TF Info Page for HOXB13 (Homeodomain)

Conclusion

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

Description

Description: homeobox B13 [Source:HGNC Symbol;Acc:HGNC:5112]
Entrez Summary This gene encodes a transcription factor that belongs to the homeobox gene family. Genes of this family are highly conserved among vertebrates and essential for vertebrate embryonic development. This gene has been implicated to play a role in fetal skin development and cutaneous regeneration. In mice, a similar gene was shown to exhibit temporal and spatial colinearity in the main body axis of the embryo, but was not expressed in the secondary axes, which suggests functions in body patterning along the axis. This gene and other HOXB genes form a gene cluster at chromosome the 17q21-22 region. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000159184
External Link: CisBP
Interpro IPR001356; IPR009057; IPR017970; IPR022067;
Protein Domain: ENSP00000290295
Domain:
Protein: ENSP00000290295DBD: HomeodomainOther: HoxA13_N

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_Transcription Factor Binding
tf co-factor binding_DNA Binding_
PMIDS:15126340 15604291
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" No
GO-Info
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
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
PBMZoo_01Direct
PBMBerger08Inferred - Hoxb13 (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA13 (84% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa13 (84% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXA13 (84% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA13 (84% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXA13 (84% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC13 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC13 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC13 (80% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc13 (80% AA Identity, Mus musculus)
PBMBarrera2016Inferred - HOXD13 (80% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD13 (80% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD13 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD13 (80% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD13 (80% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd13 (80% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXC13 (80% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXD13 (80% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXD13 (78% AA Identity, Homo sapiens)
PBMZoo_01Inferred - hoxd13a (71% AA Identity, Danio rerio)

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