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

Last Reviewed on: 2011-09-01    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	IDA: Inferred from Direct Assay Assigned on 2011-07-12	Song W and Carlson M  (1998) Srb/mediator proteins interact functionally and physically with transcriptional repressor Sfl1. EMBO J 17(19):5757-65	SGD
	IDA: Inferred from Direct Assay Assigned on 2011-07-12	Conlan RS and Tzamarias D  (2001) Sfl1 functions via the co-repressor Ssn6-Tup1 and the cAMP-dependent protein kinase Tpk2. J Mol Biol 309(5):1007-15	SGD
	IDA: Inferred from Direct Assay Assigned on 2011-07-12	Pan X and Heitman J  (2002) Protein kinase A operates a molecular switch that governs yeast pseudohyphal differentiation. Mol Cell Biol 22(12):3981-93	SGD
RNA polymerase II repressing transcription factor binding	IPI: Inferred from Physical Interaction with SGD:CYC8 Assigned on 2011-07-12	Conlan RS and Tzamarias D  (2001) Sfl1 functions via the co-repressor Ssn6-Tup1 and the cAMP-dependent protein kinase Tpk2. J Mol Biol 309(5):1007-15	SGD
sequence-specific transcription regulatory region DNA binding RNA polymerase II transcription factor recruiting transcription factor activity	IPI: Inferred from Physical Interaction with SGD:SIN4, SGD:SSN2, SGD:SSN8 Assigned on 2011-07-12	Song W and Carlson M  (1998) Srb/mediator proteins interact functionally and physically with transcriptional repressor Sfl1. EMBO J 17(19):5757-65	SGD
	IPI: Inferred from Physical Interaction with SGD:CYC8 Assigned on 2011-07-12	Conlan RS and Tzamarias D  (2001) Sfl1 functions via the co-repressor Ssn6-Tup1 and the cAMP-dependent protein kinase Tpk2. J Mol Biol 309(5):1007-15	SGD

Manually curated Biological Process
Annotation(s)	Evidence	Reference(s)	Assigned By
gene silencing	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-12	Halme A, et al.  (2004) Genetic and epigenetic regulation of the FLO gene family generates cell-surface variation in yeast. Cell 116(3):405-15	SGD
negative regulation of invasive growth in response to glucose limitation by negative regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype 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:FLO11 Assigned on 2012-05-07 IMP: Inferred from Mutant Phenotype Assigned on 2012-05-07	Robertson LS and Fink GR  (1998) The three yeast A kinases have specific signaling functions in pseudohyphal growth. Proc Natl Acad Sci U S A 95(23):13783-7	SGD
negative regulation of pseudohyphal growth by negative regulation of transcription from RNA polymerase II promoter	IGI: Inferred from Genetic Interaction with SGD:FLO11 Assigned on 2012-05-07 IMP: Inferred from Mutant Phenotype Assigned on 2012-05-07	Robertson LS and Fink GR  (1998) The three yeast A kinases have specific signaling functions in pseudohyphal growth. Proc Natl Acad Sci U S A 95(23):13783-7	SGD
	IMP: Inferred from Mutant Phenotype Assigned on 2012-05-07	Pan X and Heitman J  (2002) Protein kinase A operates a molecular switch that governs yeast pseudohyphal differentiation. Mol Cell Biol 22(12):3981-93	SGD
positive regulation of transcription from RNA polymerase II promoter	IMP: Inferred from Mutant Phenotype Assigned on 2011-07-12	Ansanay Galeote V, et al.  (2007) Sfl1p acts as an activator of the HSP30 gene in Saccharomyces cerevisiae. Curr Genet 52(2):55-63	SGD

Manually curated Cellular Component
Annotation(s)	Evidence	Reference(s)	Assigned By
nucleus	IDA: Inferred from Direct Assay Assigned on 2011-07-12	Pan X and Heitman J  (2002) Protein kinase A operates a molecular switch that governs yeast pseudohyphal differentiation. Mol Cell Biol 22(12):3981-93	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
sequence-specific DNA binding	IEA: Inferred from Electronic Annotation with EBI:IPR000232 Last updated 2013-03-02	DDB, et al.  (2001) Gene Ontology annotation through association of InterPro records with GO terms.	InterPro
sequence-specific DNA binding transcription factor activity	IEA: Inferred from Electronic Annotation with EBI:IPR000232 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:IPR000232 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-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
nucleus	IEA: Inferred from Electronic Annotation with EBI:IPR000232 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: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)).