TF Info Page for HOXB1 (Homeodomain)

Conclusion

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

Description

Description: homeobox B1 [Source:HGNC Symbol;Acc:HGNC:5111]
Entrez Summary NA
Ensembl ID: ENSG00000120094
External Link: CisBP
Interpro IPR001356; IPR009057; IPR017970; IPR020479;
Protein Domain: ENSP00000355140
Protein Domain: ENSP00000459066
Domain:
Protein: ENSP00000355140DBD: HomeodomainOther:
Protein: ENSP00000459066DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:7911971 9242495
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-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
MiscHocoMocoDirect
HT-SELEXYin2017Inferred - HOXA1 (87% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA1 (87% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA1 (87% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa1 (87% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXA1 (87% AA Identity, Homo sapiens)
PBMZoo_01Inferred - O76842_CUPSA (83% AA Identity, Cupiennius salei)
HT-SELEXYin2017Inferred - HOXD1 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD1 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD1 (82% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd1 (82% AA Identity, Mus musculus)
B1HJASPARInferred - lab (82% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - lab (82% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (71% AA Identity, Homo sapiens)
PBMZoo_01Inferred - HOXA2 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa2 (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB2 (71% AA Identity, Homo sapiens)
MiscHOMERInferred - Hoxa2 (71% AA Identity, Mus musculus)
B1HJASPARInferred - pb (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - pb (70% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA4 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA4 (68% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa4 (68% AA Identity, Mus musculus)
PBMZoo_01Inferred - Q7M3U4_ACRFO (68% AA Identity, Acropora formosa)
TransfacTransfacLicense requiredInferred - HOXA4 (68% AA Identity, Homo sapiens)
PBMBadis09Inferred - Hoxa3 (66% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxa3 (66% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxb3 (66% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxc5 (66% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD3 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD3 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD3 (66% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd3 (66% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (66% AA Identity, Homo sapiens)
B1HJASPARInferred - ind (66% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - Q24782_9CNID (66% AA Identity, Eleutheria dichotoma)
PBMZoo_01Inferred - SPU_026099 (66% AA Identity, Strongylocentrotus purpuratus)
TransfacTransfacLicense requiredInferred - HOXA3 (66% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXD4 (66% AA Identity, Homo sapiens)

Structure

Structure PDB 1B72

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