| UBP6 | YFR010W | Ubiquitin-specific protease | genetic | 3 | 2 | 2 | Synthetic Rescue, Phenotypic Suppression, Synthetic Rescue | 
            
                | RPN4 | YDL020C | Transcription factor that stimulates expression of proteasome genes | genetic | 3 | 1 | 2 | Negative Genetic, Negative Genetic, Negative Genetic | 
            
                | RPT4 | YOR259C | ATPase of the 19S regulatory particle of the 26S proteasome | genetic | 2 | 1 | 2 | Negative Genetic, Negative Genetic | 
            
                | YAP6 | YDR259C | Basic leucine zipper (bZIP) transcription factor | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | YAP1 | YML007W | Basic leucine zipper (bZIP) transcription factor | regulation | 1 | 1 | 1 | DNA to cDNA expression microarray evidence | 
            
                | SUA7 | YPR086W | Transcription factor TFIIB | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | MED6 | YHR058C | Subunit of the RNA polymerase II mediator complex | regulation | 1 | 1 | 1 | chromatin immunoprecipitation-chip evidence | 
            
                | CSL4 | YNL232W | Exosome non-catalytic core component | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | BMS1 | YPL217C | GTPase required for ribosomal subunit synthesis and rRNA processing | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | CCA1 | YER168C | ATP (CTP):tRNA-specific tRNA nucleotidyltransferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | CTK1 | YKL139W | Catalytic (alpha) subunit of C-terminal domain kinase I (CTDK-I) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | ECM29 | YHL030W | Scaffold protein | genetic | 1 | 1 | 1 | Phenotypic Suppression | 
            
                | CMD1 | YBR109C | Calmodulin | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | CAF20 | YOR276W | Phosphoprotein of the mRNA cap-binding complex | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | MAK11 | YKL021C | Protein involved in an early step of 60S ribosomal subunit biogenesis | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | UBP6 | YFR010W | Ubiquitin-specific protease | physical | 1 | 1 | 1 | Co-purification | 
            
                | RPT6 | YGL048C | ATPase of the 19S regulatory particle of the 26S proteasome | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | PTK2 | YJR059W | Serine/threonine protein kinase | physical | 1 | 1 | 1 | Biochemical Activity | 
            
                | RPN2 | YIL075C | Subunit of the 26S proteasome | physical | 1 | 1 | 1 | Reconstituted Complex | 
            
                | RPN10 | YHR200W | Proteasome polyubiquitin receptor | physical | 1 | 1 | 1 | Reconstituted Complex | 
            
                | NUF2 | YOL069W | Component of the kinetochore-associated Ndc80 complex | physical | 1 | 1 | 1 | PCA | 
            
                | OAF3 | YKR064W | Putative transcriptional repressor with Zn(2)-Cys(6) finger | physical | 1 | 1 | 1 | Two-hybrid | 
            
                | NAB2 | YGL122C | Nuclear polyadenylated RNA-binding protein | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | RPN5 | YDL147W | Subunit of the CSN and 26S proteasome lid complexes | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | UBC4 | YBR082C | Ubiquitin-conjugating enzyme (E2) | physical | 1 | 1 | 1 | Affinity Capture-Western | 
            
                | UBC5 | YDR059C | Ubiquitin-conjugating enzyme | physical | 1 | 1 | 1 | Affinity Capture-Western | 
            
                | PRE1 | YER012W | Beta 4 subunit of the 20S proteasome | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | RPN11 | YFR004W | Metalloprotease subunit of 19S regulatory particle | physical | 1 | 1 | 1 | Affinity Capture-Western | 
            
                | SSB2 | YNL209W | Cytoplasmic ATPase that is a ribosome-associated molecular chaperone | physical | 1 | 1 | 1 | Co-purification | 
            
                | ISW1 | YBR245C | ATPase subunit of imitation-switch (ISWI) class chromatin remodelers | physical | 1 | 1 | 1 | Affinity Capture-RNA | 
            
                | UBI4 | YLL039C | Ubiquitin | physical | 1 | 1 | 1 | Affinity Capture-Western | 
            
                | PUB1 | YNL016W | Poly (A)+ RNA-binding protein | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | RPT2 | YDL007W | ATPase of the 19S regulatory particle of the 26S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SSA1 | YAL005C | ATPase involved in protein folding and NLS-directed nuclear transport | genetic | 1 | 1 | 1 | Phenotypic Suppression | 
            
                | POL2 | YNL262W | Catalytic subunit of DNA polymerase (II) epsilon | genetic | 1 | 1 | 1 | Synthetic Rescue | 
            
                | TPS2 | YDR074W | Phosphatase subunit of the trehalose-6-P synthase/phosphatase complex | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | RPN6 | YDL097C | Essential, non-ATPase regulatory subunit of the 26S proteasome lid | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | NUS1 | YDL193W | Forms dehydrodolichyl diphosphate synthase complex with RER2 or SRT1 | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SSS1 | YDR086C | Subunit of the Sec61p translocation complex (Sec61p-Sss1p-Sbh1p) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SPP41 | YDR464W | Protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MCM3 | YEL032W | Protein involved in DNA replication | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | HYP2 | YEL034W | Translation elongation factor eIF-5A | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MOB2 | YFL034C-B | Activator of Cbk1p kinase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PAM16 | YJL104W | Subunit of the import motor (PAM complex) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPT1 | YKL145W | ATPase of the 19S regulatory particle of the 26S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PAM18 | YLR008C | Subunit of the import motor (PAM complex) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SMD2 | YLR275W | Core Sm protein Sm D2 | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | POP3 | YNL282W | Subunit of both RNase MRP and nuclear RNase P | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SEC12 | YNR026C | Guanine nucleotide exchange factor (GEF) | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPN8 | YOR261C | Essential non-ATPase regulatory subunit of the 26S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PRE10 | YOR362C | Alpha 7 subunit of the 20S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | PRE2 | YPR103W | Beta 5 subunit of the 20S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPN7 | YPR108W | Essential non-ATPase regulatory subunit of the 26S proteasome | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | VMS1 | YDR049W | Peptidyl-tRNA hydrolase that releases stalled peptides from ribosomes, | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YER085C | YER085C | Putative protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MRC1 | YCL061C | S-phase checkpoint protein required for DNA replication | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | KGD2 | YDR148C | Dihydrolipoyl transsuccinylase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | RPA14 | YDR156W | RNA polymerase I subunit A14 | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SEM1 | YDR363W-A | 19S proteasome regulatory particle lid subcomplex component | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MTC2 | YKL098W | Protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | TSR2 | YLR435W | Protein with a potential role in pre-rRNA processing | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | VPS68 | YOL129W | Vacuolar membrane protein of unknown function | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | YPR147C | YPR147C | Bifunctional triacylglycerol lipase and short chain ester hydrolase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | MRPL6 | YHR147C | Mitochondrial ribosomal protein of the large subunit | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SPS4 | YOR313C | Protein whose expression is induced during sporulation | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | USO1 | YDL058W | Essential protein involved in vesicle-mediated ER to Golgi transport | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | SEC31 | YDL195W | Component of the Sec13p-Sec31p complex of the COPII vesicle coat | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | UBP2 | YOR124C | Ubiquitin-specific protease | genetic | 1 | 1 | 1 | Phenotypic Suppression | 
            
                | BIR1 | YJR089W | Subunit of chromosomal passenger complex (CPC) | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | COG4 | YPR105C | Essential component of the conserved oligomeric Golgi complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | CHL1 | YPL008W | Probable DNA helicase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GRC3 | YLL035W | Polynucleotide kinase present on rDNA | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | AMD1 | YML035C | AMP deaminase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | EXO1 | YOR033C | 5'-3' exonuclease and flap-endonuclease | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | HRB1 | YNL004W | Poly(A+) RNA-binding protein | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | BPT1 | YLL015W | ABC type transmembrane transporter of MRP/CFTR family | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | ADY4 | YLR227C | Structural component of the meiotic outer plaque | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | BET4 | YJL031C | Alpha subunit of Type II geranylgeranyltransferase | genetic | 1 | 1 | 1 | Positive Genetic | 
            
                | GAB1 | YLR459W | Subunit of the glycosylphosphatidylinositol transamidase complex | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | ATG32 | YIL146C | Mitochondrial outer membrane protein required to initiate mitophagy | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | GRE3 | YHR104W | Aldose reductase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | CYB5 | YNL111C | Cytochrome b5 | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | APJ1 | YNL077W | Hsp40 chaperone with a role in SUMO-mediated protein degradation | physical | 1 | 1 | 1 | Affinity Capture-MS | 
            
                | COQ2 | YNR041C | Para hydroxybenzoate polyprenyl transferase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | CYT2 | YKL087C | Cytochrome c1 heme lyase | genetic | 1 | 1 | 1 | Negative Genetic | 
            
                | AVT7 | YIL088C | Vacuolar amino acid transporter | genetic | 1 | 1 | 1 | Negative Genetic |