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

Last Reviewed on: 2011-07-07    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
histone demethylase activity (H3-K36 specific)	IMP: Inferred from Mutant Phenotype Assigned on 2007-03-24	Tu S, et al.  (2007) Identification of histone demethylases in Saccharomyces cerevisiae. J Biol Chem 282(19):14262-71	SGD
RNA polymerase II core promoter proximal region sequence-specific DNA binding	IDA: Inferred from Direct Assay Assigned on 2011-07-07	Oshiro J, et al.  (2003) Regulation of the yeast DPP1-encoded diacylglycerol pyrophosphate phosphatase by transcription factor Gis1p. J Biol Chem 278(34):31495-503	SGD
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07 IDA: Inferred from Direct Assay Assigned on 2011-07-07	Oshiro J, et al.  (2003) Regulation of the yeast DPP1-encoded diacylglycerol pyrophosphate phosphatase by transcription factor Gis1p. J Biol Chem 278(34):31495-503	SGD
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in positive regulation of transcription	IC: Inferred By Curator from positive regulation of transcription from RNA polymerase II promoter Assigned on 2011-07-14	Pedruzzi I, et al.  (2000) Saccharomyces cerevisiae Ras/cAMP pathway controls post-diauxic shift element-dependent transcription through the zinc finger protein Gis1. EMBO J 19(11):2569-79	SGD
	IC: Inferred By Curator from RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription Assigned on 2011-07-14	Oshiro J, et al.  (2003) Regulation of the yeast DPP1-encoded diacylglycerol pyrophosphate phosphatase by transcription factor Gis1p. J Biol Chem 278(34):31495-503	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
chronological cell aging	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07	Wei M, et al.  (2008) Life span extension by calorie restriction depends on Rim15 and transcription factors downstream of Ras/PKA, Tor, and Sch9. PLoS Genet 4(1):e13	SGD
histone demethylation	IMP: Inferred from Mutant Phenotype Assigned on 2007-03-24	Tu S, et al.  (2007) Identification of histone demethylases in Saccharomyces cerevisiae. J Biol Chem 282(19):14262-71	SGD
maintenance of stationary phase in response to starvation	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07	Zhang N, et al.  (2009) Gis1 is required for transcriptional reprogramming of carbon metabolism and the stress response during transition into stationary phase in yeast. Microbiology 155(Pt 5):1690-8	SGD
negative regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07	Jang YK, et al.  (1999) RPH1 and GIS1 are damage-responsive repressors of PHR1. Mol Cell Biol 19(11):7630-8	SGD
positive regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07 IDA: Inferred from Direct Assay Assigned on 2011-07-07	Pedruzzi I, et al.  (2000) Saccharomyces cerevisiae Ras/cAMP pathway controls post-diauxic shift element-dependent transcription through the zinc finger protein Gis1. EMBO J 19(11):2569-79	SGD
regulation of phospholipid biosynthetic process	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07	Oshiro J, et al.  (2003) Regulation of the yeast DPP1-encoded diacylglycerol pyrophosphate phosphatase by transcription factor Gis1p. J Biol Chem 278(34):31495-503	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
nucleus	IDA: Inferred from Direct Assay Assigned on 2011-07-07	Roosen J, et al.  (2005) PKA and Sch9 control a molecular switch important for the proper adaptation to nutrient availability. Mol Microbiol 55(3):862-80	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.

Molecular Function | Cellular Component

High-throughput Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
sequence-specific DNA binding	IDA: Inferred from Direct Assay Assigned on 2009-02-05	Badis G, et al.  (2008) A library of yeast transcription factor motifs reveals a widespread function for Rsc3 in targeting nucleosome exclusion at promoters. Mol Cell 32(6):878-87	SGD

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
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
DNA binding	IEA: Inferred from Electronic Annotation with EBI:KW-0238 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
nucleic acid binding	IEA: Inferred from Electronic Annotation with EBI:IPR013087 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
zinc ion binding	IEA: Inferred from Electronic Annotation with EBI:IPR015880, 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
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
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
intracellular	IEA: Inferred from Electronic Annotation with EBI:IPR015880 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)).