TF Info Page for PITX2 (Homeodomain)

Conclusion

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

Description

Description: paired like homeodomain 2 [Source:HGNC Symbol;Acc:HGNC:9005]
Entrez Summary This gene encodes a member of the RIEG/PITX homeobox family, which is in the bicoid class of homeodomain proteins. The encoded protein acts as a transcription factor and regulates procollagen lysyl hydroxylase gene expression. This protein plays a role in the terminal differentiation of somatotroph and lactotroph cell phenotypes, is involved in the development of the eye, tooth and abdominal organs, and acts as a transcriptional regulator involved in basal and hormone-regulated activity of prolactin. Mutations in this gene are associated with Axenfeld-Rieger syndrome, iridogoniodysgenesis syndrome, and sporadic cases of Peters anomaly. A similar protein in other vertebrates is involved in the determination of left-right asymmetry during development. Alternatively spliced transcript variants encoding distinct isoforms have been described. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000164093
External Link: CisBP
Interpro IPR001356; IPR003654; IPR009057; IPR016233; IPR017970; IPR020479;
Protein Domain: ENSP00000304169
Protein Domain: ENSP00000347192
Protein Domain: ENSP00000378097
Protein Domain: ENSP00000347004
Protein Domain: ENSP00000475617
Protein Domain: ENSP00000424142
Domain:
Protein: ENSP00000304169DBD: HomeodomainOther: OAR
Protein: ENSP00000347192DBD: HomeodomainOther: OAR
Protein: ENSP00000378097DBD: HomeodomainOther: OAR
Protein: ENSP00000347004DBD: HomeodomainOther: OAR
Protein: ENSP00000475617DBD: HomeodomainOther:
Protein: ENSP00000424142DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_Transcription Factor Binding
tf co-factor binding_DNA Binding
Transactivation_
PMIDS:15728254
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
IDA - PMID:15385555
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
PBMBarrera2016Direct
PBMBarrera2016Direct
PBMBarrera2016Direct
PBMBarrera2016Direct
PBMBarrera2016Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBerger08Inferred - Pitx2 (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - PITX3 (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PITX3 (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Pitx3 (100% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PITX3 (100% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PITX3 (100% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PITX3 (100% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PITX1 (96% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PITX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PITX1 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PITX1 (96% AA Identity, Homo sapiens)
PBMBerger08Inferred - Pitx1 (96% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PITX1 (96% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PITX1 (96% AA Identity, Homo sapiens)
PBMBusserDevelopment2012Inferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - Ptx1 (94% AA Identity, Drosophila melanogaster)
PBMTF_EvolutionUnpublished DataInferred - Cbr-unc-30 (82% AA Identity, Caenorhabditis briggsae)
HT-SELEXYin2017Inferred - DRGX (67% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - DRGX (67% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Drgx (67% AA Identity, Rattus norvegicus)
B1HJASPARInferred - al (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - al (65% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - ARX (65% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ARX (65% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ARX (65% AA Identity, Homo sapiens)
PBMBerger08Inferred - Arx (65% AA Identity, Mus musculus)
B1HJASPARInferred - CG11294 (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG2808 (65% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - PHDP (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - PHDP (65% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - PHOX2B (65% AA Identity, Homo sapiens)
B1HJASPARInferred - Pph13 (65% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Pph13 (65% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - Arx (65% AA Identity, Rattus norvegicus)

Structure

Structure PDB 2LKX

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