay; nuclear Lsm8p complex part of U6 snRNP and possibly involved in processing tRNA, snoRNA, and rRNA
YDL216C	0.0530466	RTG3	YDL216C|RRI1|S000002375|Catalytic subunit of the COP9 signalosome (CSN) complex that acts as an isopeptidase in cleaving the ubiquitin-like protein Nedd8 from SCF ubiquitin ligases; metalloendopeptidase involved in the adaptation to pheromone signaling
YKL150W	0.0525295	RTG3	YKL150W|MCR1|S000001633|Mitochondrial NADH-cytochrome b5 reductase, involved in ergosterol biosynthesis
YML084W	0.0521634	RTG3	YML084W||S000004549|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YOR070C	0.0518857	RTG3	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
YFR034W-A	0.051674	RTG3	YFR034W-A||S000028631|Dubious ORF unlikely to encode a protein, based on available experimental and comparative sequence data; partially overlaps YFR035C; identified by gene-trapping, microarray expression analysis, and genome-wide homology searching
YNL297C	0.0516168	RTG3	YNL297C|MON2|S000005241|Peripheral membrane protein with a role in endocytosis and vacuole integrity, interacts with Arl1p and localizes to the endosome; member of the Sec7p family of proteins
YGR247W	0.0509874	RTG3	YGR247W|CPD1|S000003479|Cyclic nucleotide phosphodiesterase, hydrolyzes ADP-ribose 1'', 2''-cyclic phosphate to ADP-ribose 1''-phosphate; may have a role in tRNA splicing; no detectable phenotype is conferred by null mutation or by overexpression
YMR074C	0.0505972	RTG3	YMR074C||S000004678|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the nucleus and cytoplasm; YMR074C is not an essential gene
YHR161C	0.0503764	RTG3	YHR161C|YAP1801|S000001204|Protein involved in clathrin cage assembly; binds Pan1p and clathrin; homologous to Yap1802p, member of the AP180 protein family
YGR246C	0.0481544	RTG3	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
YLR263W	0.0480826	RTG3	YLR263W|RED1|S000004253|Protein component of the axial elements of the synaptonemal complex, involved in chromosome segregation during the first meiotic division; interacts with Hop1p; required for wild-type levels of Mek1p kinase activity
YDL131W	0.0474647	RTG3	YDL131W|LYS21|S000002289|Homocitrate synthase isozyme, catalyzes the condensation of acetyl-CoA and alpha-ketoglutarate to form homocitrate, which is the first step in the lysine biosynthesis pathway; highly similar to the other isozyme, Lys20p
YDL115C	0.0460219	RTG3	YDL115C|IWR1|S000002273|Protein of unknown function, deletion causes hypersensitivity to the K1 killer toxin
YFL041W-A	0.0456435	RTG3	YFL041W-A||S000028547|Putative protein of unknown function; identified by fungal homology and RT-PCR
YMR258C	0.0452789	RTG3	YMR258C||S000004871|Protein of unknown function with similarity to F-box proteins; physically interacts with Skp1p; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YMR258C is not an essential gene
YOR060C	0.0448156	RTG3	YOR060C||S000005586|Protein of unknown function required for cell viability; deletion mutant harbors aberrant mitochondria
YGR150C	0.0443557	RTG3	YGR150C|DMR1|S000003382|Protein of unknown function, contains PPR motifs; mutant has growth defects on both non-fermentable carbon sources and rich medium; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDR242W	0.0440667	RTG3	YDR242W|AMD2|S000002650|Putative amidase
YGR224W	0.0440296	RTG3	YGR224W|AZR1|S000003456|Plasma membrane transporter of the major facilitator superfamily, involved in resistance to azole drugs such as ketoconazole and fluconazole
YLR114C	0.0437049	RTG3	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
YML130C	0.0436084	RTG3	YML130C|ERO1|S000004599|Thiol oxidase required for oxidative protein folding in the endoplasmic reticulum
YPL067C	0.0436077	RTG3	YPL067C||S000005988|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL067C is not an essential gene
YJR005W	0.0435855	RTG3	YJR005W|APL1|S000003765|Beta-adaptin, large subunit of the clathrin associated protein complex (AP-2); involved in vesicle mediated transport; similar to mammalian beta-chain of the clathrin associated protein complex
YNL335W	0.0422554	RTG3	YNL335W|DDI3|S000005279|Hypothetical protein
YDR388W	0.0414165	RTG3	YDR388W|RVS167|S000002796|Actin-associated protein, subunit of a complex (Rvs161p-Rvs167p) involved in regulation of actin cytoskeleton, endocytosis, and viability following starvation or osmotic stress; homolog of mammalian amphiphysin
YCR027C	0.041166	RTG3	YCR027C|RHB1|S000000622|Putative Rheb-related GTPase involved in regulating canavanine resistance and arginine uptake; member of the Ras superfamily of G-proteins
YPL173W	0.0407083	RTG3	YPL173W|MRPL40|S000006094|Mitochondrial ribosomal protein of the large subunit
YHR179W	0.039812	RTG3	YHR179W|OYE2|S000001222|Widely conserved NADPH oxidoreductase containing flavin mononucleotide (FMN), homologous to Oye3p with slight differences in ligand binding and catalytic properties; may be involved in sterol metabolism
YPR018W	0.0391473	RTG3	YPR018W|RLF2|S000006222|Largest subunit (p90) of the Chromatin Assembly Complex (CAF-1) with Cac2p and Msi1p that assembles newly synthesized histones onto recently replicated DNA; involved in the maintenance of transcriptionally silent chromatin
YGR056W	0.0390672	RTG3	YGR056W|RSC1|S000003288|Component of the RSC chromatin remodeling complex; required for expression of mid-late sporulation-specific genes; contains two essential bromodomains, a bromo-adjacent homology (BAH) domain, and an AT hook
YPR017C	0.037497	RTG3	YPR017C|DSS4|S000006221|Guanine nucleotide dissociation stimulator for Sec4p, functions in the post-Golgi secretory pathway; binds zinc, found both on membranes and in the cytosol
YHR037W	0.0373163	RTG3	YHR037W|PUT2|S000001079|Delta-1-pyrroline-5-carboxylate dehydrogenase, nuclear-encoded mitochondrial protein involved in utilization of proline as sole nitrogen source; deficiency of the human homolog causes HPII, an autosomal recessive inborn error of metabolism
YER100W	0.0372277	RTG3	YER100W|UBC6|S000000902|Ubiquitin-conjugating enzyme involved in ER-associated protein degradation; located at the cytosolic side of the ER membrane; tail region contains a transmembrane segment at the C-terminus; substrate of the ubiquitin-proteasome pathway
YML070W	0.0360717	RTG3	YML070W|DAK1|S000004535|Dihydroxyacetone kinase, required for detoxification of dihydroxyacetone (DHA); involved in stress adaptation
YPL135C-A	0.0360472	RTG3	YPL135C-A||S000028720|Identified by gene-trapping, microarray-based expression analysis, and genome-wide homology searching
YER078W-A	0.0359551	RTG3	YER078W-A||S000028546|Putative protein of unknown function; identified by fungal homology and RT-PCR
YMR030W	0.0359336	RTG3	YMR030W|RSF1|S000004632|Protein required for respiratory growth; localized to both the nucleus and mitochondrion; mutant displays decreased transcription of specific nuclear and mitochondrial genes whose products are involved in respiratory growth
YOL116W	0.0357722	RTG3	YOL116W|MSN1|S000005476|Transcriptional activator involved in regulation of invertase and glucoamylase expression, invasive growth and pseudohyphal differentiation, iron uptake, chromium accumulation, and response to osmotic stress; localizes to the nucleus
YLR077W	0.0357416	RTG3	YLR077W|FMP25|S000004067|Putative protein of unknown function; the authentic, non-tagged protein is detected in highly purified mitochondria in high-throughput studies
YDR436W	0.034944	RTG3	YDR436W|PPZ2|S000002844|Serine/threonine protein phosphatase Z, isoform of Ppz1p; involved in regulation of potassium transport, which affects osmotic stability, cell cycle progression, and halotolerance
YNL309W	0.0348428	RTG3	YNL309W|STB1|S000005253|Protein with a role in regulation of MBF-specific transcription at Start, phosphorylated by Cln-Cdc28p kinases in vitro; unphosphorylated form binds Swi6p and binding is required for Stb1p function; expression is cell-cycle regulated
YLL058W	0.0347367	RTG3	YLL058W||S000003981|Putative protein of unknown function with similarity to Str2p, which is a cystathionine gamma-synthase important in sulfur metabolism; YLL058W is not an essential gene
YCR085W	0.034705	RTG3	YCR085W||S000000681|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YMR179W	0.033102	RTG3	YMR179W|SPT21|S000004791|Protein required for normal transcription at several loci including HTA2-HTB2 and HHF2-HHT2, but not required at the other histone loci; functionally related to Spt10p; involved in telomere maintenance
YPR115W	0.0330028	RTG3	YPR115W|GCA1|S000006319|Pleckstrin homology domain containing protein proposed to function as a glycerol channel activator; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm
YML035C	0.0328629	RTG3	YML035C|AMD1|S000004498|AMP deaminase, tetrameric enzyme that catalyzes the deamination of AMP to form IMP and ammonia; may be involved in regulation of intracellular adenine nucleotide pools
YER056C	0.0322795	RTG3	YER056C|FCY2|S000000858|Purine-cytosine permease, mediates purine (adenine, guanine, and hypoxanthine) and cytosine accumulation
YGR260W	0.0318158	RTG3	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)
YNL324W	0.03115	RTG3	YNL324W||S000005268|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YMR140W	0.0309961	RTG3	YMR140W|SIP5|S000004748|Protein of unknown function; interacts with both the Reg1p/Glc7p phosphatase and the Snf1p kinase
YNL070W	0.0308416	RTG3	YNL070W|TOM7|S000005014|Component of the TOM (translocase of outer membrane) complex responsible for recognition and initial import steps for all mitochondrially directed proteins; promotes assembly and stability of the TOM complex
YJR130C	0.0305356	RTG3	YJR130C|STR2|S000003891|Cystathionine gamma-synthase, converts cysteine into cystathionine
YBL068W	0.0302979	RTG3	YBL068W|PRS4|S000000164|5-phospho-ribosyl-1(alpha)-pyrophosphate synthetase, synthesizes PRPP, which is required for nucleotide, histidine, and tryptophan biosynthesis; one of five related enzymes, which are active as heteromultimeric complexes
YDR460W	0.0295552	RTG3	YDR460W|TFB3|S000002868|Subunit of TFIIH and nucleotide excision repair factor 3 complexes, involved in transcription initiation, required for nucleotide excision repair; ring finger protein similar to mammalian CAK and TFIIH subunit
YPR022C	0.0295287	RTG3	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
YOL018C	0.0290202	RTG3	YOL018C|TLG2|S000005378|Syntaxin-like t-SNARE that forms a complex with Tlg1p and Vti1p and mediates fusion of endosome-derived vesicles with the late Golgi; binds Vps45p, which prevents Tlg2p degradation and also facilitates t-SNARE complex formation
YDR389W	0.0287657	RTG3	YDR389W|SAC7|S000002797|GTPase activating protein (GAP) for Rho1p, involved in signaling to the actin cytoskeleton, null mutations suppress tor2 mutations and temperature sensitive mutations in actin; potential Cdc28p substrate
YLR115W	0.0284505	RTG3	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.
YDR268W	0.0283393	RTG3	YDR268W|MSW1|S000002676|Mitochondrial tryptophanyl-tRNA synthetase
YPR159W	0.0274903	RTG3	YPR159W|KRE6|S000006363|Protein required for beta-1,6 glucan biosynthesis; putative beta-glucan synthase; appears functionally redundant with Skn1p
YPL110C	0.0273962	RTG3	YPL110C|GDE1|S000006031|Glycerophosphocholine (GroPCho) phosphodiesterase; hydrolyzes GroPCho to choline and glycerolphosphate, for use as a phosphate source and as a precursor for phosphocholine synthesis; may interact with ribosomes
YBR208C	0.0269436	RTG3	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
YKL079W	0.0266892	RTG3	YKL079W|SMY1|S000001562|Protein that interacts with Myo2p, proposed to be involved in exocytosis; N-terminal domain is related to the motor domain of kinesins
YNL049C	0.0265832	RTG3	YNL049C|SFB2|S000004994|Probable component of COPII coated vesicles that binds to Sec23p; similar to and functionally redundant with Sec24p, but expressed at low levels; involved in ER to Golgi transport and in autophagy
YJL176C	0.0261898	RTG3	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
YPR002C-A	0.0259961	RTG3	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
YPL009C	0.025635	RTG3	YPL009C||S000005930|Protein of unknown function; may interact with ribosomes, based on co-purification experiments; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YPL009C is not an essential gene
YCL057W	0.0255588	RTG3	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
YIL032C	0.0252247	RTG3	YIL032C||S000001294|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data
YDR024W	0.0250072	RTG3	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
YGR154C	0.0244974	RTG3	YGR154C|GTO1|S000003386|Omega-class glutathione transferase; induced under oxidative stress; putative peroxisomal localization
YMR136W	0.0234046	RTG3	YMR136W|GAT2|S000004744|Protein containing GATA family zinc finger motifs; similar to Gln3p and Dal80p; expression repressed by leucine
YFL039C	0.0232881	RTG3	YFL039C|ACT1|S000001855|Actin, structural protein involved in cell polarization, endocytosis, and other cytoskeletal functions
YLR354C	0.0225413	RTG3	YLR354C|TAL1|S000004346|Transaldolase, enzyme in the non-oxidative pentose phosphate pathway; converts sedoheptulose 7-phosphate and glyceraldehyde 3-phosphate to erythrose 4-phosphate and fructose 6-phosphate
YGR143W	0.021686	RTG3	YGR143W|SKN1|S000003375|Protein involved in sphingolipid biosynthesis; type II membrane protein with similarity to Kre6p
YLL025W	0.0212721	RTG3	YLL025W|PAU17|S000003948|Putative protein of unknown function; YLL025W is not an essential gene
YDR219C	0.0206956	RTG3	YDR219C|MFB1|S000002627|Mitochondria-associated F-box protein involved in maintenance of normal mitochondrial morphology; interacts with Skp1p through the F-box motif; preferentially localizes to the mother cell during budding
YHL019W-A	0.0203018	RTG3	YHL019W-A||S000028772|Dubious open reading frame unlikely to encode a protein, based on available experimental and comparative sequence data; overlaps the verified gene APM2/YHL019C
YPR149W	0.0200417	RTG3	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)
YKL208W	0.02003	RTG3	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
YNL325C	0.0190199	RTG3	YNL325C|FIG4|S000005269|Polyphosphatidylinositol phosphatase involved in the metabolism of phosphatidylinositol 3,5-bisphosphate (PI(3,5)P2); required for efficient mating; physically associates with and regulated by Vac14p; contains a SAC1-like domain
YNL254C	0.0189763	RTG3	YNL254C|RTC4|S000005198|Hypothetical protein; null mutation suppresses cdc13-1 temperature sensitivity
YPR072W	0.0174779	RTG3	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
YKL176C	0.0172457	RTG3	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
YLR360W	0.016517	RTG3	YLR360W|VPS38|S000004352|Part of a Vps34p phosphatidylinositol 3-kinase complex that functions in carboxypeptidase Y (CPY) sorting; binds Vps30p and Vps34p to promote production of phosphatidylinositol 3-phosphate (PtdIns3P) which stimulates kinase activity
YDL144C	0.0162292	RTG3	YDL144C||S000002303|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm and nucleus; YDL144C is not an essential gene.
YKL050C	0.0159864	RTG3	YKL050C||S000001533|Protein of unknown function; the YKL050W protein is a target of the SCFCdc4 ubiquitin ligase complex and YKL050W transcription is regulated by Azf1p
YNL054W	0.0152249	RTG3	YNL054W|VAC7|S000004999|Integral vacuolar membrane protein involved in vacuole inheritance and morphology; activates Fab1p kinase activity under basal conditions and also after hyperosmotic shock
YDR300C	0.0148981	RTG3	YDR300C|PRO1|S000002708|Gamma-glutamyl kinase, catalyzes the first step in proline biosynthesis
YLR392C	0.014889	RTG3	YLR392C||S000004384|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YLR392C is not an essential gene
YBL107C	0.0141134	RTG3	YBL107C||S000000203|Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm; YBL107C is not an essential gene
YMR316W	0.0140771	RTG3	YMR316W|DIA1|S000004935|Protein of unknown function, involved in invasive and pseudohyphal growth; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern
YMR084W	0.0138617	RTG3	YMR084W||S000004689|Putative protein of unknown function; YMR084W and adjacent ORF YMR085W are merged in related strains
YNL310C	0.0133717	RTG3	YNL310C|ZIM17|S000005254|Heat shock protein with a zinc finger motif; essential for protein import into mitochondria; may act with Pam18p to facilitate recognition and folding of imported proteins by Ssc1p (mtHSP70) in the mitochondrial matrix
YPR145W	0.0133132	RTG3	YPR145W|ASN1|S000006349|Asparagine synthetase, isozyme of Asn2p; catalyzes the synthesis of L-asparagine from L-aspartate in the asparagine biosynthetic pathway
YAL024C	0.0126187	RTG3	YAL024C|LTE1|S000000022|Putative GDP/GTP exchange factor required for mitotic exit at low temperatures; acts as a guanine nucleotide exchange factor (GEF) for Tem1p, which is a key regulator of mitotic exit; physically associates with Ras2p-GTP
YKL037W	0.0122703	RTG3	YKL037W|AIM26|S000001520|Putative protein of unknown function; null mutant is viable and displays increased frequency of mitochondrial genome loss (petite formation)
YNR006W	0.0121872	RTG3	YNR006W|VPS27|S000005289|Endosomal protein that forms a complex with Hse1p; required for recycling Golgi proteins, forming lumenal membranes and sorting ubiquitinated proteins destined for degradation; has Ubiquitin Interaction Motifs which bind ubiquitin (Ubi4p)
YOL045W	0.0118907	RTG3	YOL045W|PSK2|S000005405|One of two (see also PSK1) PAS domain containing S/T protein kinases; regulates sugar flux and translation in response to an unknown metabolite by phosphorylating Ugp1p and Gsy2p (sugar flux) and Caf20p, Tif11p and Sro9p (translation)
YJL063C	0.011456	RTG3	YJL063C|MRPL8|S000003599|Mitochondrial ribosomal protein of the large subunit
YGR146C-A	0.0112896	RTG3	YGR146C-A||S000028638|Putative protein of unknown function
YDR221W	0.0111561	RTG3	YDR221W|GTB1|S000002629|Glucosidase II beta subunit, forms a complex with alpha subunit Rot2p, involved in removal of two glucose residues from N-linked glycans during glycoprotein biogenesis in the ER
YJL175W	0.0109098	RTG3	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
YBL029C-A	0.0105282	RTG3	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
YOR237W	0.0103523	RTG3	YOR237W|HES1|S000005763|Protein implicated in the regulation of ergosterol biosynthesis; one of a seven member gene family with a common essential function and non-essential unique functions; similar to human oxysterol binding protein (OSBP)
YDR285W	0.00900409	RTG3	YDR285W|ZIP1|S000002693|Transverse filament protein of the synaptonemal complex; required for normal levels of meiotic recombination and pairing between homologous chromosome during meiosis; potential Cdc28p substrate
YCR024C-B	0.00893014	RTG3	YCR024C-B||S000028818|Putative protein of unknown function; identified by expression profiling and mass spectrometry
YHR001W	0.00812376	RTG3	YHR001W|OSH7|S000001043|Member of an oxysterol-binding protein family with seven members in S. cerevisiae; family members have overlapping, redundant functions in sterol metabolism and collectively perform a function essential for viability
YCR066W	0.00810487	RTG3	YCR066W|RAD18|S000000662|Protein involved in postreplication repair; binds single-stranded DNA and has single-stranded DNA dependent ATPase activity; forms heterodimer with Rad6p; contains RING-finger motif
YKL068W	0.00748238	RTG3	YKL068W|NUP100|S000001551|Subunit of the nuclear pore complex (NPC) that is localized to both sides of the pore; contains a repetitive GLFG motif that interacts with mRNA export factor Mex67p and with karyopherin Kap95p; homologous to Nup116p
YGL197W	0.00741799	RTG3	YGL197W|MDS3|S000003165|Protein with an N-terminal kelch-like domain, putative negative regulator of early meiotic gene expression; required, with Pmd1p, for growth under alkaline conditions
YNL004W	0.00722154	RTG3	YNL004W|HRB1|S000004949|Poly(A+) RNA-binding protein, involved in the export of mRNAs from the nucleus to the cytoplasm; similar to Gbp2p and Npl3p
YLR187W	0.00714617	RTG3	YLR187W|SKG3|S000004177|Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cell periphery, cytoplasm, bud, and bud neck; potential Cdc28p substrate; similar to Caf120p and Skg4p
YLR255C	0.00630301	RTG3	YLR255C||S000004245|Dubious ORF unlikely to encode a functional protein, based on available experimental and comparative sequence data
YBL061C	0.0062452	RTG3	YBL061C|SKT5|S000000157|Activator of Chs3p (chitin synthase III), recruits Chs3p to the bud neck via interaction with Bni4p; has similarity to Shc1p, which activates Chs3p during sporulation
YKR106W	0.00552906	RTG3	YKR106W||S000001814|Protein of unconfirmed function; displays a topology characteristic of the Major Facilitators Superfamily of membrane proteins; coding sequence 98% identical to that of YCL073C
YMR316C-A	0.00523621	RTG3	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
YAR003W	0.00509187	RTG3	YAR003W|SWD1|S000000064|Subunit of the COMPASS (Set1C) complex, which methylates histone H3 on lysine 4 and is required in transcriptional silencing near telomeres; WD40 beta propeller superfamily member with similarity to mammalian Rbbp7
YDR253C	0.00498412	RTG3	YDR253C|MET32|S000002661|Zinc-finger DNA-binding protein, involved in transcriptional regulation of the methionine biosynthetic genes, similar to Met31p
YCR084C	0.00451307	RTG3	YCR084C|TUP1|S000000680|General repressor of transcription, forms complex with Cyc8p, involved in the establishment of repressive chromatin structure through interactions with histones H3 and H4, appears to enhance expression of some genes
YLR027C	0.00402457	RTG3	YLR027C|AAT2|S000004017|Cytosolic aspartate aminotransferase, involved in nitrogen metabolism; localizes to peroxisomes in oleate-grown cells
YBR115C	0.00287739	RTG3	YBR115C|LYS2|S000000319|Alpha aminoadipate reductase, catalyzes the reduction of alpha-aminoadipate to alpha-aminoadipate 6-semialdehyde, which is the fifth step in biosynthesis of lysine; activation requires posttranslational phosphopantetheinylation by Lys5p
YGR038W	0.00262791	RTG3	YGR038W|ORM1|S000003270|Evolutionarily conserved protein with similarity to Orm2p, required for resistance to agents that induce the unfolded protein response; human ortholog is located in the endoplasmic reticulum
YOR317W	0.00156026	RTG3	YOR317W|FAA1|S000005844|Long chain fatty acyl-CoA synthetase with a preference for C12:0-C16:0 fatty acids; involved in the activation of imported fatty acids; localized to both lipid particles and mitochondrial outer membrane; essential for stationary phase
YBR209W	0.00147571	RTG3	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
YDL193W	0.00064547	RTG3	YDL193W|NUS1|S000002352|Prenyltransferase, required for cell viability; involved in protein trafficking
