Ontology: Molecular Function (GO:0001078)

Definition: Interacting selectively and non-covalently with a sequence of DNA that is in cis with and relatively close to a core promoter for RNA polymerase II (RNAP II) in order to stop, prevent, or reduce the frequency, rate or extent of transcription from an RNA polymerase II promoter.

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This table lists the methods used to annotate genes either directly to the term RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription (16 genes) or to its variants containing one or more qualifiers (0 genes). Note that some genes may have been annotated by more than one method so the numbers in the table below may not add up to the totals given here.

Annotation Method	GO Term	# Yeast Genes Annotated
Manually curated (download data)	RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription	16
High-throughput	none	none
Computational	none	none

Links to Additional Annotations:

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• Search for S. cerevisiae genes annotated, by the Manually curated or High-throughput methods, to this term or to any terms that are descended from this term, i.e., child terms representing more specific biology than this term.

Annotation details for genes that have been directly annotated to the term RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription or its variants containing one or more qualifiers (NOT, contributes to, or colocalizes with).

RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor activity involved in negative regulation of transcription      16 genes directly annotated to this term
Locus	Evidence	Annotation Method	Reference	Assigned By
ASH1/YKL185W	IMP: Inferred from Mutant Phenotype Assigned on 2011-08-08	manually curated	Maxon ME and Herskowitz I  (2001) Ash1p is a site-specific DNA-binding protein that actively represses transcription. Proc Natl Acad Sci U S A 98(4):1495-500	SGD
	IDA: Inferred from Direct Assay Assigned on 2011-08-08	manually curated	Di Talia S, et al.  (2009) Daughter-specific transcription factors regulate cell size control in budding yeast. PLoS Biol 7(10):e1000221	SGD
CBF1/YJR060W	IDA: Inferred from Direct Assay Assigned on 2011-08-22	manually curated	Kolaczkowski M, et al.  (2004) Differential regulation of ceramide synthase components LAC1 and LAG1 in Saccharomyces cerevisiae. Eukaryot Cell 3(4):880-92	SGD
FKH1/YIL131C	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:FKH2 Assigned on 2011-12-15	manually curated	Zhu G, et al.  (2000) Two yeast forkhead genes regulate the cell cycle and pseudohyphal growth. Nature 406(6791):90-4	SGD
GIS1/YDR096W	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-07-07	manually curated	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
LEU3/YLR451W	IDA: Inferred from Direct Assay Assigned on 2011-12-13	manually curated	Sze JY, et al.  (1992) In vitro transcriptional activation by a metabolic intermediate: activation by Leu3 depends on alpha-isopropylmalate. Science 258(5085):1143-5	SGD
MCM1/YMR043W	IDA: Inferred from Direct Assay Assigned on 2012-01-30	manually curated	Acton TB, et al.  (1997) DNA-binding specificity of Mcm1: operator mutations that alter DNA-bending and transcriptional activities by a MADS box protein. Mol Cell Biol 17(4):1881-9	SGD
MIG1/YGL035C	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:TUP1, SGD:CYC8 Assigned on 2011-08-05	manually curated	Treitel MA and Carlson M  (1995) Repression by SSN6-TUP1 is directed by MIG1, a repressor/activator protein. Proc Natl Acad Sci U S A 92(8):3132-6	SGD
	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:MIG2, IMP: Inferred from Mutant Phenotype Assigned on 2011-07-29	manually curated	Lutfiyya LL, et al.  (1998) Characterization of three related glucose repressors and genes they regulate in Saccharomyces cerevisiae. Genetics 150(4):1377-91	SGD
MIG2/YGL209W	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:MIG1 Assigned on 2011-07-29	manually curated	Lutfiyya LL, et al.  (1998) Characterization of three related glucose repressors and genes they regulate in Saccharomyces cerevisiae. Genetics 150(4):1377-91	SGD
MIG3/YER028C	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:CYC8, SGD:TUP1, ISS: Inferred from Sequence or structural Similarity with SGD:MIG1, SGD:MIG2 Assigned on 2011-08-05	manually curated	Lutfiyya LL, et al.  (1998) Characterization of three related glucose repressors and genes they regulate in Saccharomyces cerevisiae. Genetics 150(4):1377-91	SGD
NRG1/YDR043C	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-12-15	manually curated	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
RIM101/YHL027W	IDA: Inferred from Direct Assay, IGI: Inferred from Genetic Interaction with SGD:NRG1, IMP: Inferred from Mutant Phenotype Assigned on 2012-02-25	manually curated	Rothfels K, et al.  (2005) Components of the ESCRT pathway, DFG16, and YGR122w are required for Rim101 to act as a corepressor with Nrg1 at the negative regulatory element of the DIT1 gene of Saccharomyces cerevisiae. Mol Cell Biol 25(15):6772-88	SGD
ROX1/YPR065W	IMP: Inferred from Mutant Phenotype Assigned on 2011-12-12	manually curated	Deckert J, et al.  (1999) Characterization of the DNA binding and bending HMG domain of the yeast hypoxic repressor Rox1. Nucleic Acids Res 27(17):3518-26	SGD
RPH1/YER169W	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2012-01-13	manually curated	Jang YK, et al.  (1999) RPH1 and GIS1 are damage-responsive repressors of PHR1. Mol Cell Biol 19(11):7630-8	SGD
SKO1/YNL167C	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-12-12	manually curated	Nehlin JO, et al.  (1992) Yeast SKO1 gene encodes a bZIP protein that binds to the CRE motif and acts as a repressor of transcription. Nucleic Acids Res 20(20):5271-8	SGD
	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-12-12	manually curated	Vincent AC and Struhl K  (1992) ACR1, a yeast ATF/CREB repressor. Mol Cell Biol 12(12):5394-405	SGD
	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-12-12	manually curated	Pascual-Ahuir A, et al.  (2001) The Sko1p repressor and Gcn4p activator antagonistically modulate stress-regulated transcription in Saccharomyces cerevisiae. Mol Cell Biol 21(1):16-25	SGD
	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-12-12	manually curated	Proft M and Serrano R  (1999) Repressors and upstream repressing sequences of the stress-regulated ENA1 gene in Saccharomyces cerevisiae: bZIP protein Sko1p confers HOG-dependent osmotic regulation. Mol Cell Biol 19(1):537-46	SGD
SUM1/YDR310C	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-08-01	manually curated	Pierce M, et al.  (2003) Sum1 and Ndt80 proteins compete for binding to middle sporulation element sequences that control meiotic gene expression. Mol Cell Biol 23(14):4814-25	SGD
UME6/YDR207C	IDA: Inferred from Direct Assay, IMP: Inferred from Mutant Phenotype Assigned on 2011-08-02	manually curated	Strich R, et al.  (1994) UME6 is a key regulator of nitrogen repression and meiotic development. Genes Dev 8(7):796-810	SGD
	IDA: Inferred from Direct Assay Assigned on 2011-08-02	manually curated	Goldmark JP, et al.  (2000) The Isw2 chromatin remodeling complex represses early meiotic genes upon recruitment by Ume6p. Cell 103(3):423-33	SGD

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