TF Info Page for SRF (MADS box)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: serum response factor [Source:HGNC Symbol;Acc:HGNC:11291]
Entrez Summary This gene encodes a ubiquitous nuclear protein that stimulates both cell proliferation and differentiation. It is a member of the MADS (MCM1, Agamous, Deficiens, and SRF) box superfamily of transcription factors. This protein binds to the serum response element (SRE) in the promoter region of target genes. This protein regulates the activity of many immediate-early genes, for example c-fos, and thereby participates in cell cycle regulation, apoptosis, cell growth, and cell differentiation. This gene is the downstream target of many pathways; for example, the mitogen-activated protein kinase pathway (MAPK) that acts through the ternary complex factors (TCFs). Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, May 2014]
Ensembl ID: ENSG00000112658
External Link: CisBP
Interpro IPR002100; ;
Protein Domain: ENSP00000265354
Domain:
Protein: ENSP00000265354DBD: MADS boxOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:11278806 15728583 16170155
Vaquerizas 2009 TF classification
"a" Has direct evidence of TF function;
"b" Has evidence for an orthologous TF;
"c" contains likely DBDs, but has no functional evidence;
"x" is an unlikely TF such as predicted gene, genes with likely non-specific DBDs or that have function outside transcription;
"other" category contains proteins without clear DBDs they curated from external sources.
a
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" Yes
GO-Info GO:0000983
RNA polymerase II core promoter sequence-specific DNA binding transcription factor activity
IMP - PMID:18296735
GO:0001077
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IDA - PMID:20808827
GO:0001228
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
ISS - GO_REF:0000024
GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:3203386
GO:0003705
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
IEA - GO_REF:0000019
GO:0051091
positive regulation of sequence-specific DNA binding transcription factor activity
IDA - PMID:19098903
Initial Assessment
1a1 Protein has a high confidence PWM (HT-SELEX, PBM or B1H model) or there is a crystal structure that supports sequence specific DNA binding;
1a2 There is high confidence data for a close ortholog (as defined in CisBP);
2a1 There is lower confidence direct evidence, such as a Jaspar, Hocomoco or Transfac model;
2a2 There is lower confidence evidence for an close ortholog;
3a There is decent circumstantial evidence for its role as a TF or not;
4a Two or more datasets predict it as a TF;
5a One of the source datasets predicts is as a TF
1a1, Direct HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
SELEXJASPARDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBadis09Inferred - Srf (100% AA Identity, Mus musculus)
MiscHOMERInferred - Srf (100% AA Identity, Mus musculus)
HT-SELEXNitta2015Inferred - bs (95% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - bs (95% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - SRFA (89% AA Identity, Dictyostelium discoideum)
PBMCEPDInferred - unc-120 (89% AA Identity, Caenorhabditis elegans)
PBMZhu09Inferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)
COMPILEDJASPARInferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)
TransfacTransfacLicense requiredInferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)
TransfacTransfacLicense requiredInferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)
TransfacTransfacLicense requiredInferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)
MiscDeBoer11Inferred - MCM1 (81% AA Identity, Saccharomyces cerevisiae)

Structure

Structure PDB 1SRS

Experimental History

Method Constructs
Tried in PBM?
(Whether the protein was tried in PBM or not)
Tried in HT-SELEX
(Whether the protein was tried in HT-SELEX or not, and if so, then what kind of clones were tested)
Other Information?
(Tried with another method and failed?)

External Contribution