The Human Transcription Factors

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	TBA
Ensembl ID:	ENSG00000185630
External Link:	T093402_1.02
Interpro	IPR001356; IPR005542; IPR009057; IPR017970;
Protein Domain:
Protein: ENSP00000356872	DBD: Homeodomain	Other: PBC
Protein: ENSP00000405890	DBD: Homeodomain	Other: PBC
Protein: ENSP00000439943	DBD: Homeodomain	Other: PBC
Protein: ENSP00000473998	DBD: Homeodomain	Other: PBC
Protein: ENSP00000485692	DBD: Homeodomain	Other: 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-SELEX	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
SELEX	JASPAR		Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
Misc	HOMER		Direct
PBM	Berger08		Inferred - Pbx1 (100% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - pbx4 (98% AA Identity, Tetraodon nigroviridis)
Misc	HocoMoco		Inferred - PBX2 (96% AA Identity, Homo sapiens)
B1H	JASPAR		Inferred - exd (95% AA Identity, Drosophila melanogaster)
PBM	Barrera2016		Inferred - PBX4 (88% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - 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

Name
Email
Comment
Reference

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TF Info Page for PBX1 (Homeodomain)