TF Info Page for TCF3 (bHLH)

Conclusion

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

Description

Description: transcription factor 3 [Source:HGNC Symbol;Acc:HGNC:11633]
Entrez Summary This gene encodes a member of the E protein (class I) family of helix-loop-helix transcription factors. E proteins activate transcription by binding to regulatory E-box sequences on target genes as heterodimers or homodimers, and are inhibited by heterodimerization with inhibitor of DNA-binding (class IV) helix-loop-helix proteins. E proteins play a critical role in lymphopoiesis, and the encoded protein is required for B and T lymphocyte development. Deletion of this gene or diminished activity of the encoded protein may play a role in lymphoid malignancies. This gene is also involved in several chromosomal translocations that are associated with lymphoid malignancies including pre-B-cell acute lymphoblastic leukemia (t(1;19), with PBX1), childhood leukemia (t(19;19), with TFPT) and acute leukemia (t(12;19), with ZNF384). Alternatively spliced transcript variants encoding multiple isoforms have been observed for this gene, and a pseudogene of this gene is located on the short arm of chromosome 9. [provided by RefSeq, Sep 2011]
Ensembl ID: ENSG00000071564
External Link: CisBP
Interpro IPR011598; ;
Protein Domain: ENSP00000262965
Protein Domain: ENSP00000480564
Protein Domain: ENSP00000465510
Protein Domain: ENSP00000467508
Protein Domain: ENSP00000468487
Protein Domain: ENSP00000468481
Protein Domain: ENSP00000466954
Protein Domain: ENSP00000466565
Domain:
Protein: ENSP00000262965DBD: bHLHOther:
Protein: ENSP00000480564DBD: bHLHOther:
Protein: ENSP00000465510DBD: bHLHOther:
Protein: ENSP00000467508DBD: bHLHOther:
Protein: ENSP00000468487DBD: bHLHOther:
Protein: ENSP00000468481DBD: bHLHOther:
Protein: ENSP00000466954DBD: bHLHOther:
Protein: ENSP00000466565DBD: bHLHOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:14627819
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:14576336
GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:2105528 | NAS - PMID:2493990
GO:0051091
positive regulation of sequence-specific DNA binding transcription factor activity
IDA - PMID:14752053
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
SELEXJASPARDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
HT-SELEXYin2017Inferred - TCF12 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - TCF12 (92% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - TCF12 (92% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TCF12 (92% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Tcf12 (92% AA Identity, Mus musculus)
MiscHocoMocoInferred - TCF12 (92% AA Identity, Homo sapiens)
MiscHOMERInferred - TCF12 (92% AA Identity, Homo sapiens)
HT-SELEXJolma2010Inferred - TCF4 (88% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - TCF4 (88% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - TCF4 (88% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Tcf4 (88% AA Identity, Mus musculus)
SELEXHallikas2006Inferred - Tcf4 (88% AA Identity, Mus musculus)
MiscHocoMocoInferred - TCF4 (88% AA Identity, Homo sapiens)
MiscHOMERInferred - TCF4 (88% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Tcf12 (85% AA Identity, Mus musculus)
PBMBadis09Inferred - Tcf3 (83% AA Identity, Mus musculus)
PBMDREAM_contestInferred - Tcf3 (83% AA Identity, Mus musculus)
PBMZoo_01Inferred - Tcf3 (83% AA Identity, Mus musculus)
MiscHOMERInferred - Tcf3 (81% AA Identity, Mus musculus)
MiscHOMERInferred - Tcf3 (81% AA Identity, Mus musculus)
HT-SELEXNitta2015Inferred - da (74% AA Identity, Drosophila melanogaster)

Structure

Structure PDB 2QL2

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