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

Last Reviewed on: 2012-03-08    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
ATP-dependent 3'-5' DNA helicase activity	IDA: Inferred from Direct Assay Assigned on 2012-03-02	Papin C, et al.  (2010) 3'- to 5' DNA unwinding by TIP49b proteins. FEBS J 277(12):2705-14	SGD
contributes_to ATP-dependent 3'-5' DNA helicase activity	IDA: Inferred from Direct Assay Assigned on 2007-10-04	Shen X, et al.  (2000) A chromatin remodelling complex involved in transcription and DNA processing. Nature 406(6795):541-4	SGD
ATP-dependent 5'-3' DNA helicase activity	IDA: Inferred from Direct Assay Assigned on 2012-03-02	Gribun A, et al.  (2008) Yeast Rvb1 and Rvb2 are ATP-dependent DNA helicases that form a heterohexameric complex. J Mol Biol 376(5):1320-33	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
box C/D snoRNP assembly	IMP: Inferred from Mutant Phenotype Assigned on 2012-03-02	King TH, et al.  (2001) A well-connected and conserved nucleoplasmic helicase is required for production of box C/D and H/ACA snoRNAs and localization of snoRNP proteins. Mol Cell Biol 21(22):7731-46	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-03-06	Zhao R, et al.  (2008) Molecular chaperone Hsp90 stabilizes Pih1/Nop17 to maintain R2TP complex activity that regulates snoRNA accumulation. J Cell Biol 180(3):563-78	SGD
chromatin remodeling	IPI: Inferred from Physical Interaction with SGD:VPS71 Assigned on 2012-03-02	Krogan NJ, et al.  (2003) A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Mol Cell 12(6):1565-76	SGD
histone exchange	IPI: Inferred from Physical Interaction with SGD:SWR1 Assigned on 2012-03-02	Mizuguchi G, et al.  (2004) ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex. Science 303(5656):343-8	SGD
regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2002-09-26	Jonsson ZO, et al.  (2001) Rvb1p and Rvb2p are essential components of a chromatin remodeling complex that regulates transcription of over 5% of yeast genes. J Biol Chem 276(19):16279-88	SGD
rRNA processing	IMP: Inferred from Mutant Phenotype Assigned on 2002-09-26	King TH, et al.  (2001) A well-connected and conserved nucleoplasmic helicase is required for production of box C/D and H/ACA snoRNAs and localization of snoRNP proteins. Mol Cell Biol 21(22):7731-46	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
Ino80 complex	IPI: Inferred from Physical Interaction with SGD:INO80 Assigned on 2005-04-11	Shen X, et al.  (2000) A chromatin remodelling complex involved in transcription and DNA processing. Nature 406(6795):541-4	SGD
colocalizes_with nuclear telomeric heterochromatin	IDA: Inferred from Direct Assay Assigned on 2012-03-06	Grandin N and Charbonneau M  (2011) Rvb2/reptin physically associates with telomerase in budding yeast. FEBS Lett 585(24):3890-7	SGD
nucleus	IDA: Inferred from Direct Assay Assigned on 2002-09-26	King TH, et al.  (2001) A well-connected and conserved nucleoplasmic helicase is required for production of box C/D and H/ACA snoRNAs and localization of snoRNP proteins. Mol Cell Biol 21(22):7731-46	SGD
R2TP complex	IDA: Inferred from Direct Assay Assigned on 2012-03-08	Zhao R, et al.  (2005) Navigating the chaperone network: an integrative map of physical and genetic interactions mediated by the hsp90 chaperone. Cell 120(5):715-27	SGD
	IPI: Inferred from Physical Interaction with SGD:RVB1, SGD:PIH1 Assigned on 2012-03-08	Zhao R, et al.  (2008) Molecular chaperone Hsp90 stabilizes Pih1/Nop17 to maintain R2TP complex activity that regulates snoRNA accumulation. J Cell Biol 180(3):563-78	SGD
Swr1 complex	IPI: Inferred from Physical Interaction with SGD:VPS71 Assigned on 2012-03-02	Krogan NJ, et al.  (2003) A Snf2 family ATPase complex required for recruitment of the histone H2A variant Htz1. Mol Cell 12(6):1565-76	SGD
	IDA: Inferred from Direct Assay Assigned on 2006-10-24	Wu WH, et al.  (2005) Swc2 is a widely conserved H2AZ-binding module essential for ATP-dependent histone exchange. Nat Struct Mol Biol 12(12):1064-71	SGD
	IPI: Inferred from Physical Interaction with SGD:SWR1 Assigned on 2012-03-02	Mizuguchi G, et al.  (2004) ATP-driven exchange of histone H2AZ variant catalyzed by SWR1 chromatin remodeling complex. Science 303(5656):343-8	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
ASTRA complex	IDA: Inferred from Direct Assay Assigned on 2009-01-08	Shevchenko A, et al.  (2008) Chromatin Central: towards the comparative proteome by accurate mapping of the yeast proteomic environment. Genome Biol 9(11):R167	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
ATP binding	IEA: Inferred from Electronic Annotation with EBI:IPR010339 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 EBI:KW-0067 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
ATP-dependent 5'-3' DNA helicase activity	IEA: Inferred from Electronic Annotation with EBI:IPR027238 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
DNA helicase activity	IEA: Inferred from Electronic Annotation with EBI:IPR010339 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
helicase activity	IEA: Inferred from Electronic Annotation with EBI:KW-0347 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
hydrolase activity	IEA: Inferred from Electronic Annotation with EBI:KW-0378 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
nucleoside-triphosphatase activity	IEA: Inferred from Electronic Annotation with EBI:IPR003593 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
nucleotide binding	IEA: Inferred from Electronic Annotation with EBI:IPR003593 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 EBI:KW-0547 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 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
DNA duplex unwinding	IEA: Inferred from Electronic Annotation with EBI:IPR010339 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	GOC
DNA repair	IEA: Inferred from Electronic Annotation with EBI:KW-0234 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
regulation of transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:KW-0805 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
response to DNA damage stimulus	IEA: Inferred from Electronic Annotation with EBI:KW-0227 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
rRNA processing	IEA: Inferred from Electronic Annotation with EBI:KW-0698 Last updated 2013-03-02	UniProt-GOA  (2011) Gene Ontology annotation based on manual assignment of UniProtKB keywords in UniProtKB/Swiss-Prot entries.	UniProtKB
transcription, DNA-dependent	IEA: Inferred from Electronic Annotation with EBI:KW-0804 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 Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
Ino80 complex	IEA: Inferred from Electronic Annotation with EBI:IPR027238 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
nucleoplasm	IEA: Inferred from Electronic Annotation with EBI:SL-0190 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
nucleus	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)).