TF Info Page for TBX3 (T-box)

Conclusion

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

Description

Description: T-box 3 [Source:HGNC Symbol;Acc:HGNC:11602]
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 protein is a transcriptional repressor and is thought to play a role in the anterior/posterior axis of the tetrapod forelimb. Mutations in this gene cause ulnar-mammary syndrome, affecting limb, apocrine gland, tooth, hair, and genital development. Alternative splicing of this gene results in three transcript variants encoding different isoforms; however, the full length nature of one variant has not been determined. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000135111
External Link: CisBP
Interpro IPR001699; IPR002070; IPR008967; IPR018186; IPR022582; ;
Protein Domain: ENSP00000257566
Protein Domain: ENSP00000257567
Domain:
Protein: ENSP00000257566DBD: T-boxOther: TBX
Protein: ENSP00000257567DBD: T-boxOther: TBX

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:11689487 12005433
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:11689487
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-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
MiscHocoMocoDirect
PBMDREAM_contestInferred - Tbx3 (90% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - TBX2 (85% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - TBX2 (85% AA Identity, Homo sapiens)
PBMDREAM_contestInferred - Tbx2 (85% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - TBX2 (85% AA Identity, Homo sapiens)
ChIP-seqhmCHIPInferred - Tbx2 (85% AA Identity, Mus musculus)
MiscHocoMocoInferred - TBX2 (85% AA Identity, Homo sapiens)
PBMZoo_01Inferred - TBX2 (84% AA Identity, Gasterosteus aculeatus)
PBMZoo_01Inferred - TBX2 (84% AA Identity, Takifugu rubripes)
PBMSebePedros2013Inferred - XP_008203914.1 (78% AA Identity, Nasonia vitripennis)
PBMSebePedros2013Inferred - estExt_fgenesh2_pg.C_1570024 (62% AA Identity, Branchiostoma floridae)
PBMZoo_01Inferred - XP_001195863 (61% AA Identity, Strongylocentrotus purpuratus)

Structure

Structure PDB 1H6F

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