TF Info Page for CTCF (C2H2 ZF)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro Has a putative AT-hook

Description

Description: CCCTC-binding factor [Source:HGNC Symbol;Acc:HGNC:13723]
Entrez Summary This gene is a member of the BORIS + CTCF gene family and encodes a transcriptional regulator protein with 11 highly conserved zinc finger (ZF) domains. This nuclear protein is able to use different combinations of the ZF domains to bind different DNA target sequences and proteins. Depending upon the context of the site, the protein can bind a histone acetyltransferase (HAT)-containing complex and function as a transcriptional activator or bind a histone deacetylase (HDAC)-containing complex and function as a transcriptional repressor. If the protein is bound to a transcriptional insulator element, it can block communication between enhancers and upstream promoters, thereby regulating imprinted expression. Mutations in this gene have been associated with invasive breast cancers, prostate cancers, and Wilms' tumors. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2010]
Ensembl ID: ENSG00000102974
External Link: CisBP
Interpro IPR007087; IPR015880;
Protein Domain: ENSP00000264010
Protein Domain: ENSP00000384707
Domain:
Protein: ENSP00000264010DBD: C2H2 ZF Containing ProteinsOther:
Protein: ENSP00000384707DBD: C2H2 ZF Containing ProteinsOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:8246978 15143173
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:0001078
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IDA - PMID:8649389
GO:0001228
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IEA - GO_REF:0000019
GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:8649389, PMID:9591631
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
SMiLE-seqIsakova2017Direct
HT-SELEXJolma2013Direct
RCADESchmitges2016Direct
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqENCODEDirect
ChIP-seqJASPARDirect
ChIP-seqNajafabadi2015Direct
ChIP-exoRhee2011Direct
ChIP-exoRhee2011Direct
ChIP-exoRhee2011Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
MiscHOMERDirect
MiscHOMERDirect
ChIP-seqhmCHIPInferred - Ctcf (100% AA Identity, Mus musculus)
ChIP-seqENCODEInferred - CTCFL (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - CTCFL (73% AA Identity, Homo sapiens)
MiscHOMERInferred - CTCFL (73% AA Identity, Homo sapiens)

Structure

Structure PDB Not_Covered

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