TF Info Page for HOXD8 (Homeodomain)

Conclusion

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

Description

Description: homeobox D8 [Source:HGNC Symbol;Acc:HGNC:5139]
Entrez Summary This gene belongs to the homeobox family of genes. The homeobox genes encode a highly conserved family of transcription factors that play an important role in morphogenesis in all multicellular organisms. Mammals possess four similar homeobox gene clusters, HOXA, HOXB, HOXC and HOXD, located on different chromosomes, consisting of 9 to 11 genes arranged in tandem. This gene is one of several homeobox HOXD genes located in a cluster on chromosome 2. Deletions that remove the entire HOXD gene cluster or the 5' end of this cluster have been associated with severe limb and genital abnormalities. In addition to effects during embryogenesis, this particular gene may also play a role in adult urogenital tract function. Alternate splicing results in multiple transcript variants.[provided by RefSeq, Dec 2010]
Ensembl ID: ENSG00000175879
External Link: CisBP
Interpro IPR001356; IPR001827; IPR009057; IPR017970; IPR020479; ;
Protein Domain: ENSP00000409026
Protein Domain: ENSP00000315949
Protein Domain: ENSP00000406045
Protein Domain: ENSP00000437431
Domain:
Protein: ENSP00000409026DBD: HomeodomainOther:
Protein: ENSP00000315949DBD: HomeodomainOther:
Protein: ENSP00000406045DBD: HomeodomainOther:
Protein: ENSP00000437431DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene Candidate_DNA-Binding
sequence-specific
Transcription Factor Binding
tf co-factor binding_Co-activation
TF PPI_
PMIDS:8890171
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:0001228
RNA polymerase II transcription regulatory region sequence-specific DNA binding transcription factor
IDA - PMID:1756725
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
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
PBMBerger08Inferred - Hoxd8 (98% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB8 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB8 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB8 (96% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb8 (96% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXB8 (96% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC8 (94% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC8 (94% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC8 (94% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc8 (94% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXC8 (94% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXC8 (94% AA Identity, Homo sapiens)
B1HJASPARInferred - abd-A (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - abd-A (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - abd-A (84% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - abd-A (84% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - abd-A (84% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Antp (82% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA6 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA6 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA6 (82% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa6 (82% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXA7 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA7 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA7 (82% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa7 (82% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxa7 (82% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB6 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB6 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB6 (82% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb6 (82% AA Identity, Mus musculus)
PBMBerger08Inferred - Hoxc6 (82% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Antp (82% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - HOXA7 (82% AA Identity, Homo sapiens)
MisciDMMPMMInferred - Antp (82% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - HOXA7 (82% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXB6 (82% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXC6 (82% AA Identity, Homo sapiens)
PBMBusserDevelopment2012Inferred - Ubx (80% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Ubx (80% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Ubx (80% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - Ubx (80% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - Ubx (80% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - HOXB7 (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB7 (78% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb7 (78% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXB7 (78% AA Identity, Homo sapiens)
PBMTF_EvolutionUnpublished DataInferred - Cbr-mab-5 (77% AA Identity, Caenorhabditis briggsae)
PBMBarrera2016Inferred - HOXB7 (77% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - HOXB7 (77% AA Identity, Homo sapiens)
B1HJASPARInferred - Scr (77% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Scr (77% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA5 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa5 (75% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB5 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb5 (75% AA Identity, Mus musculus)
COMPILEDJASPARInferred - HOXA5 (75% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA5 (75% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXA5 (75% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA4 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA4 (73% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa4 (73% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXA9 (73% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA9 (73% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa9 (73% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXC9 (73% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC9 (73% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc9 (73% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD9 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA4 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HOXA9 (73% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Hoxa9 (73% AA Identity, Mus musculus)
ChIP-seqJASPARInferred - Hoxc9 (73% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXD9 (73% AA Identity, Homo sapiens)
ChIP-seqmodENCODEInferred - lin-39 (73% AA Identity, Caenorhabditis elegans)
MiscHocoMocoInferred - HOXA9 (73% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HOXA9 (73% AA Identity, Homo sapiens)
MiscHOMERInferred - Hoxa9 (73% AA Identity, Mus musculus)
MiscHOMERInferred - Hoxc9 (73% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXD9 (73% AA Identity, Homo sapiens)
MiscHOMERInferred - lin-39 (73% AA Identity, Caenorhabditis elegans)
B1HJASPARInferred - ftz (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - ftz (71% AA Identity, Drosophila melanogaster)
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)
PBMBerger08Inferred - Hoxc5 (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD4 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - ftz (71% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - ftz (71% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - HOXD4 (71% AA Identity, Homo sapiens)
B1HJASPARInferred - Dfd (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Dfd (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Dfd (70% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXA10 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxa10 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXB4 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB4 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXB4 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxb4 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC10 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc10 (70% AA Identity, Mus musculus)
PBMBarrera2016Inferred - HOXC4 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXC4 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC4 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXC4 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxc4 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - HOXD10 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Hoxd10 (70% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Dfd (70% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - Hoxa10 (70% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - HOXD10 (70% AA Identity, Homo sapiens)
MisciDMMPMMInferred - Dfd (70% AA Identity, Drosophila melanogaster)
MiscHOMERInferred - Hoxb4 (70% AA Identity, Mus musculus)
MiscHocoMocoInferred - HOXD10 (70% AA Identity, Homo sapiens)
PBMBusserDevelopment2012Inferred - Abd-B (68% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Abd-B (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Abd-B (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Abd-B (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Abd-B (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Abd-B (68% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - HOXC4 (68% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Q0N4M8_NEMVE (68% AA Identity, Nematostella vectensis)
TransfacTransfacLicense requiredInferred - Abd-B (68% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - Abd-B (68% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - Abd-B (68% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - pb (66% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - pb (66% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - PDX1 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PDX1 (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PDX1 (66% AA Identity, Homo sapiens)
PBMBerger08Inferred - Pdx1 (66% AA Identity, Mus musculus)
PBMZoo_01Inferred - SPU_026099 (66% AA Identity, Strongylocentrotus purpuratus)
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)
SELEXJASPARInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PDX1 (66% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PDX1 (66% AA Identity, Homo sapiens)
MiscHOMERInferred - Pdx1 (66% AA Identity, Mus musculus)

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