TF Info Page for HOXB5 (Homeodomain)

Conclusion

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

Description

Description: homeobox B5 [Source:HGNC Symbol;Acc:HGNC:5116]
Entrez Summary This gene is a member of the Antp homeobox family and encodes a nuclear protein with a homeobox DNA-binding domain. It is included in a cluster of homeobox B genes located on chromosome 17. The encoded protein functions as a sequence-specific transcription factor that is involved in lung and gut development. Increased expression of this gene is associated with a distinct biologic subset of acute myeloid leukemia (AML) and the occurrence of bronchopulmonary sequestration (BPS) and congenital cystic adenomatoid malformation (CCAM) tissue. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000120075
External Link: CisBP
Interpro IPR001356; IPR001827; IPR009057; IPR017970; IPR017995; IPR020479;
Protein Domain: ENSP00000239151
Domain:
Protein: ENSP00000239151DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:12897140
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 GO:0001205
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity involv
IEA - GO_REF:0000019
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-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa5 (100% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxb5 (100% AA Identity, Mus musculus)
COMPILEDJASPARInferred - HOXA5 (100% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA5 (100% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXA5 (100% AA Identity, Homo sapiens)
B1HJASPARInferred - Scr (94% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Scr (94% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Antp (92% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA7 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA7 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA7 (92% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa7 (92% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxa7 (92% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Antp (92% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - HOXA7 (92% AA Identity, Homo sapiens)
MisciDMMPMMInferred - Antp (92% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - HOXA7 (92% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXD4 (92% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA4 (91% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa4 (91% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB4 (91% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb4 (91% AA Identity, Mus musculus)
PBMBarrera2016Inferred - HOXC4 (91% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC4 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC4 (91% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc4 (91% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxc5 (91% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXA4 (91% AA Identity, Homo sapiens)
MiscHOMERInferred - Hoxb4 (91% AA Identity, Mus musculus)
B1HJASPARInferred - Dfd (89% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Dfd (89% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Dfd (89% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA6 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA6 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA6 (89% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa6 (89% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB6 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB6 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB6 (89% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb6 (89% AA Identity, Mus musculus)
PBMBarrera2016Inferred - HOXB7 (89% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (89% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb7 (89% AA Identity, Mus musculus)
PBMBarrera2016Inferred - HOXC4 (89% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Dfd (89% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - Dfd (89% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - HOXB6 (89% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXB7 (89% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXB7 (87% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXB7 (87% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc6 (87% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXC6 (87% AA Identity, Homo sapiens)
B1HJASPARInferred - abd-A (85% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - abd-A (85% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - abd-A (85% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - ftz (85% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - ftz (85% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - abd-A (85% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - ftz (85% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - abd-A (85% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - ftz (85% AA Identity, Drosophila melanogaster)
PBMBusserDevelopment2012Inferred - Ubx (84% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Ubx (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Ubx (84% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - Ubx (84% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - Ubx (84% AA Identity, Drosophila melanogaster)
PBMBerger08Inferred - Hoxb3 (78% AA Identity, Mus musculus)
PBMBadis09Inferred - Hoxa3 (77% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxa3 (77% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB8 (77% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB8 (77% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB8 (77% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb8 (77% AA Identity, Mus musculus)
PBMZoo_01Inferred - SPU_026099 (77% AA Identity, Strongylocentrotus purpuratus)
TransfacTransfacLicense requiredInferred - HOXA3 (77% AA Identity, Homo sapiens)
ChIP-seqmodENCODEInferred - lin-39 (77% AA Identity, Caenorhabditis elegans)
MiscHocoMocoInferred - HOXB8 (77% AA Identity, Homo sapiens)
MiscHOMERInferred - lin-39 (77% AA Identity, Caenorhabditis elegans)
HT-SELEXYin2017Inferred - HOXC8 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC8 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC8 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc8 (75% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD3 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd3 (75% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD8 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD8 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD8 (75% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Q0N4M8_NEMVE (75% AA Identity, Nematostella vectensis)
TransfacTransfacLicense requiredInferred - HOXC8 (75% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXC8 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd8 (73% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - PDX1 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PDX1 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PDX1 (73% AA Identity, Homo sapiens)
PBMBerger08Inferred - Pdx1 (73% AA Identity, Mus musculus)
SELEXJASPARInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (73% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PDX1 (73% AA Identity, Homo sapiens)
MiscHOMERInferred - Pdx1 (73% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB9 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB9 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB9 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb9 (71% AA Identity, Mus musculus)
B1HJASPARInferred - pb (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - pb (71% AA Identity, Drosophila melanogaster)
PBMTF_EvolutionUnpublished DataInferred - Cbr-mab-5 (70% AA Identity, Caenorhabditis briggsae)
HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA2 (70% AA Identity, Homo sapiens)
PBMZoo_01Inferred - HOXA2 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa2 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB2 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC9 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC9 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc9 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (70% AA Identity, Homo sapiens)
B1HJASPARInferred - lab (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - lab (70% AA Identity, Drosophila melanogaster)
ChIP-seqJASPARInferred - Hoxc9 (70% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXD9 (70% AA Identity, Homo sapiens)
MiscHOMERInferred - Hoxa2 (70% AA Identity, Mus musculus)
MiscHOMERInferred - Hoxc9 (70% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXD9 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - GSX1 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - GSX1 (68% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - GSX2 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - GSX2 (68% AA Identity, Homo sapiens)
PBMBerger08Inferred - Gsx2 (68% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXA9 (68% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA9 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA9 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA9 (68% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa9 (68% AA Identity, Mus musculus)
B1HJASPARInferred - ind (68% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - O76842_CUPSA (68% AA Identity, Cupiennius salei)
B1HJASPARInferred - zen (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - zen (68% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - HOXA9 (68% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (68% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (68% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (68% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Hoxa9 (68% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXA9 (68% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXA9 (68% AA Identity, Homo sapiens)
MiscHOMERInferred - Hoxa9 (68% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXA1 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA1 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA1 (66% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa1 (66% AA Identity, Mus musculus)
PBMZoo_01Inferred - Q7M3U4_ACRFO (66% AA Identity, Acropora formosa)
B1HJASPARInferred - zen2 (66% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - zen2 (66% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - zen2 (66% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - zen2 (66% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - HOXA1 (66% 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