TF Info Page for TBX4 (T-box)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro Available motifs suggest facultative homodimeric binding

Description

Description: T-box 4 [Source:HGNC Symbol;Acc:HGNC:11603]
Entrez Summary This gene is a member of a phylogenetically conserved family of genes that share a common DNA-binding domain, the T-box. T-box genes encode transcription factors involved in the regulation of developmental processes. This gene is the human homolog of mouse Tbx4, which is closely linked to Tbx2 on mouse chromosome 11. Similarly this gene, like TBX2, maps to human chromosome 17. Expression studies in mouse and chicken show that Tbx4 is expressed in developing hindlimb, but not in forelimb buds, suggesting a role for this gene in regulating limb development and specification of limb identity. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000121075
External Link: CisBP
Interpro IPR001699; IPR002070; IPR008967; IPR018186;
Protein Domain: ENSP00000240335
Protein Domain: ENSP00000377435
Protein Domain: ENSP00000467588
Domain:
Protein: ENSP00000240335DBD: T-boxOther:
Protein: ENSP00000377435DBD: T-boxOther:
Protein: ENSP00000467588DBD: T-boxOther:

Previous Annotations

Source Annotation
TF-CAT classification Indeterminate - There is no evidence for or against this genes role as a TF___
PMIDS:0
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:0003700
sequence-specific DNA binding transcription factor activity
TAS - PMID:10945475
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
PBMDREAM_contestInferred - Tbx4 (100% AA Identity, Mus musculus)
PBMDREAM_contestInferred - Tbx5 (92% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - TBX5 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TBX5 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TBX5 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - TBX5 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Tbx5 (92% AA Identity, Mus musculus)
MiscHocoMocoInferred - TBX5 (92% AA Identity, Homo sapiens)
MiscHOMERInferred - Tbx5 (92% AA Identity, Mus musculus)
PBMSebePedros2013Inferred - estExt_fgenesh2_pg.C_1570024 (61% AA Identity, Branchiostoma floridae)
HT-SELEXYin2017Inferred - TBX2 (60% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - TBX2 (60% AA Identity, Homo sapiens)
PBMDREAM_contestInferred - Tbx2 (60% AA Identity, Mus musculus)
PBMZoo_01Inferred - XP_001195863 (60% AA Identity, Strongylocentrotus purpuratus)
TransfacTransfacLicense requiredInferred - TBX2 (60% AA Identity, Homo sapiens)
ChIP-seqhmCHIPInferred - Tbx2 (60% AA Identity, Mus musculus)
MiscHocoMocoInferred - TBX2 (60% 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