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

Last Reviewed on: 2009-11-11    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
ubiquitin-protein ligase activity	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11 IDA: Inferred from Direct Assay Assigned on 2009-11-11	Kim J and Roeder RG  (2009) Direct Bre1-Paf1 Complex Interactions and RING Finger-independent Bre1-Rad6 Interactions Mediate Histone H2B Ubiquitylation in Yeast. J Biol Chem 284(31):20582-92	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
chromatin silencing at telomere	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Wood A, et al.  (2003) Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Mol Cell 11(1):267-74	SGD
double-strand break repair via homologous recombination	IGI: Inferred from Genetic Interaction with SGD:RAD50 Assigned on 2009-11-11	Game JC, et al.  (2006) The RAD6/BRE1 histone modification pathway in Saccharomyces confers radiation resistance through a RAD51-dependent process that is independent of RAD18. Genetics 173(4):1951-68	SGD
histone monoubiquitination	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Hwang WW, et al.  (2003) A conserved RING finger protein required for histone H2B monoubiquitination and cell size control. Mol Cell 11(1):261-6	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Wood A, et al.  (2003) Bre1, an E3 ubiquitin ligase required for recruitment and substrate selection of Rad6 at a promoter. Mol Cell 11(1):267-74	SGD
intra-S DNA damage checkpoint	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Giannattasio M, et al.  (2005) The DNA damage checkpoint response requires histone H2B ubiquitination by Rad6-Bre1 and H3 methylation by Dot1. J Biol Chem 280(11):9879-86	SGD
meiotic DNA double-strand break formation	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Yamashita K, et al.  (2004) Rad6-Bre1-mediated histone H2B ubiquitylation modulates the formation of double-strand breaks during meiosis. Proc Natl Acad Sci U S A 101(31):11380-5	SGD
mitotic G1 DNA damage checkpoint	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Wysocki R, et al.  (2005) Role of Dot1-dependent histone H3 methylation in G1 and S phase DNA damage checkpoint functions of Rad9. Mol Cell Biol 25(19):8430-43	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2009-11-11	Game JC, et al.  (2006) The RAD6/BRE1 histone modification pathway in Saccharomyces confers radiation resistance through a RAD51-dependent process that is independent of RAD18. Genetics 173(4):1951-68	SGD
transcription from RNA polymerase II promoter	IGI: Inferred from Genetic Interaction with SGD:RPB9 Assigned on 2009-11-11	Xiao T, et al.  (2005) Histone H2B ubiquitylation is associated with elongating RNA polymerase II. Mol Cell Biol 25(2):637-51	SGD
	IPI: Inferred from Physical Interaction with SGD:PAF1 Assigned on 2009-11-11	Kim J and Roeder RG  (2009) Direct Bre1-Paf1 Complex Interactions and RING Finger-independent Bre1-Rad6 Interactions Mediate Histone H2B Ubiquitylation in Yeast. J Biol Chem 284(31):20582-92	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
colocalizes_with nuclear chromatin	IDA: Inferred from Direct Assay Assigned on 2009-11-11	Wood A, et al.  (2003) The Paf1 complex is essential for histone monoubiquitination by the Rad6-Bre1 complex, which signals for histone methylation by COMPASS and Dot1p. J Biol Chem 278(37):34739-42	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.

There are no High-throughput annotations for BRE1

** 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
metal ion binding	IEA: Inferred from Electronic Annotation with EBI:KW-0479 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
zinc ion binding	IEA: Inferred from Electronic Annotation with EBI:IPR001841, EBI:IPR007087 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
chromatin modification	IEA: Inferred from Electronic Annotation with EBI:KW-0156 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
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
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)).