| ID | Symbol | Description | Aliases | Front Node |
| YIR039C | YPS6 | Putative GPI-anchored aspartic protease | | T |
| YDL207W | GLE1 | Cytoplasmic nucleoporin required for polyadenylated RNA export but not for protein import; component of Nup82p nuclear pore subcomplex; contains a nuclear export signal | BRR3, RSS1 | T |
| YJL023C | PET130 | Protein required for respiratory growth | | T |
| YFR052W | RPN12 | Subunit of the 19S regulatory particle of the 26S proteasome lid; synthetically lethal with RPT1, which is an ATPase component of the 19S regulatory particle; physically interacts with Nob1p and Rpn3p | NIN1 | T |
| YER094C | PUP3 | Beta subunit of the 20S proteasome involved in ubiquitin-dependent catabolism; human homolog is subunit C10 | SCS32 | F |
| YHR027C | RPN1 | Non-ATPase base subunit of the 19S regulatory particle of the 26S proteasome; may participate in the recognition of several ligands of the proteasome; contains a leucine-rich repeat (LRR) domain, a site for protein?protein interactions | HRD2, NAS1 | F |
| YOR259C | RPT4 | 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 | CRL13, PCS1, SUG2 | F |
| YCR003W | MRPL32 | Mitochondrial ribosomal protein of the large subunit | YmL32 | T |
| YDL239C | ADY3 | Protein required for spore wall formation, thought to mediate assembly of a Don1p-containing structure at the leading edge of the prospore membrane via interaction with spindle pole body components; potentially phosphorylated by Cdc28p | | F |
| YKL011C | CCE1 | Mitochondrial cruciform cutting endonuclease, cleaves Holliday junctions formed during recombination of mitochondrial DNA | MGT1 | T |
| YLR226W | BUR2 | Cyclin for the Sgv1p (Bur1p) protein kinase; Sgv1p and Bur2p comprise a CDK-cyclin complex involved in transcriptional regulation through its phosphorylation of the carboxy-terminal domain of the largest subunit of RNA polymerase II | CST4 | T |
| YBR279W | PAF1 | RNA polymerase II-associated protein, defines a large complex that is biochemically and functionally distinct from the Srb-Mediator form of Pol II holoenzyme and is required for full expression of a subset of cell cycle-regulated genes | | F |
| YBR257W | POP4 | Subunit of both RNase MRP, which cleaves pre-rRNA, and nuclear RNase P, which cleaves tRNA precursors to generate mature 5' ends; binds to the RPR1 RNA subunit in Rnase P | | T |
| YPL070W | MUK1 | Protein of unknown function, localized to the cytoplasm; computational analysis of large-scale protein-protein interaction data suggests a possible role in transcriptional regulation | | T |
| YCR096C | HMRA2 | Silenced copy of a2 at HMR; similarity to Alpha2p; required along with a1p for inhibiting expression of the HO endonuclease in a/alpha HO/HO diploid cells with an active mating-type interconversion system | A2 | T |
| YOL038W | PRE6 | 20S proteasome alpha-type subunit | | T |
| YBL103C | RTG3 | Basic helix-loop-helix-leucine zipper (bHLH/Zip) transcription factor that forms a complex with another bHLH/Zip protein, Rtg1p, to activate the retrograde (RTG) and TOR pathways | | F |
| YLR228C | ECM22 | Sterol regulatory element binding protein, regulates transcription of the sterol biosynthetic genes ERG2 and ERG3; member of the fungus-specific Zn[2]-Cys[6] binuclear cluster family of transcription factors; homologous to Upc2p | | F |
| YBR173C | UMP1 | Short-lived chaperone required for correct maturation of the 20S proteasome; degraded by proteasome upon completion of its assembly; involved in ubiquitin-mediated proteolysis; mutant defective in degradation of short-lived proteins | | T |
| 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 | | T |
| YDL099W | BUG1 | Protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm in a punctate pattern | | T |
| YGR104C | SRB5 | Subunit of the RNA polymerase II mediator complex; associates with core polymerase subunits to form the RNA polymerase II holoenzyme; essential for transcriptional regulation; involved in telomere maintenance | MED18 | T |
| YPL196W | OXR1 | Protein of unknown function required for normal levels of resistance to oxidative damage, null mutants are sensitive to hydrogen peroxide; member of a conserved family of proteins found in eukaryotes but not in prokaryotes | | T |
| YPL020C | ULP1 | Ubl (ubiquitin-like protein)-specific protease that cleaves Smt3p protein conjugates; specifically required for cell cycle progression; associates with nucleoporins and may interact with septin rings during telophase | | T |
| YGL011C | SCL1 | Alpha subunit of the 20S core complex of the 26S proteasome involved in the degradation of ubiquitinated substrates; essential for growth; detected in the mitochondria | PRC2 | T |
| YOL145C | CTR9 | Component of the Paf1p complex, which is a large complex that binds to and modulates the activity of RNA polymerase II and is required for expression of a subset of genes, including cyclin genes; contains TPR repeats | CDP1 | F |
| YLR261C | VPS63 | Dubious open reading frame, unlikely to encode a protein; not conserved in closely related Saccharomyces species; 98% of ORF overlaps the verified gene YPT6; deletion causes a vacuolar protein sorting defect | | T |
| YER182W | FMP10 | The authentic, non-tagged protein was localized to the mitochondria | | T |
| YLR262C | YPT6 | GTPase, Ras-like GTP binding protein involved in the secretory pathway, required for fusion of endosome-derived vesicles with the late Golgi, maturation of the vacuolar carboxypeptidase Y; has similarity to the human GTPase, Rab6 | | T |
| YBR282W | MRPL27 | Mitochondrial ribosomal protein of the large subunit | YmL27 | T |
| YKL206C | YKL206C | Putative protein of unknown function; green fluorescent protein (GFP)-fusion protein localizes to the cytoplasm | | F |
| YPR193C | HPA2 | Tetrameric histone acetyltransferase with similarity to Gcn5p, Hat1p, Elp3p, and Hpa3p; acetylates histones H3 and H4 in vitro and exhibits autoacetylation activity | | T |
| YMR159C | ATG16 | Protein that interacts with the Atg12p-Atg5p conjugate during formation of the pre-autophagosomal structure; essential for autophagy | APG15, APG16, CVT11, SAP18 | T |
| YDR490C | PKH1 | 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 | | F |
| YML009C | MRPL39 | Mitochondrial ribosomal protein of the large subunit | YmL39 | T |
| YOR117W | RPT5 | One of six ATPases of the 19S regulatory particle of the 26S proteasome involved in the degradation of ubiquitinated substrates; recruited to the GAL1-10 promoter region upon induction of transcription | YTA1 | F |
| YDR123C | INO2 | Component of the heteromeric Ino2p/Ino4p basic helix-loop-helix transcription activator that binds inositol/choline-responsive elements (ICREs), required for derepression of phospholipid biosynthetic genes in response to inositol depletion | DIE1, SCS1 | F |
| YDR427W | RPN9 | Non-ATPase regulatory subunit of the 26S proteasome, has similarity to putative proteasomal subunits in other species; null mutant is temperature sensitive and exhibits cell cycle and proteasome assembly defects | | F |
| YJL154C | VPS35 | Endosomal protein that is a subunit of the membrane-associated retromer complex essential for endosome-to-Golgi retrograde transport; forms a subcomplex with Vps26p and Vps29p that selects cargo proteins for endosome-to-Golgi retrieval | GRD9, VPT7 | F |
| YMR106C | YKU80 | Subunit of the telomeric Ku complex (Yku70p-Yku80p), involved in telomere length maintenance, structure and telomere position effect; relocates to sites of double-strand cleavage to promote nonhomologous end joining during DSB repair | HDF2 | F |
| YGL244W | RTF1 | Subunit of the RNA polymerase II-associated Paf1 complex; directly or indirectly regulates DNA-binding properties of Spt15p and relative activities of different TATA elements; involved in telomere maintenance | CSL3 | T |
| YBR278W | DPB3 | Third-largest subunit of DNA polymerase II (DNA polymerase epsilon), required to maintain fidelity of chromosomal replication and also for inheritance of telomeric silencing; mRNA abundance peaks at the G1/S boundary of the cell cycle | | T |
| YOR157C | PUP1 | Endopeptidase with trypsin-like activity that cleaves after basic residues; beta-type subunit of 20S proteasome synthesized as a proprotein before being proteolytically processed for assembly into 20S particle; human homolog is subunit Z | | T |
| YLR145W | RMP1 | Protein required for cell viability, component of RNase MRP, which is involved in RNA processing in mitochondria | | T |
| YDL147W | RPN5 | Essential, non-ATPase regulatory subunit of the 26S proteasome lid, similar to mammalian p55 subunit and to another S. cerevisiae regulatory subunit, Rpn7p | NAS5 | T |
| YPL259C | APM1 | Mu1-like medium subunit of the clathrin-associated protein complex (AP-1); binds clathrin; involved in clathrin-dependent Golgi protein sorting | YAP54 | T |
| YNL044W | YIP3 | Protein localized to COPII vesicles, proposed to be involved in ER to Golgi transport; interacts with members of the Rab GTPase family and Yip1p | | F |
| YOR362C | PRE10 | 20S proteasome alpha-type subunit | | T |
| YPL148C | PPT2 | Phosphopantetheine:protein transferase (PPTase), activates mitochondrial acyl carrier protein (Acp1p) by phosphopantetheinylation | | T |
| YER021W | RPN3 | Essential, non-ATPase regulatory subunit of the 26S proteasome lid, similar to the p58 subunit of the human 26S proteasome; temperature-sensitive alleles cause metaphase arrest, suggesting a role for the proteasome in cell cycle control | SUN2 | F |
| YDR322W | MRPL35 | Mitochondrial ribosomal protein of the large subunit | YmL35 | F |
| YGR232W | NAS6 | 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 | | F |
| YNL133C | FYV6 | Protein of unknown function, required for survival upon exposure to K1 killer toxin; proposed to regulate double-strand break repair via non-homologous end-joining | | T |
| YDL143W | CCT4 | Subunit of the cytosolic chaperonin Cct ring complex, related to Tcp1p, required for the assembly of actin and tubulins in vivo | TCP4 | F |
| YBL043W | ECM13 | Non-essential protein of unknown function | | T |
| YPL186C | UIP4 | Protein of unknown function that interacts with Ulp1p, a Ubl (ubiquitin-like protein)-specific protease for Smt3p protein conjugates | | T |
| YNL284C | MRPL10 | Mitochondrial ribosomal protein of the large subunit; appears as two protein spots (YmL10 and YmL18) on two-dimensional SDS gels | MRPL18, YmL10, YmL18 | T |
| 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 | | T |
| YDR200C | VPS64 | Cytoplasmic protein required for cytoplasm to vacuole targeting of proteins; forms a complex with Far3p, Far7p, Far10p, and Far11p that is involved in pheromone-induced cell cycle arrest; also localized to the endoplasmic reticulum membrane | FAR9 | T |
| YPL214C | THI6 | Bifunctional enzyme with thiamine-phosphate pyrophosphorylase and 4-methyl-5-beta-hydroxyethylthiazole kinase activities, required for thiamine biosynthesis; GFP-fusion protein localizes to the cytoplasm in a punctate pattern | | T |
| YHR144C | DCD1 | Deaminase required for dCTP and dTTP synthesis; expression is cell cycle regulated | | T |
| YER012W | PRE1 | 20S proteasome beta-type subunit; localizes to the nucleus throughout the cell cycle | | T |
| YNL225C | CNM67 | Component of the spindle pole body outer plaque; required for spindle orientation and mitotic nuclear migration | | T |
| YFR004W | RPN11 | Metalloprotease subunit of the 19S regulatory particle of the 26S proteasome lid; couples the deubiquitination and degradation of proteasome substrates | MPR1 | T |
| YBL057C | PTH2 | One of two (see also PTH1) mitochondrially-localized peptidyl-tRNA hydrolases; dispensable for cell growth | | T |
| YAL011W | SWC3 | Protein of unknown function, component of the Swr1p complex that incorporates Htz1p into chromatin; required for formation of nuclear-associated array of smooth endoplasmic reticulum known as karmellae | SWC1 | F |
| YGR231C | PHB2 | Subunit of the prohibitin complex (Phb1p-Phb2p), a 1.2 MDa ring-shaped inner mitochondrial membrane chaperone that stabilizes newly synthesized proteins; determinant of replicative life span; involved in mitochondrial segregation | | T |
| YKL195W | MIA40 | Essential protein of the mitochondrial intermembrane space, involved in import and assembly of intermembrane space proteins | FMP15, TIM40 | T |
| YGR209C | TRX2 | Cytoplasmic thioredoxin isoenzyme of the thioredoxin system which protects cells against both oxidative and reductive stress, forms LMA1 complex with Pbi2p, acts as a cofactor for Tsa1p, required for ER-Golgi transport and vacuole inheritance | LMA1 | T |
| YJR073C | OPI3 | Phospholipid methyltransferase (methylene-fatty-acyl-phospholipid synthase), catalyzes the last two steps in phosphatidylcholine biosynthesis | PEM2 | T |
| YKR086W | PRP16 | RNA helicase in the DEAH-box family involved in the second catalytic step of splicing, exhibits ATP-dependent RNA unwinding activity | | F |
| YPR103W | PRE2 | 20S proteasome beta-type subunit, responsible for the chymotryptic activity of the proteasome | DOA3, PRG1, SRR2 | T |
| YEL061C | CIN8 | Kinesin motor protein involved in mitotic spindle assembly and chromosome segregation | KSL2, SDS15 | F |
| YOL108C | INO4 | Transcription factor required for derepression of inositol-choline-regulated genes involved in phospholipid synthesis; forms a complex, with Ino2p, that binds the inositol-choline-responsive element through a basic helix-loop-helix domain | | T |
| YIL044C | AGE2 | ADP-ribosylation factor (ARF) GTPase activating protein (GAP) effector, involved in Trans-Golgi-Network (TGN) transport; contains C2C2H2 cysteine/histidine motif | SAT2 | T |
| YBL004W | UTP20 | Component of the small-subunit (SSU) processome, which is involved in the biogenesis of the 18S rRNA | | F |
| YCL032W | STE50 | Protein involved in mating response, invasive/filamentous growth, and osmotolerance, acts as an adaptor that links G protein-associated Cdc42p-Ste20p complex to the effector Ste11p to modulate signal transduction | | F |
| YBL038W | MRPL16 | Mitochondrial ribosomal protein of the large subunit | | T |
| YDL200C | MGT1 | DNA repair methyltransferase (6-O-methylguanine-DNA methylase) involved in protection against DNA alkylation damage | MGMT | T |
| YGL121C | GPG1 | Proposed gamma subunit of the heterotrimeric G protein that interacts with the receptor Grp1p; involved in regulation of pseudohyphal growth; requires Gpb1p or Gpb2p to interact with Gpa2p | | T |
| YDR099W | BMH2 | 14-3-3 protein, minor isoform; binds proteins and DNA, involved in regulation of many processes including exocytosis and vesicle transport, Ras/MAPK signaling during pseudohyphal development, rapamycin-sensitive signaling, and others | SCD3 | T |
| YMR314W | PRE5 | 20S proteasome alpha-type subunit | | F |
| YDR363W-A | SEM1 | Component of the lid subcomplex of the regulatory subunit of the 26S proteasome; ortholog of human DSS1 | DSS1, HOD1 | F |
| YML092C | PRE8 | 20S proteasome beta-type subunit | | T |
| YPR100W | MRPL51 | Mitochondrial ribosomal protein of the large subunit | | T |
| YHR030C | SLT2 | Serine/threonine MAP kinase involved in regulating the maintenance of cell wall integrity and progression through the cell cycle; regulated by the PKC1-mediated signaling pathway | BYC2, MPK1, SLK2 | F |
| YHR207C | SET5 | Zinc-finger protein of unknown function, contains one canonical and two unusual fingers in unusual arrangements; deletion enhances replication of positive-strand RNA virus | | T |
| YMR048W | CSM3 | Protein required for accurate chromosome segregation during meiosis | | T |
| YKL167C | MRP49 | Mitochondrial ribosomal protein of the large subunit, not essential for mitochondrial translation | | T |