| ID | Symbol | Description | Aliases |
| YDL185W | TFP1 | Vacuolar ATPase V1 domain subunit A containing the catalytic nucleotide binding sites; protein precursor undergoes self-catalyzed splicing to yield the extein Tfp1p and the intein Vde (PI-SceI), which is a site-specific endonuclease | CLS8, VMA1 | |
| YPL002C | SNF8 | Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome; appears to be functionally related to SNF7; involved in glucose derepression | VPS22 | |
| YCR093W | CDC39 | Component of the CCR4-NOT complex, which has multiple roles in regulating mRNA levels including regulation of transcription and destabilizing mRNAs by deadenylation; basal transcription factor | NOT1, ROS1, SMD6 | |
| YDR388W | RVS167 | 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 | | |
| YDR369C | XRS2 | Protein required for DNA repair; component of the Mre11 complex, which is involved in double strand breaks, meiotic recombination, telomere maintenance, and checkpoint signaling | | |
| YDL101C | DUN1 | Cell-cycle checkpoint serine-threonine kinase required for DNA damage-induced transcription of certain target genes, phosphorylation of Rad55p and Sml1p, and transient G2/M arrest after DNA damage; also regulates postreplicative DNA repair | | |
| YMR077C | VPS20 | Myristoylated subunit of ESCRTIII, the endosomal sorting complex required for transport of transmembrane proteins into the multivesicular body pathway to the lysosomal/vacuolar lumen; cytoplasmic protein recruited to endosomal membranes | CHM6 | |
| YOR209C | NPT1 | Nicotinate phosphoribosyltransferase, acts in the salvage pathway of NAD+ biosynthesis; required for silencing at rDNA and telomeres and has a role in silencing at mating-type loci; localized to the nucleus | | |
| YML032C | RAD52 | Protein that stimulates strand exchange by facilitating Rad51p binding to single-stranded DNA; anneals complementary single-stranded DNA; involved in the repair of double-strand breaks in DNA during vegetative growth and meiosis | | |
| YGR086C | PIL1 | Long chain base-responsive inhibitor of protein kinases Pkh1p and Pkh2p, acts along with Lsp1p to down-regulate heat stress resistance via regulation of the Pkc1p and Ypk1p pathways; phosphorylated by Phk1p and Phk2p | | |
| YJR144W | MGM101 | Protein involved in mitochondrial genome maintenance; component of the mitochondrial nucleoid, required for the repair of oxidative mtDNA damage | MGM9 | |
| YMR224C | MRE11 | Subunit of a complex with Rad50p and Xrs2p (RMX complex) that functions in repair of DNA double-strand breaks and in telomere stability, exhibits nuclease activity that appears to be required for RMX function; widely conserved | NGS1, RAD58, XRS4 | |
| YIR009W | MSL1 | U2B component of U2 snRNP, involved in splicing, binds the U2 snRNA stem-loop IV in vitro; does not contain the conserved C-terminal RNA binding domain found in other family members | YIB9, YIB9w | |
| YGL178W | MPT5 | Protein that specifically binds to mRNAs encoding chromatin modifiers and spindle pole body components; has roles in longevity, in maintenance of cell wall integrity, and in sensitivity to and recovery from pheromone arrest | HTR1, PUF5, UTH4 | |
| YOR038C | HIR2 | Non-essential transcriptional corepressor involved in the cell cycle-regulated transcription of histone H2A, H2B, H3, and H4 genes; recruits Swi-Snf complexes to histone gene promoters; promotes heterochromatic gene silencing with Asf1p | SPT1 | |
| YBR073W | RDH54 | 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 mitosis and meiosis; proposed to be involved in crossover interference | TID1 | |
| YJL148W | RPA34 | RNA polymerase I subunit A34.5 | A34.5 | |
| YCR009C | RVS161 | Amphiphysin-like lipid raft protein; subunit of a complex (Rvs161p-Rvs167p) that regulates polarization of the actin cytoskeleton, endocytosis, cell polarity, cell fusion and viability following starvation or osmotic stress | END6, FUS7, SPE161 | |
| YER111C | SWI4 | 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 | ART1 | |
| YBR231C | SWC5 | Protein of unknown function, component of the Swr1p complex that incorporates Htz1p into chromatin | AOR1 | |
| YOR151C | RPB2 | RNA polymerase II second largest subunit B150, part of central core; similar to bacterial beta subunit | B150, RPB150, RPO22, SIT2, SOH2 | |
| YDR443C | SSN2 | Protein required for stable association of Srb10p-Srb11p kinase with RNA polymerase holoenzyme; subunit of the RNA polymerase II mediator complex; essential for transcriptional regulation | MED13, NUT8, RYE3, SCA1, SRB9, UME2 | |
| YDR359C | VID21 | Component of the NuA4 histone acetyltransferase complex | EAF1 | |
| YDR386W | MUS81 | Helix-hairpin-helix protein, involved in DNA repair and replication fork stability; functions as an endonuclease in complex with Mms4p; interacts with Rad54p | SLX3 | |
| YGL127C | SOH1 | Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; involved in telomere maintenance; conserved with other metazoan MED31 subunits | MED31 | |
| YLR182W | SWI6 | Transcription cofactor, forms complexes with DNA-binding proteins Swi4p and Mbp1p to regulate transcription at the G1/S transition; involved in meiotic gene expression; localization regulated by phosphorylation; potential Cdc28p substrate | PSL8, SDS11 | |
| YNL107W | YAF9 | Subunit of both the NuA4 histone H4 acetyltransferase complex and the SWR1 complex, may function to antagonize silencing near telomeres; interacts directly with Swc4p, has homology to human leukemogenic protein AF9, contains a YEATS domain | | |
| YPL084W | BRO1 | Cytoplasmic class E vacuolar protein sorting (VPS) factor that coordinates deubiquitination in the multivesicular body (MVB) pathway by recruiting Doa4p to endosomes | ASI6, LPF2, NPI3, VPS31 | |
| YNL250W | RAD50 | Subunit of MRX complex, with Mre11p and Xrs2p, involved in processing double-strand DNA breaks in vegetative cells, initiation of meiotic DSBs, telomere maintenance, and nonhomologous end joining | | |
| YLR368W | MDM30 | F box protein, component of protein ubiquitin ligases; promotes ubiquitin-mediated degradation of Gal4p; required for normal mitochondrial fusion | DSG1 | |
| YJL115W | ASF1 | Nucleosome assembly factor, involved in chromatin assembly after DNA replication, anti-silencing protein that causes derepression of silent loci when overexpressed | CIA1 | |
| YBL008W | HIR1 | Non-essential transcriptional corepressor involved in the cell cycle-regulated transcription of histone H2A, H2B, H3 and H4 genes; contributes to nucleosome formation, heterochromatic gene silencing, and formation of functional kinetochores | | |
| YAL021C | CCR4 | Component of the CCR4-NOT transcriptional complex, which is involved in regulation of gene expression; component of the major cytoplasmic deadenylase, which is involved in mRNA poly(A) tail shortening | FUN27, NUT21 | |
| YNL315C | ATP11 | Molecular chaperone, required for the assembly of alpha and beta subunits into the F1 sector of mitochondrial F1F0 ATP synthase | | |
| YIL084C | SDS3 | Component of the Rpd3p/Sin3p deacetylase complex required for its structural integrity and catalytic activity, involved in transcriptional silencing and required for sporulation; cells defective in SDS3 display pleiotropic phenotypes | | |
| YOL004W | SIN3 | DNA binding subunit of Sin3p-Rpd3p histone deacetylase complex, involved in transcriptional repression of meiosis-specific genes during vegetative growth and silencing; involved in telomere maintenance | CPE1, GAM2, RPD1, SDI1, SDS16, UME4 | |
| YDR076W | RAD55 | Protein that stimulates strand exchange by stabilizing the binding of Rad51p to single-stranded DNA; involved in the recombinational repair of double-strand breaks in DNA during vegetative growth and meiosis; forms heterodimer with Rad57p | | |
| YEL007W | YEL007W | Putative protein with sequence similarity to S. pombe gti1+ (gluconate transport inducer 1) | TOS9 | |
| YNL084C | END3 | EH domain-containing protein involved in endocytosis, actin cytoskeletal organization and cell wall morphogenesis; forms a complex with Sla1p and Pan1p | | |
| YMR070W | MOT3 | Nuclear transcription factor with two Cys2-His2 zinc fingers; involved in repression of a subset of hypoxic genes by Rox1p, repression of several DAN/TIR genes during aerobic growth, and repression of ergosterol biosynthetic genes | ROX7 | |
| YLR373C | VID22 | 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 | | |
| YPR141C | KAR3 | Minus-end-directed microtubule motor that functions in mitosis and meiosis, localizes to the spindle pole body and localization is dependent on functional Cik1p, required for nuclear fusion during mating; potential Cdc28p substrate | OSR11 | |
| YHR041C | SRB2 | General transcription factor, subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; involved in telomere maintenance | HRS2, MED20 | |
| YHR178W | STB5 | Activator of multidrug resistance genes, forms a heterodimer with Pdr1p; contains a Zn(II)2Cys6 zinc finger domain that interacts with a PDRE (pleotropic drug resistance element) in vitro; binds Sin3p in a two-hybrid assay | | |
| YDR378C | LSM6 | 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 | | |
| YLR079W | SIC1 | Inhibitor of Cdc28-Clb kinase complexes that controls G1/S phase transition, preventing premature S phase and ensuring genomic integrity; phosphorylation targets Sic1p for SCF(CDC4)-dependent turnover; functional homolog of mammalian Kip1 | SDB25 | |
| YMR202W | ERG2 | C-8 sterol isomerase, catalyzes the isomerization of the delta-8 double bond to the delta-7 position at an intermediate step in ergosterol biosynthesis | END11 | |
| YKL002W | DID4 | Class E Vps protein of the ESCRT-III complex, required for sorting of integral membrane proteins into lumenal vesicles of multivesicular bodies, and for delivery of newly synthesized vacuolar enzymes to the vacuole, involved in endocytosis | CHM2, GRD7, REN1, VPL2, VPS2, VPT14 | |
| YPL055C | LGE1 | Protein of unknown function; null mutant forms abnormally large cells | | |
| YDL074C | BRE1 | E3 ubiquitin ligase for Rad6p, required for the ubiquitination of histone H2B, recruitment of Rad6p to promoter chromatin and subsequent methylation of histone H3 (on L4 and L79), contains RING finger domain | | |
| YMR198W | CIK1 | Kinesin-associated protein required for both karyogamy and mitotic spindle organization, interacts stably and specifically with Kar3p and may function to target this kinesin to a specific cellular role; has similarity to Vik1p | | |
| YIL038C | NOT3 | Subunit of the CCR4-NOT complex, which is a global transcriptional regulator with roles in transcription initiation and elongation and in mRNA degradation | | |
| YDL192W | ARF1 | ADP-ribosylation factor, GTPase of the Ras superfamily involved in regulation of coated formation vesicles in intracellular trafficking within the Golgi; functionally interchangeable with Arf2p | | |
| YGL163C | RAD54 | 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 | XRS1 | |
| YLR417W | VPS36 | Component of the ESCRT-II complex, which is involved in ubiquitin-dependent sorting of proteins into the endosome | GRD12, VAC3, VPL11 | |
| YKR001C | VPS1 | GTPase required for vacuolar protein sorting, functions in actin cytoskeleton organization via its interaction with Sla1p; required for late Golgi-retention of some proteins including Kex2p; involved in regulating peroxisome biogenesis | GRD1, LAM1, SPO15, VPL1, VPT26 | |
| YCR077C | PAT1 | Topoisomerase II-associated deadenylation-dependent mRNA-decapping factor; also required for faithful chromosome transmission, maintenance of rDNA locus stability, and protection of mRNA 3'-UTRs from trimming; functionally linked to Pab1p | MRT1 | |
| YPR164W | MMS1 | Protein likely involved in protection against replication-dependent DNA damage; mutants are sensitive to methyl methanesulfonate (MMS); implicated in regulation of Ty1 transposition | RTT108, SLM6 | |
| YNL297C | MON2 | 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 | YSL2 | |
| YKR010C | TOF2 | Nonessential mitochondrial protein of unknown function with sequence similarity to Net1p; identified as a topoisomerase I (Top1p) binding protein; displays synthetic genetic interactions with TOP1 and HPR1 | | |
| YJL092W | HPR5 | DNA helicase and DNA-dependent ATPase involved in DNA repair, required for proper timing of commitment to meiotic recombination and the transition from Meiosis I to Meiosis II; potential Cdc28p substrate | RADH, RADH1, SRS2 | |
| YGL058W | RAD6 | Ubiquitin-conjugating enzyme (E2), involved in postreplication repair (with Rad18p), sporulation, telomere silencing, and ubiquitin-mediated N-end rule protein degradation (with Ubr1p) | UBC2 | |
| YPL153C | RAD53 | Protein kinase, required for cell-cycle arrest in response to DNA damage; activated by trans autophosphorylation when interacting with hyperphosphorylated Rad9p | LSD1, MEC2, SPK1 | |
| YPR119W | CLB2 | B-type cyclin involved in cell cycle progression; activates Cdc28p to promote the transition from G2 to M phase; accumulates during G2 and M, then targeted via a destruction box motif for ubiquitin-mediated degradation by the proteasome | | |
| YOL149W | DCP1 | Subunit of the Dcp1p-Dcp2p decapping enzyme complex, which removes the 5' cap structure from mRNAs prior to their degradation; enhances the activity of catalytic subunit Dcp2p; regulated by DEAD box protein Dhh1p | | |
| YNR052C | POP2 | RNase of the DEDD superfamily, subunit of the Ccr4-Not complex that mediates 3' to 5' mRNA deadenylation | CAF1 | |
| YDL165W | CDC36 | Component of the CCR4-NOT complex, which has multiple roles in regulating mRNA levels including regulation of transcription and destabilizing mRNAs by deadenylation; basal transcription factor | DNA19, NOT2 | |
| YNL330C | RPD3 | Histone deacetylase; regulates transcription and silencing | MOF6, REC3, SDI2, SDS6 | |
| YDL160C | DHH1 | Cytoplasmic DExD/H-box helicase, stimulates mRNA decapping, coordinates distinct steps in mRNA function and decay, interacts with both the decapping and deadenylase complexes, may have a role in mRNA export and translation | | |
| YDL226C | GCS1 | ADP-ribosylation factor GTPase activating protein (ARF GAP), involved in ER-Golgi transport; shares functional similarity with Glo3p | | |
| YER116C | SLX8 | Protein containing a RING finger domain that forms a complex with Hex3p; mutant phenotypes and genetic interactions suggest a possible role in resolving recombination intermediates during DNA replication or repair | | |
| YMR263W | SAP30 | Subunit of a histone deacetylase complex, along with Rpd3p and Sin3p, that is involved in silencing at telomeres, rDNA, and silent mating-type loci; involved in telomere maintenance | | |
| YNL147W | LSM7 | 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 | | |
| YCR086W | CSM1 | 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 | | |
| YBR098W | MMS4 | Subunit of the structure-specific Mms4p-Mus81p endonuclease that cleaves branched DNA; involved in recombination and DNA repair | SLX2, YBR100W | |
| YDR065W | YDR065W | Hypothetical protein | | |
| YER068W | MOT2 | Component of the CCR4-NOT transcription regulatory complex, which represses transcription, at least in part, by inhibiting functional TBP-DNA interactions and also aids in transcription elongation; interacts with C-terminal region of Not1p | NOT4, SIG1 | |
| YNL086W | YNL086W | Hypothetical protein | | |
| YAR002W | NUP60 | Subunit of the nuclear pore complex (NPC), functions to anchor Nup2p to the NPC in a process controlled by the nucleoplasmic concentration of Gsp1p-GTP; potential Cdc28p substrate; involved in telomere maintenance | | |
| YGR092W | DBF2 | Ser/Thr kinase involved in transcription and stress response; functions as part of a network of genes in exit from mitosis; localization is cell cycle regulated; activated by Cdc15p during the exit from mitosis | | |
| YBL022C | PIM1 | Mitochondrial ATP-dependent protease involved in intramitochondrial proteolysis; involved in degradation of misfolded proteins in mitochondria; required for bigenesis and maintenance of mitochondria | LON1, Lon | |
| YER095W | RAD51 | 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 | MUT5 | |
| YGR134W | CAF130 | Part of the evolutionarily-conserved CCR4-NOT transcriptional regulatory complex involved in controlling mRNA initiation, elongation, and degradation | | |
| YKL041W | VPS24 | One of four subunits of the endosomal sorting complex required for transport III (ESCRT-III); forms an ESCRT-III subcomplex with Vps2p; involved in the sorting of transmembrane proteins into the multivesicular body (MVB) pathway | DID3 | |
| YKL113C | RAD27 | 5' to 3' exonuclease, 5' flap endonuclease, required for Okazaki fragment processing and maturation as well as for long-patch base-excision repair; member of the S. pombe RAD2/FEN1 family | ERC11, RTH1 | |
| YJL124C | LSM1 | Lsm (Like Sm) protein; forms heteroheptameric complex (with Lsm2p, Lsm3p, Lsm4p, Lsm5p, Lsm6p, and Lsm7p) involved in degradation of cytoplasmic mRNAs | SPB8 | |
| YCR066W | RAD18 | 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 | | |
| YNL288W | CAF40 | Evolutionarily conserved subunit of the CCR4-NOT complex involved in controlling mRNA initiation, elongation and degradation; binds Cdc39p | | |
| YDR334W | SWR1 | Swi2/Snf2-related ATPase, component of the SWR1 complex; required for the incorporation of Htz1p into chromatin | | |
| YLL033W | YLL033W | | | |
| YPR173C | VPS4 | AAA-type ATPase required for efficient late endosome to vacuole transport; catalyzes the release of an endosomal membrane-associated class E VPS protein complex; cytoplasmic protein that is also associated with an endosomal compartment | CSC1, DID6, END13, GRD13, VPL4, VPT10 | |
| YGL175C | SAE2 | Protein with a role in accurate meiotic and mitotic double-strand break repair; phosphorylated in response to DNA damage and required for normal resistance to DNA-damaging agents | COM1 | |
| YDR439W | LRS4 | Protein involved in rDNA silencing; positively charged coiled-coil protein with limited similarity to myosin | | |
| YDL013W | HEX3 | Ring finger protein involved in the DNA damage response with possible recombination role; genetically identified by synthetic lethality with SGS1 (DNA helicase) and TOP3 (DNA topoisomerase); sporulation role; interacts with Slx8p and Lin1p | SLX5 | |
| YPR072W | NOT5 | Subunit of the CCR4-NOT complex, which is a global transcriptional regulator with roles in transcription initiation and elongation and in mRNA degradation | | |