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 NA
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