TABLE 1.
Comprehensive list of Rvs161p and Rvs167p interactors in budding yeasta
| Group | Gene | Encoded protein | Type(s) of interaction (reference[s])b | Experimental evidence |
|---|---|---|---|---|
| Cytoskeleton and polarity | ABP1c | Actin Binding Protein involved in actin cytoskeleton assembly and cell polarity establishmentc | 7 (38, 59, 160, 176) | Two-hybrid, peptide scanning |
| ACF2/PCA1 | Actin Assembly Complementing Factor, intracellular β-1,3-endoglucanase | 7 (59, 97, 160, 331) | Two-hybrid, peptide scanning | |
| ACF4 | Actin Assembly Complementing Factor, molecular function unknown | 7 (59, 160, 331) | Two-hybrid, peptide scanning | |
| ACT1 | Yeast ACTin | 1 (19, 215), 7 (4, 19, 59, 180) | Two-hybrid, synthetic lethal, nonallelic noncomplementation | |
| APP1 | Actin Patch Protein, molecular function unknown | 1 (18), 7 (18, 59, 160, 331) | Two-hybrid, peptide scanning | |
| ARP2 | Actin-Related Protein, essential component of the Arp2/3 complex | 1 (332), 7 (160, 332) | Two-hybrid, synthetic lethal (rvs161), synthetic sick (rvs167) | |
| BBC1 | Protein possibly involved in assembly of actin patches; interacts with actin assembly factor Las17p and with the SH3 domains of type 1 myosins Myo3p and Myo5p | 1 (332), 7 (332) | Synthetic sick | |
| BSP1 | Binding protein of Synaptojanin Polyphosphoinositide phosphatase domain, adaptor that links synaptojanins Inp52p (Sjl2p) and Inp53p (Sjl3p) to the cortical actin cytoskeleton | 7 (59, 160, 331) | Two-hybrid, peptide scanning | |
| CAP1 | CAPping protein, binds to barbed ends of actin filaments, preventing further polymerization | 1 (332), 7 (332) | Synthetic lethal | |
| CAP2 | CAPping protein, binds to barbed ends of actin filaments, preventing further polymerization | 1 (332), 7 (332) | Synthetic lethal | |
| CDC24 | Cell Division Cycle, guanine nucleotide exchange factor for Cdc42p | 1 (136) | Two-hybrid | |
| CLA4 | Protein serine/threonine kinase, homologous to Ste20p | 1 (332), 7 (332) | Synthetic sick | |
| END3 | ENDocytosis defect, EH domain-containing protein involved in endocytosis, actin cytoskeletal organization, and cell wall morphogenesis | 1 (332), 7 (85, 332) | Synthetic sick | |
| EXO70 | EXOcyst, 70-kDa subunit of exocyst complex | 7 (18) | Two-hybrid | |
| GIM3 | Gene Involved in Microtubule biogenesis, subunit of the heterohexameric cochaperone prefoldin complex | 1 (332), 7 (332) | Synthetic sick | |
| GIM4 | Gene Involved in Microtubule biogenesis, subunit of the heterohexameric cochaperone prefoldin complex | 1 (332), 7 (332) | Synthetic sick | |
| GIM5 | Gene Involved in Microtubule biogenesis, subunit of the heterohexameric cochaperone prefoldin complex | 1 (332), 7 (332) | Synthetic lethal | |
| LAS17 | Yeast mutant that is Local Anesthetic Sensitive, yeast WASp | 1 (123), 7 (18, 38, 59, 97, 123, 136, 160, 181, 331) | Two-hybrid, peptide scanning, ELISA, complex isolation, and mass spectrometry | |
| MYO1 | Yeast type II MYOsin | 1 (19), 7 (19) | Synthetic lethal | |
| MYO2 | Yeast type V MYOsin | 1 (19), 7 (19) | Synthetic sick | |
| MYO3 | Yeast type I MYOsin | 7 (331) | Two-hybrid | |
| MYO5 | Yeast type I MYOsin | 1 (332), 7 (331, 332) | Two-hybrid, synthetic sick | |
| PAC10 | Protein required in the Absence of Cin8p, part of heteromeric cochaperone GimC/prefoldin complex, also called GIM2 | 1 (332), 7 (332) | Synthetic lethal | |
| RVS161 | Reduced Viability upon Starvation | 7 (18, 38, 59, 97, 123, 136, 180, 220, 339) | Two-hybrid, affinity purification, complex isolation, and mass spectrometry | |
| RVS167 | Reduced Viability upon Starvation | 1 (18, 38, 59, 97, 123, 136, 180, 220, 339), 7 (18, 180) | Two-hybrid, affinity purification, complex isolation, and mass spectrometry | |
| SAC6 | Suppressor of ACtin mutations, yeast fimbrin | 1 (97), 7 (97, 176) | Two-hybrid, synthetic lethal | |
| SEC8 | SECretory, essential 121-kDa subunit of the exocyst complex | 7 (18) | Two-hybrid | |
| SLA1 | Synthetic Lethal with ABP1, protein required for assembly of the cortical actin cytoskeleton | 1 (123, 332), 7 (59, 85, 97, 123, 176, 307, 332) | Two-hybrid, Co-IP, affinity purification, synthetic lethal, complex isolation, and mass spectrometry | |
| SLA2 | Synthetic Lethal with ABP1, protein required for assembly of the cortical actin cytoskeleton | 1 (97), 7 (59, 97, 176, 364) | Two-hybrid, synthetic lethal | |
| SUR7 | SUppressor of Rvs167 | 1 (300, 381), 7 (300, 381) | Genetic suppression | |
| VRP1 | Very Rich in Proline, yeast WASp-interacting protein | 1 (123), 7 (123, 275, 331) | Two-hybrid, synthetic sick, complex isolation, and mass spectrometry | |
| YKE2 | Yeast nuclear gene encoding a protein showing homology to mouse KE2 and containing a putative leucine zipper motif | 1 (332), 7 (332) | Synthetic sick | |
| YSC84 | SH3 domain-containing protein with function unknown, also called LSB4 (LaS17p-Binding) | 7 (59) | Two-hybrid | |
| Transcription and signaling | BCK1 | Bypass of C Kinase, mitogen-activated protein kinase kinase kinase | 1 (332), 7 (332) | Synthetic sick |
| CTI6 | Cyc8-Tup1-Interacting protein, transcription factor binding protein | 7 (18) | Two-hybrid | |
| EAP1 | EIF4E-Associated Protein, implicated in TOR signaling | 1 (332), 7 (332) | Synthetic lethal (rvs161), synthetic sick (rvs167) | |
| GTS1 | Glycine Threonine Serine repeat protein, transcription activator activity | 7 (160) | Peptide scanning | |
| RIM101 | Regulator of IME2, transcriptional repressor involved in the response to pH | 7 (160) | Peptide scanning | |
| RVB2 | RuVB-like, involved in transcription regulation | 7 (123) | Affinity purification | |
| SAP30 | SIT4 protein phosphatase-Associated Protein, subunit of a histone deacetylase complex | 1 (332), 7 (332) | Synthetic sick | |
| SDS3 | Suppressor of Defective Silencing, involved in transcriptional silencing and required for sporulation | 1 (332), 7 (332) | Synthetic lethal | |
| SIN3 | Switch INdependent, DNA binding subunit of Sin3p-Rpd3p histone deacetylase complex | 1 (332), 7 (332) | Synthetic sick | |
| SLN1 | Synthetic Lethal of N-end rule, histidine kinase osmosensor that regulates a MAP kinase cascade | 7 (18) | Two-hybrid | |
| SLT2 | Suppression at Low Temperature, serine/threonine MAP kinase | 1 (20, 332), 7 (20, 332) | Synthetic lethal | |
| SUM1 | SUppresor of Mar1-1, nuclear protein involved in silencing | 1 (332), 7 (332) | Synthetic sick | |
| SWI4 | SWItching deficient, involved in cell cycle-dependent gene expression | 1 (332), 7 (332) | Synthetic lethal | |
| TFC6 | Transcription Factor C, subunit of RNA polymerase III transcription initiation factor | 7 (18) | Two-hybrid | |
| TY1B | Transposon Ty1 protein B | 7 (18) | Two-hybrid | |
| Cell cycle | BBP1 | Bfr1p Binding Protein, required for the spindle pole body (SPB) duplication | 7 (160) | Peptide scanning |
| CYK3 | CYtoKinesis, SH3 domain protein located in the mother-bud neck, molecular function unknown | 1 (332), 7 (332) | Synthetic sick | |
| ESP1 | Extra Spindle Pole bodies, sister chromatid separase | 7 (18) | Two-hybrid | |
| PCL2 | PHO85 CycLin, forms a functional kinase complex with Pho85p, activated by Swi5p | 7 (163) | Two-hybrid, direct binding, Co-IP | |
| PCL9 | PHO85 CycLin, forms a functional kinase complex with Pho85p, activated by Swi5p | 7 (163) | Two-hybrid | |
| RED1 | REDuctional division, involved in chromosome segregation during the first meiotic division | 1 (114) | Two-hybrid | |
| Transport | FEN1/ELO2, ISUR5/VBM2 | FENpropimorph resistance, fatty acid elongase, involved in sphingolipid biosynthesis | 1 (262) | Genetic suppression |
| GRD19 | Golgi Retention Deficient, sorting nexin required to maintain late-Golgi-resident enzymes | 7 (350) | Two-hybrid | |
| GUP1 | Glycerol Uptake, plasma membrane protein with a possible role in proton symport of glycerol | 1 (332), 7 (332) | Synthetic lethal | |
| GYL1 | GYp-Like, putative GTPase-activating protein, stimulates Gyp5p GAP activity on Ypt1p | 1 (18), 7 (18, 84, 317, 331) | Two-hybrid, affinity purification | |
| GYP5 | GTpase-activating protein for Ypt Proteins, GAP for yeast rab1 | 1 (18), 7 (18, 84, 160, 317) | Two-hybrid, peptide scanning, affinity purification | |
| HSE1 | Has Symptoms of class E mutants, subunit of the endosomal Vps27p-Hse1p complex | 7 (18) | Two-hybrid | |
| IVY1 | Phospholipid-binding protein that Interacts with both Ypt7p and Vps33p | 7 (18) | Two-hybrid | |
| KAP122 | KAryoPherin, responsible for import of the Toa1p-Toa2p complex into the nucleus | 7 (18) | Two-hybrid | |
| MGE1 | Mitochondrial GrpE, involved in protein import into mitochondria | 1 (123) | Affinity purification | |
| MNN2 | MaNNosyltransferase | 1 (332), 7 (332) | Synthetic sick | |
| MNN9 | MaNNosyltransferase | 1 (332), 7 (332) | Synthetic lethal | |
| MNN10 | MaNNosyltransferase | 1 (332), 7 (332) | Synthetic lethal | |
| MRS3 | Mitochondrial RNA Splicing, mitochondrial iron transporter | 7 (160) | Peptide scanning | |
| PEX14 | PEroXisome related, peroxisomal membrane protein, a central component of the peroxisomal protein import machinery | 7 (385) | Peptide scanning | |
| PHO84 | PHOsphate metabolism, phosphate transporter and low-affinity manganese transporter | 7 (123) | Affinity purification | |
| POR1 | PORin, mitochondrial porin (voltage-dependent anion channel) | 1 (123) | Affinity purification | |
| PSE1 | Protein Secretion Enhancer, karyopherin/importin that interacts with the nuclear pore complex | 7 (18) | Two-hybrid | |
| RSP5 | Reversal of Spt−Phenotype 5, yeast NEDD4 ubiquitin ligase | 7 (123, 307) | Two-hybrid, co-immunoprecipitation, affinity purification, complex isolation, and mass spectrometry | |
| RUD3 | Relieves Uso1-1 transport Defect, Golgi matrix protein involved in the structural organization of the cis-Golgi | 1 (332), 7 (332) | Synthetic sick | |
| SEC21 | SECretory, COP1 complex component | 7 (18) | Two-hybrid | |
| SEC22 | SECretory, R-SNARE protein, cycles between ER and Golgi | 1 (332), 7 (332) | Synthetic sick | |
| SEC27 | SECretory, essential beta-coat protein of the COPI coatomer | 1 (123) | Affinity purification | |
| SRP54 | Signal Recognition Particle subunit | 7 (18) | Two-hybrid | |
| SPF1 | Sensitivity to Pichia farinosa killer toxin, P-type ATPase, ion transporter of the ER membrane involved in ER function and Ca2+ homeostasis | 1 (332), 7 (332) | Synthetic lethal | |
| SUR4/ELO3, /VBM1 | SUppressor of rvs161 and rvs167 mutations, elongase III synthesizes 20-26-carbon fatty acids from C18-CoA primers | 1 (53) | Genetic suppression | |
| SXM1 | Suppressor of mRNA eXport Mutant, nuclear transport factor (karyopherin) | 1 (18) | Two-hybrid | |
| VPS21/YPT51 | Vacuolar Protein Sorting, Rab5-like GTPase | 1 (97, 332), 7 (97, 296, 332) | Synthetic sick | |
| Metabolism and biogenesis | ARG1 | ARGinine requiring, acetylglutamate synthase | 7 (123) | Affinity purification |
| BNI4 | Bud Neck Involved, required for localization of chitin synthase III to the bud neck | 1 (332), 7 (332) | Synthetic sick (rvs161), synthetic lethal (rvs167) | |
| CCW12 | Covalently linked Cell Wall protein, expression down-regulated by alpha factor | 1 (332), 7 (332) | Synthetic lethal | |
| CHS3 | CHitin Synthase-related, chitin synthase III | 1 (332), 7 (332) | Synthetic sick | |
| CHS5 | CHitin Synthase-related, molecular function unknown | 1 (332), 7 (332) | Synthetic sick | |
| CHS6 | CHitin Synthase-related, molecular function unknown | 1 (332), 7 (332) | Synthetic sick | |
| CHS7 | CHitin Synthase-related, molecular function unknown | 1 (332), 7 (332) | Synthetic sick | |
| COR1 | CORe protein of QH2 cytochrome c reductase | 7 (123) | Affinity purification | |
| CSF1 | Cold Sensitive for Fermentation | 1 (332), 7 (332) | Synthetic lethal | |
| DEP1 | Disability in regulation of Expression of genes involved in Phospholipid biosynthesis | 1 (332), 7 (332) | Synthetic sick | |
| DOA1 | Degradation Of Alpha2, regulatory component of the proteasome pathway | 1 (332), 7 (332) | Synthetic sick | |
| ECM29 | ExtraCellular Mutant, major component of the proteasome | 7 (123) | Affinity purification | |
| FKS1 | FK506 Sensitivity, catalytic subunit of 1,3-β-d-glucan synthase | 7 (332) | Synthetic lethal | |
| FUS2 | cell FUSion, required for the alignment of parental nuclei before nuclear fusion during mating | 1 (18, 21, 97, 136, 221) | Two-hybrid, Co-IP | |
| GDH3 | Glutamate DeHydrogenase 3 | 7 (97) | Two-hybrid | |
| HOC1 | Homologous to OCh1, α-1,6-mannosyltransferase involved in cell wall mannan biosynthesis | 1 (332), 7 (332) | Synthetic sick (rvs161) synthetic lethal (rvs167) | |
| HOM6 | HOMoserine requiring, homoserine dehydrogenase | 7 (123) | Affinity purification | |
| HSP90 | Heat Shock Protein, cytoplasmic chaperone | 1 (389), 7 (332) | Synthetic lethal | |
| IDH1 | Isocitrate DeHydrogenase | 7 (123) | Affinity purification | |
| ILV5 | IsoLeucine-plus-Valine requiring, acetohydroxy acid reductoisomerase | 7 (123) | Affinity purification | |
| IPT1 | Inositol PhosphoTransferase | 1 (10) | Genetic suppression | |
| LPD1 | LiPoamide Dehydrogenase | 7 (123) | Affinity purification | |
| KGD2 | α-KetoGlutarate Dehydrogenase | 7 (123) | Affinity purification | |
| KRE1 | Killer toxin REsistant, cell wall glycoprotein involved in β-glucan assembly | 1 (332), 7 (332) | Synthetic sick | |
| KRE6 | Killer toxin REsistant, cell wall glycoprotein involved in β-glucan assembly | 7 (20) | Synthetic sick | |
| LYS12 | LYSine requiring | 7 (123) | Affinity purification | |
| MET18 | METhionine requiring | 7 (123) | Affinity purification | |
| MUS81 | MMS and UV Sensitive, Helix-hairpin-helix protein | 7 (18) | Two-hybrid | |
| PDI1 | Protein Disulfide Isomerase | 1 (114) | Two-hybrid | |
| PHO23 | PHOsphate metabolism, component of the Rpd3 histone deacetylase complex | 1 (332), 7 (332) | Synthetic sick | |
| PMI40 | PhosphoMannose Isomerase | 7 (123) | Affinity purification | |
| PRE10 | PRoteinase yscE, 20S proteasome α-type subunit | 7 (123) | Affinity purification | |
| PSK1 | Pas domain-containing Serine/threonine protein Kinase | 7 (160) | Peptide scanning | |
| SKT5 | Activator of Chs3p (chitin synthase III) | 1 (332), 7 (332) | Synthetic sick (rvs161), synthetic lethal (rvs167) | |
| SMI1 | Suppressor of MAR Inhibitor, involved in (1,3)-β-glucan synthesis | 7 (332) | Synthetic sick | |
| SML1 | Suppressor of Mec Lethality, ribonucleotide reductase inhibitor | 7 (160) | Peptide scanning | |
| SRV2 | Suppressor of RasVal19, adenylyl cyclase-associated protein | 7 (59, 176) | Two-hybrid, synthetic sick | |
| SUR1 | SUppressor of rvs161 and rvs167 mutations, catalytic subunit of a mannosylinositol phosphorylceramide synthase | 1 (53) | Genetic suppression | |
| SUR2 | SUppressor of rvs161 and rvs167 mutations, sphingosine hydroxylase | 1 (53) | Genetic suppression | |
| TPS1 | Trehalose-6-Phosphate Synthase, regulator of glucose influx into the cell and into glycolytic pathway | 1 (332), 7 (332) | Synthetic sick | |
| TRP5 | TRyPtophan requiring | 7 (123) | Affinity purification | |
| UBI4 | UBIquitin | 7 (123) | Affinity purification | |
| UBP7 | UBIquitin-specific Protease | 7 (123) | Affinity purification | |
| URA7 | URAcil requiring | 7 (18, 123) | Affinity purification | |
| RNA and translational regulation | CDC33 | Cell Division Cycle, cytoplasmic mRNA cap binding protein | 7 (123) | Affinity purification |
| DED1 | DEaD-box protein, ATP-dependent DEAD (Asp-Glu-Ala-Asp)-box RNA helicase | 7 (123) | Affinity purification | |
| KRS1 | Lysyl (K) tRNA Synthetase | 7 (123) | Affinity purification | |
| LCP5 | Lethal with Conditional Pap1, essential protein involved in maturation of 18S rRNA | 7 (18) | Two-hybrid | |
| MSU1 | Degradosome associates with the ribosome and mediates turnover of RNAs | 7 (18, 331) | Two-hybrid | |
| PRP40 | Pre-mRNA Processing, U1 snRNP protein involved in splicing | 7 (114) | Two-hybrid | |
| RPC40 | RNA Polymerase C subunit | 7 (123) | Affinity purification | |
| SES1 | SEryl-tRNA Synthetase | 7 (123) | Affinity purification | |
| SLF1 | Associates with translating ribosomes | 7 (18) | Two-hybrid | |
| SNP1 | U1snRNP 70K protein homolog | 7 (160) | Peptide scanning | |
| Others and unknown | CUE5 | Coupling of Ubiquitin conjugation to ER degradation | 7 (160) | Peptide scanning |
| DEM1 | Differentially Expressed in Malignancies, molecular function unknown | 7 (160) | Peptide scanning | |
| ECM30 | ExtraCellular Mutant, function unknown | 7 (18) | Two-hybrid | |
| GFD2 | Great for Full DEAD box protein activity, molecular function unknown | 7 (18) | Two-hybrid | |
| HUA1 | Unknown function | 7 (59, 136) | Two-hybrid | |
| HUA2 | Unknown function | 7 (59) | Two-hybrid | |
| RXT2 | Molecular function unknown | 1 (332), 7 (332) | Synthetic sick | |
| SDS23 | Homolog of S. pombe SDS23, implicated in APC/cyclosome regulation | 1 (114) | Two-hybrid | |
| YBP2 | Yap1 Bing Protein, protein with a role in resistance to oxidative stress | 7 (18, 136) | Two-hybrid, affinity purification | |
| YBR108W | Hypothetical ORF | 1 (339), 7 (59, 97, 136, 160) | Two-hybrid, peptide scanning | |
| YBR239C | Hypothetical ORF | 7 (160) | Peptide scanning | |
| YBR255W | Hypothetical ORF | 1 (332), 7(332) | Synthetic sick | |
| YDL156W | Hypothetical ORF | 7 (160) | Two-hybrid, peptide scanning | |
| YDR154C | Hypothetical ORF | 1 (136) | Two-hybrid | |
| YDR239C | Hypothetical ORF | 7 (160) | Peptide scanning | |
| YGL085W | Hypothetical ORF | 7 (160) | Peptide scanning | |
| YLR111W | Hypothetical ORF | 1 (332), 7 (332) | Synthetic sick | |
| YLR243W | Hypothetical ORF | 7 (123) | Affinity purification | |
| YNL086W | Hypothetical ORF | 7 (59) | Two-hybrid | |
| YNL152W | Hypothetical ORF | 7 (160) | Peptide scanning | |
| YPL009C | Hypothetical ORF | 7 (160) | Peptide scanning | |
| YPR091C | Hypothetical ORF | 7 (160) | Peptide scanning |
a
This table contains a comprehensive listing of all reported genetic and physical interactions. Many interactions require further confirmation. Note that some interactions of Rvs proteins are with proteins whose predominant subcellular localization seems incompatible with interaction (e.g., Pdi1p is a protein of the ER lumen). The existence of additional (perhaps minor) cytoplasmic pools of these proteins cannot be formally excluded and so these putative interactions are included here. Abbreviations: ELISA, enzyme-linked immunosorbent assay; Co-Ip, coimmunoprecipitation; MAP, mitogen-activated protein; SPB, spindle pole body; R-SNARE, R-type soluble N-ethylmaleimide-sensitive fusion protein attachment protein receptor; CoA, coenzyme A; ORF, open reading frame; APC, anaphase promoting complex; MMS, methyl methanesulfonate. This table does not include all of the synthetic lethal interactions recently reported in reference 84a.
b
1, interaction with Rvs161; 7, interaction with Rvs167.
c
Information on gene/gene product nomenclature and function was obtained from the Saccharomyces Genome Database (R. Balakrishnan, K. R. Christie, M. C. Costanzo, K. Dolinski, S. S. Dwight, S. R. Engel, D. G. Fisk, J. E. Hirschman, E. L. Hong, R. Nash, R. Oughtred, M. Skrzypek, C. L. Theesfeld, G. Binkley, C. Lane, M. Schroeder, A. Sethuraman, S. Dong, S. Weng, S. Miyasato, R. Andrada, D. Botstein, and J. M. Cherry [http://www.yeastgenome.org/ {November 2005}]).