TF Info Page for PBX1 (Homeodomain)

Conclusion

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

Description

Description: PBX homeobox 1 [Source:HGNC Symbol;Acc:HGNC:8632]
Entrez Summary This gene encodes a nuclear protein that belongs to the PBX homeobox family of transcriptional factors. Studies in mice suggest that this gene may be involved in the regulation of osteogenesis and required for skeletal patterning and programming. A chromosomal translocation, t(1;19) involving this gene and TCF3/E2A gene, is associated with pre-B-cell acute lymphoblastic leukemia. The resulting fusion protein, in which the DNA binding domain of E2A is replaced by the DNA binding domain of this protein, transforms cells by constitutively activating transcription of genes regulated by the PBX protein family. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jun 2017]
Ensembl ID: ENSG00000185630
External Link: CisBP
Interpro IPR001356; IPR005542; IPR009057; IPR017970;
Protein Domain: ENSP00000356872
Protein Domain: ENSP00000405890
Protein Domain: ENSP00000439943
Protein Domain: ENSP00000473998
Protein Domain: ENSP00000485692
Domain:
Protein: ENSP00000356872DBD: HomeodomainOther: PBC
Protein: ENSP00000405890DBD: HomeodomainOther: PBC
Protein: ENSP00000439943DBD: HomeodomainOther: PBC
Protein: ENSP00000473998DBD: HomeodomainOther: PBC
Protein: ENSP00000485692DBD: HomeodomainOther: PBC

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:8183558 9315626 12529389
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:0001077
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IEA - GO_REF:0000019
GO:0003700
sequence-specific DNA binding transcription factor activity
NAS - PMID:10500199
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 Obligate_Multimer

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
SELEXJASPARDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
MiscHOMERDirect
PBMBerger08Inferred - Pbx1 (100% AA Identity, Mus musculus)
PBMZoo_01Inferred - pbx4 (98% AA Identity, Tetraodon nigroviridis)
MiscHocoMocoInferred - PBX2 (96% AA Identity, Homo sapiens)
B1HJASPARInferred - exd (95% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - PBX4 (88% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PBX4 (88% AA Identity, Homo sapiens)

Structure

Structure PDB 1LFU

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