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

Last Reviewed on: 2012-01-18    Molecular Function | Biological Process | Cellular Component

Manually curated Molecular Function
Annotation(s)	Evidence	Reference(s)	Assigned By
RNA polymerase II core promoter proximal region sequence-specific DNA binding	ISM: Inferred from Sequence Model Assigned on 2011-12-15 IDA: Inferred from Direct Assay Assigned on 2011-12-15	Park SH, et al.  (1999) Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol 19(3):2044-50	SGD
	IDA: Inferred from Direct Assay Assigned on 2012-01-18	Platara M, et al.  (2006) The Transcriptional Response of the Yeast Na+-ATPase ENA1 Gene to Alkaline Stress Involves Three Main Signaling Pathways. J Biol Chem 281(48):36632-42	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 2011-12-15 IDA: Inferred from Direct Assay Assigned on 2011-12-15	Park SH, et al.  (1999) Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol 19(3):2044-50	SGD
RNA polymerase II repressing transcription factor binding	IPI: Inferred from Physical Interaction Assigned on 2011-12-15	Park SH, et al.  (1999) Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol 19(3):2044-50	SGD
RNA polymerase II transcription factor binding transcription factor activity involved in negative regulation of transcription	IGI: Inferred from Genetic Interaction with SGD:CYC8, SGD:TUP1 Assigned on 2011-12-15	Park SH, et al.  (1999) Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol 19(3):2044-50	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
biofilm formation	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-18	Ishigami M, et al.  (2006) FLO11 Is the Primary Factor in Flor Formation Caused by Cell Surface Hydrophobicity in Wild-Type Flor Yeast. Biosci Biotechnol Biochem 70(3):660-6	SGD
	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2006-06-28	Kuchin S, et al.  (2002) Snf1 protein kinase and the repressors Nrg1 and Nrg2 regulate FLO11, haploid invasive growth, and diploid pseudohyphal differentiation. Mol Cell Biol 22(12):3994-4000	SGD
cellular hyperosmotic salinity response	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-18 IPI: Inferred from Physical Interaction with SGD:RIM101 Assigned on 2012-01-18	Lamb TM and Mitchell AP  (2003) The transcription factor Rim101p governs ion tolerance and cell differentiation by direct repression of the regulatory genes NRG1 and SMP1 in Saccharomyces cerevisiae. Mol Cell Biol 23(2):677-86	SGD
negative regulation of cellular hyperosmotic salinity response by negative regulation of transcription from RNA polymerase II promoter	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2012-05-07	Vyas VK, et al.  (2005) Repressors Nrg1 and Nrg2 regulate a set of stress-responsive genes in Saccharomyces cerevisiae. Eukaryot Cell 4(11):1882-91	SGD
negative regulation of cellular response to alkalinity by negative regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2012-05-07 IPI: Inferred from Physical Interaction with SGD:RIM101 Assigned on 2012-05-07	Lamb TM and Mitchell AP  (2003) The transcription factor Rim101p governs ion tolerance and cell differentiation by direct repression of the regulatory genes NRG1 and SMP1 in Saccharomyces cerevisiae. Mol Cell Biol 23(2):677-86	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-05-07	Platara M, et al.  (2006) The Transcriptional Response of the Yeast Na+-ATPase ENA1 Gene to Alkaline Stress Involves Three Main Signaling Pathways. J Biol Chem 281(48):36632-42	SGD
negative regulation of invasive growth in response to glucose limitation by negative regulation of transcription from RNA polymerase II promoter	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2012-05-07	van Dyk D, et al.  (2005) Mss11p is a central element of the regulatory network that controls FLO11 expression and invasive growth in Saccharomyces cerevisiae. Genetics 169(1):91-106	SGD
	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2012-05-07	Kuchin S, et al.  (2002) Snf1 protein kinase and the repressors Nrg1 and Nrg2 regulate FLO11, haploid invasive growth, and diploid pseudohyphal differentiation. Mol Cell Biol 22(12):3994-4000	SGD
negative regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-18	Ikeda M, et al.  (2008) The rim101 pathway is involved in rsb1 expression induced by altered lipid asymmetry. Mol Biol Cell 19(5):1922-31	SGD
negative regulation of transcription from RNA polymerase II promoter by glucose	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-18	Vyas VK, et al.  (2001) Interaction of the repressors Nrg1 and Nrg2 with the Snf1 protein kinase in Saccharomyces cerevisiae. Genetics 158(2):563-72	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-01-18	Zhou H and Winston F  (2001) NRG1 is required for glucose repression of the SUC2 and GAL genes of Saccharomyces cerevisiae. BMC Genet 2():5	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2011-12-15	Park SH, et al.  (1999) Nrg1 is a transcriptional repressor for glucose repression of STA1 gene expression in Saccharomyces cerevisiae. Mol Cell Biol 19(3):2044-50	SGD
	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2012-01-18	Vyas VK, et al.  (2005) Repressors Nrg1 and Nrg2 regulate a set of stress-responsive genes in Saccharomyces cerevisiae. Eukaryot Cell 4(11):1882-91	SGD
pseudohyphal growth	IGI: Inferred from Genetic Interaction with SGD:NRG2 Assigned on 2006-06-28	Kuchin S, et al.  (2002) Snf1 protein kinase and the repressors Nrg1 and Nrg2 regulate FLO11, haploid invasive growth, and diploid pseudohyphal differentiation. Mol Cell Biol 22(12):3994-4000	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
nucleus	IDA: Inferred from Direct Assay Assigned on 2012-01-18	Vyas VK, et al.  (2001) Interaction of the repressors Nrg1 and Nrg2 with the Snf1 protein kinase in Saccharomyces cerevisiae. Genetics 158(2):563-72	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

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	Zhu C, et al.  (2009) High-resolution DNA-binding specificity analysis of yeast transcription factors. Genome Res 19(4):556-66	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)).