This page displays GO annotations in different sections according to the annotation method used to add that annotation to SGD.

Last Reviewed on: 2008-10-29    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
phosphatidylinositol binding	IDA: Inferred from Direct Assay Assigned on 2008-10-13	Dunn R, et al.  (2004) The C2 domain of the Rsp5 ubiquitin ligase binds membrane phosphoinositides and directs ubiquitination of endosomal cargo. J Cell Biol 165(1):135-44	SGD
ubiquitin binding	IDA: Inferred from Direct Assay Assigned on 2009-03-09	French ME, et al.  (2009) Regulation of the RSP5 Ubiquitin Ligase by an Intrinsic Ubiquitin-binding Site. J Biol Chem 284(18):12071-9	SGD
ubiquitin-protein ligase activity	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13 IDA: Inferred from Direct Assay Assigned on 2001-01-18	Huibregtse JM, et al.  (1997) The large subunit of RNA polymerase II is a substrate of the Rsp5 ubiquitin-protein ligase. Proc Natl Acad Sci U S A 94(8):3656-61	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
cellular response to UV	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Beaudenon SL, et al.  (1999) Rsp5 ubiquitin-protein ligase mediates DNA damage-induced degradation of the large subunit of RNA polymerase II in Saccharomyces cerevisiae. Mol Cell Biol 19(10):6972-9	SGD
chromatin assembly or disassembly	IMP: Inferred from Mutant Phenotype Assigned on 2002-11-15	Harkness TA, et al.  (2002) The ubiquitin-dependent targeting pathway in Saccharomyces cerevisiae plays a critical role in multiple chromatin assembly regulatory steps. Genetics 162(2):615-32	SGD
late endosome to vacuole transport via multivesicular body sorting pathway	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13 IPI: Inferred from Physical Interaction with SGD:SNA3 Assigned on 2008-10-13	Oestreich AJ, et al.  (2007) Characterization of multiple multivesicular body sorting determinants within Sna3: a role for the ubiquitin ligase Rsp5. Mol Biol Cell 18(2):707-20	SGD
mitochondrion organization	IGI: Inferred from Genetic Interaction with SGD:MDM1 Assigned on 2008-10-13 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Fisk HA and Yaffe MP  (1999) A role for ubiquitination in mitochondrial inheritance in Saccharomyces cerevisiae. J Cell Biol 145(6):1199-208	SGD
positive regulation of endocytosis	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Davies BA, et al.  (2003) Vps9p CUE domain ubiquitin binding is required for efficient endocytic protein traffic. J Biol Chem 278(22):19826-33	SGD
positive regulation of fatty acid biosynthetic process	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Hoppe T, et al.  (2000) Activation of a membrane-bound transcription factor by regulated ubiquitin/proteasome-dependent processing. Cell 102(5):577-86	SGD
positive regulation of receptor-mediated endocytosis	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Dunn R and Hicke L  (2001) Domains of the Rsp5 ubiquitin-protein ligase required for receptor-mediated and fluid-phase endocytosis. Mol Biol Cell 12(2):421-35	SGD
positive regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Hoppe T, et al.  (2000) Activation of a membrane-bound transcription factor by regulated ubiquitin/proteasome-dependent processing. Cell 102(5):577-86	SGD
proteasomal ubiquitin-dependent protein catabolic process	IPI: Inferred from Physical Interaction with SGD:HPR1 Assigned on 2008-10-13	Gwizdek C, et al.  (2005) The mRNA nuclear export factor Hpr1 is regulated by Rsp5-mediated ubiquitylation. J Biol Chem 280(14):13401-5	SGD
protein monoubiquitination	IGI: Inferred from Genetic Interaction with SGD:GPA1 Assigned on 2009-02-11 IMP: Inferred from Mutant Phenotype Assigned on 2009-02-11 IDA: Inferred from Direct Assay Assigned on 2009-02-11	Torres MP, et al.  (2009) G Protein Mono-ubiquitination by the Rsp5 Ubiquitin Ligase. J Biol Chem 284(13):8940-50	SGD
	IGI: Inferred from Genetic Interaction with SGD:RVS167 Assigned on 2008-10-13 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Stamenova SD, et al.  (2004) The Rsp5 ubiquitin ligase binds to and ubiquitinates members of the yeast CIN85-endophilin complex, Sla1-Rvs167. J Biol Chem 279(16):16017-25	SGD
protein polyubiquitination	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13 IDA: Inferred from Direct Assay Assigned on 2001-01-18	Huibregtse JM, et al.  (1997) The large subunit of RNA polymerase II is a substrate of the Rsp5 ubiquitin-protein ligase. Proc Natl Acad Sci U S A 94(8):3656-61	SGD
protein ubiquitination involved in ubiquitin-dependent protein catabolic process	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Springael JY and Andre B  (1998) Nitrogen-regulated ubiquitination of the Gap1 permease of Saccharomyces cerevisiae. Mol Biol Cell 9(6):1253-63	SGD
regulation of actin cytoskeleton organization	IGI: Inferred from Genetic Interaction with SGD:END3 Assigned on 2008-10-13	Gourlay CW and Ayscough KR  (2005) Identification of an upstream regulatory pathway controlling actin-mediated apoptosis in yeast. J Cell Sci 118(Pt 10):2119-32	SGD
regulation of dolichol biosynthetic process	IGI: Inferred from Genetic Interaction with SGD:MGA2, SGD:SPT23 Assigned on 2008-10-29 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-29	Kaliszewski P, et al.  (2008) Rsp5p ubiquitin ligase and the transcriptional activators Spt23p and Mga2p are involved in co-regulation of biosynthesis of end products of the mevalonate pathway and triacylglycerol in yeast Saccharomyces cerevisiae. Biochim Biophys Acta 1781(10):627-34	SGD
regulation of ergosterol biosynthetic process	IGI: Inferred from Genetic Interaction with SGD:MGA2, SGD:SPT23 Assigned on 2008-10-13 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Kaliszewski P, et al.  (2008) Rsp5p ubiquitin ligase and the transcriptional activators Spt23p and Mga2p are involved in co-regulation of biosynthesis of end products of the mevalonate pathway and triacylglycerol in yeast Saccharomyces cerevisiae. Biochim Biophys Acta 1781(10):627-34	SGD
regulation of mRNA export from nucleus	IPI: Inferred from Physical Interaction with SGD:HPR1 Assigned on 2008-10-29	Gwizdek C, et al.  (2005) The mRNA nuclear export factor Hpr1 is regulated by Rsp5-mediated ubiquitylation. J Biol Chem 280(14):13401-5	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2010-11-15	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
regulation of multivesicular body size	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-29	McNatt MW, et al.  (2007) Direct binding to Rsp5 mediates ubiquitin-independent sorting of Sna3 via the multivesicular body pathway. Mol Biol Cell 18(2):697-706	SGD
regulation of nitrogen utilization	IGI: Inferred from Genetic Interaction with SGD:NPR1 Assigned on 2008-10-13	Crespo JL, et al.  (2004) NPR1 kinase and RSP5-BUL1/2 ubiquitin ligase control GLN3-dependent transcription in Saccharomyces cerevisiae. J Biol Chem 279(36):37512-7	SGD
regulation of phosphate metabolic process	IGI: Inferred from Genetic Interaction with SGD:PHO4 Assigned on 2008-10-13	Estrella LA, et al.  (2008) The Rsp5 E3 Ligase Mediates Turnover of Low Affinity Phosphate Transporters in Saccharomyces cerevisiae. J Biol Chem 283(9):5327-34	SGD
regulation of protein localization	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13 IPI: Inferred from Physical Interaction with SGD:MGA2 Assigned on 2008-10-13	Shcherbik N, et al.  (2003) Rsp5p is required for ER bound Mga2p120 polyubiquitination and release of the processed/tethered transactivator Mga2p90. Curr Biol 13(14):1227-33	SGD
regulation of ribosomal large subunit export from nucleus	IMP: Inferred from Mutant Phenotype Assigned on 2010-11-15	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
regulation of rRNA processing	IMP: Inferred from Mutant Phenotype Assigned on 2010-11-15	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
regulation of tRNA export from nucleus	IMP: Inferred from Mutant Phenotype Assigned on 2010-11-15	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
regulation of tRNA processing	IMP: Inferred from Mutant Phenotype Assigned on 2010-11-15	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
regulation of ubiquinone biosynthetic process	IGI: Inferred from Genetic Interaction with SGD:MGA2, SGD:SPT23 Assigned on 2008-10-29 IMP: Inferred from Mutant Phenotype Assigned on 2008-10-29	Kaliszewski P, et al.  (2008) Rsp5p ubiquitin ligase and the transcriptional activators Spt23p and Mga2p are involved in co-regulation of biosynthesis of end products of the mevalonate pathway and triacylglycerol in yeast Saccharomyces cerevisiae. Biochim Biophys Acta 1781(10):627-34	SGD
response to drug	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13 IPI: Inferred from Physical Interaction with SGD:ROD1 Assigned on 2008-10-13	Andoh T, et al.  (2002) PY motifs of Rod1 are required for binding to Rsp5 and for drug resistance. FEBS Lett 525(1-3):131-4	SGD
ribophagy	IGI: Inferred from Genetic Interaction with SGD:UBP3 Assigned on 2008-08-22	Kraft C and Peter M  (2008) Is the Rsp5 ubiquitin ligase involved in the regulation of ribophagy? Autophagy 4(6):838-40	SGD
ubiquitin-dependent endocytosis	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-29	Kim Y, et al.  (2007) GGA2- and Ubiquitin-dependent Trafficking of Arn1, the Ferrichrome Transporter of Saccharomyces cerevisiae. Mol Biol Cell 18(5):1790-802	SGD
ubiquitin-dependent protein catabolic process via the multivesicular body sorting pathway	IMP: Inferred from Mutant Phenotype Assigned on 2008-10-13	Kim Y, et al.  (2007) GGA2- and Ubiquitin-dependent Trafficking of Arn1, the Ferrichrome Transporter of Saccharomyces cerevisiae. Mol Biol Cell 18(5):1790-802	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
cellular bud tip	IDA: Inferred from Direct Assay Assigned on 2008-10-13	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
cytoplasm	IDA: Inferred from Direct Assay Assigned on 2008-10-13	Dunn R, et al.  (2004) The C2 domain of the Rsp5 ubiquitin ligase binds membrane phosphoinositides and directs ubiquitination of endosomal cargo. J Cell Biol 165(1):135-44	SGD
	IDA: Inferred from Direct Assay Assigned on 2005-01-25	Katzmann DJ, et al.  (2004) Multivesicular body sorting: ubiquitin ligase Rsp5 is required for the modification and sorting of carboxypeptidase S. Mol Biol Cell 15(2):468-80	SGD
endosome membrane	IDA: Inferred from Direct Assay Assigned on 2005-01-25	Katzmann DJ, et al.  (2004) Multivesicular body sorting: ubiquitin ligase Rsp5 is required for the modification and sorting of carboxypeptidase S. Mol Biol Cell 15(2):468-80	SGD
extrinsic to internal side of plasma membrane	IDA: Inferred from Direct Assay Assigned on 2008-10-13	Dunn R, et al.  (2004) The C2 domain of the Rsp5 ubiquitin ligase binds membrane phosphoinositides and directs ubiquitination of endosomal cargo. J Cell Biol 165(1):135-44	SGD
Golgi apparatus	IDA: Inferred from Direct Assay Assigned on 2005-01-25	Katzmann DJ, et al.  (2004) Multivesicular body sorting: ubiquitin ligase Rsp5 is required for the modification and sorting of carboxypeptidase S. Mol Biol Cell 15(2):468-80	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2008-10-13	Neumann S, et al.  (2003) Formation and nuclear export of tRNA, rRNA and mRNA is regulated by the ubiquitin ligase Rsp5p. EMBO Rep 4(12):1156-62	SGD
ubiquitin ligase complex	IPI: Inferred from Physical Interaction with SGD:BUL1 Assigned on 2008-10-13	Yashiroda H, et al.  (1998) The PY-motif of Bul1 protein is essential for growth of Saccharomyces cerevisiae under various stress conditions. Gene 225(1-2):39-46	SGD

* Manually curated GO annotations reflect our best understanding of the basic molecular function, biological process, and cellular component for this gene product. Manually curated annotations are assigned by SGD curators based on published papers when available, or by curatorial statements if necessary. Curators periodically review all Manually curated GO annotations for accuracy and completeness. The "Last Reviewed on:" date at the top of this section indicates when these annotations were last reviewed.

Cellular Component

High-throughput Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
mitochondrion	IDA: Inferred from Direct Assay Assigned on 2006-12-12	Reinders J, et al.  (2006) Toward the complete yeast mitochondrial proteome: multidimensional separation techniques for mitochondrial proteomics. J Proteome Res 5(7):1543-54	SGD
	IDA: Inferred from Direct Assay Assigned on 2004-09-28	Sickmann A, et al.  (2003) The proteome of Saccharomyces cerevisiae mitochondria. Proc Natl Acad Sci U S A 100(23):13207-12	SGD
plasma membrane	IDA: Inferred from Direct Assay Assigned on 2009-04-29	Delom F, et al.  (2006) The plasma membrane proteome of Saccharomyces cerevisiae and its response to the antifungal calcofluor. Proteomics 6(10):3029-39	SGD

** GO annotations from High-throughput experiments are made based on a variety of large scale high-throughput experiments, including genome-wide experiments. Many of these annotations are made based on GO annotations (or mappings to GO annotations) assigned by the authors, rather than SGD curators. While SGD curators read these publications and often work closely with authors to incorporate the information, each individual annotation may not necessarily be reviewed by a curator. GO Annotations from high-throughput experiments will be assigned only when this type of data is available, and thus may not be assigned in all three aspects of the Gene Ontologies.

Molecular Function | Biological Process | Cellular Component

Computational Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
ligase activity	IEA: Inferred from Electronic Annotation with EBI:KW-0436 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
ubiquitin-protein ligase activity	IEA: Inferred from Electronic Annotation with EBI:IPR024928, EBI:IPR000569 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

Computational Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
cellular protein modification process	IEA: Inferred from Electronic Annotation with EBI:IPR000569 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
protein ubiquitination	IEA: Inferred from Electronic Annotation with UniPathway:UPA00143 Last updated 2013-03-02	UniProt-GOA  (2012) Gene Ontology annotation based on UniPathway vocabulary mapping.	UniPathway

Computational Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
actin cortical patch	IEA: Inferred from Electronic Annotation with EBI:SL-0008 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
cytoplasm	IEA: Inferred from Electronic Annotation with EBI:SL-0086 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
	IEA: Inferred from Electronic Annotation with EBI:KW-0963 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
cytoskeleton	IEA: Inferred from Electronic Annotation with EBI:KW-0206 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
intracellular	IEA: Inferred from Electronic Annotation with EBI:IPR000569 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
nucleus	IEA: Inferred from Electronic Annotation with EBI:SL-0191 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on the manual assignment of UniProtKB Subcellular Location terms in UniProtKB/Swiss-Prot entries.	UniProtKB
	IEA: Inferred from Electronic Annotation with EBI:KW-0539 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB

*** Computational GO Annotations are predictions. These annotations are NOT reviewed by a curator. Currently, all computational GO annotations for S. cerevisiae are assigned by an external source (for example, the Gene Ontology Annotation (GOA) project of the European Bioinformatics Institute (EBI)).