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

Last Reviewed on: 2003-10-28    Molecular Function | Biological Process

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
ubiquitin-ubiquitin ligase activity	IDA: Inferred from Direct Assay Assigned on 2008-06-05	Koegl M, et al.  (1999) A novel ubiquitination factor, E4, is involved in multiubiquitin chain assembly. Cell 96(5):635-44	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
ER-associated protein catabolic process	IMP: Inferred from Mutant Phenotype Assigned on 2011-05-19	Tran JR, et al.  (2011) A Cdc48p-associated factor modulates endoplasmic reticulum-associated degradation, cell stress, and ubiquitinated protein homeostasis. J Biol Chem 286(7):5744-55	SGD
protein ubiquitination	IDA: Inferred from Direct Assay Assigned on 2008-07-18	Koegl M, et al.  (1999) A novel ubiquitination factor, E4, is involved in multiubiquitin chain assembly. Cell 96(5):635-44	SGD
response to stress	IMP: Inferred from Mutant Phenotype Assigned on 2002-09-27	Koegl M, et al.  (1999) A novel ubiquitination factor, E4, is involved in multiubiquitin chain assembly. Cell 96(5):635-44	SGD
ubiquitin-dependent protein catabolic process	IMP: Inferred from Mutant Phenotype Assigned on 2002-09-27	Johnson ES, et al.  (1995) A proteolytic pathway that recognizes ubiquitin as a degradation signal. J Biol Chem 270(29):17442-56	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2002-09-27 IPI: Inferred from Physical Interaction Assigned on 2002-09-27	Koegl M, et al.  (1999) A novel ubiquitination factor, E4, is involved in multiubiquitin chain assembly. Cell 96(5):635-44	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
cytoplasm	IDA: Inferred from Direct Assay Assigned on 2003-10-28	Huh WK, et al.  (2003) Global analysis of protein localization in budding yeast. Nature 425(6959):686-91	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2003-10-28	Huh WK, et al.  (2003) Global analysis of protein localization in budding yeast. Nature 425(6959):686-91	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:IPR003613 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
ubiquitin-ubiquitin ligase activity	IEA: Inferred from Electronic Annotation with EBI:IPR019474 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
protein ubiquitination	IEA: Inferred from Electronic Annotation with EBI:IPR019474, EBI:IPR003613 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
	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
ubiquitin-dependent protein catabolic process	IEA: Inferred from Electronic Annotation with EBI:IPR019474 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

Computational Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
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
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
ubiquitin ligase complex	IEA: Inferred from Electronic Annotation with EBI:IPR019474, EBI:IPR003613 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro

*** 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)).