TF Info Page for PHOX2A (Homeodomain)

Conclusion

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

Description

Description: paired like homeobox 2a [Source:HGNC Symbol;Acc:HGNC:691]
Entrez Summary The protein encoded by this gene contains a paired-like homeodomain most similar to that of the Drosophila aristaless gene product. The encoded protein plays a central role in development of the autonomic nervous system. It regulates the expression of tyrosine hydroxylase and dopamine beta-hydroxylase, two catecholaminergic biosynthetic enzymes essential for the differentiation and maintenance of the noradrenergic neurotransmitter phenotype. The encoded protein has also been shown to regulate transcription of the alpha3 nicotinic acetylcholine receptor gene. Mutations in this gene have been associated with autosomal recessive congenital fibrosis of the extraocular muscles. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000165462
External Link: CisBP
Interpro IPR001356; IPR009057; IPR017970; ;
Protein Domain: ENSP00000298231
Protein Domain: ENSP00000444845
Domain:
Protein: ENSP00000298231DBD: HomeodomainOther:
Protein: ENSP00000444845DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:11034547
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:0003700
sequence-specific DNA binding transcription factor activity
NAS - PMID:8661014
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
PBMBerger08Inferred - Phox2a (100% AA Identity, Mus musculus)
PBMBarrera2016Inferred - PHOX2B (100% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PHOX2B (100% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PHOX2B (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PHOX2B (100% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PHOX2B (100% AA Identity, Homo sapiens)
PBMBerger08Inferred - Phox2b (100% AA Identity, Mus musculus)
MiscHOMERInferred - Phox2a (100% AA Identity, Mus musculus)
PBMBarrera2016Inferred - PHOX2B (98% AA Identity, Homo sapiens)
B1HJASPARInferred - PHDP (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - PHDP (84% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - ARX (78% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ARX (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ARX (78% AA Identity, Homo sapiens)
PBMBerger08Inferred - Arx (78% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - DRGX (78% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - DRGX (78% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Arx (78% AA Identity, Rattus norvegicus)
TransfacTransfacLicense requiredInferred - Drgx (78% AA Identity, Rattus norvegicus)
B1HJASPARInferred - al (77% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - al (77% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - ALX1 (77% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX1 (77% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx1 (77% AA Identity, Mus musculus)
PBMBerger08Inferred - Alx1 (77% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - ALX4 (77% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX4 (77% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX4 (77% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx4 (77% AA Identity, Mus musculus)
PBMBarrera2016Inferred - ARX (77% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (77% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (77% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (77% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (77% AA Identity, Homo sapiens)
HT-SELEXNitta2015Inferred - CG2808 (77% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - ALX1 (77% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - ALX4 (77% AA Identity, Homo sapiens)
MiscHocoMocoInferred - ALX1 (77% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (75% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx3 (75% AA Identity, Mus musculus)
PBMBerger08Inferred - Otp (75% AA Identity, Mus musculus)
B1HJASPARInferred - Pph13 (75% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Pph13 (75% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - CG9876 (73% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (73% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (73% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (73% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (73% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - CG11294 (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (71% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - CG32532 (71% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG32532 (71% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - CRX (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Prrx1 (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Prrx2 (71% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PRRX1 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Prrx1 (71% AA Identity, Rattus norvegicus)
TransfacTransfacLicense requiredInferred - PRRX2 (71% AA Identity, Homo sapiens)
SELEXJASPARInferred - Prrx2 (71% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Prrx2 (71% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PRRX2 (71% AA Identity, Sus scrofa)
MiscHocoMocoInferred - PRRX1 (71% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PRRX2 (71% AA Identity, Homo sapiens)
HT-SELEXNitta2015Inferred - CG5369 (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG5369 (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG5369 (70% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - CRX (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - CRX (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - CRX (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Crx (70% AA Identity, Mus musculus)
B1HJASPARInferred - hbn (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - hbn (70% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - otp (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - otp (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - otp (70% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - OTX2 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - OTX2 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Otx2 (70% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - RAX (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RAX (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RAX (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Rax (70% AA Identity, Mus musculus)
B1HJASPARInferred - Rx (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rx (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Rx (70% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - SHOX (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - SHOX (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - SHOX (70% AA Identity, Homo sapiens)
PBMZoo_01Inferred - SHOX (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Shox2 (70% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - CRX (70% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - CRX (70% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - Crx (70% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - OTX2 (70% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - OTX2 (70% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Rax (70% AA Identity, Rattus norvegicus)
TransfacTransfacLicense requiredInferred - Shox2 (70% AA Identity, Rattus norvegicus)
MiscHocoMocoInferred - CRX (70% AA Identity, Homo sapiens)
MiscHOMERInferred - Crx (70% AA Identity, Mus musculus)
MiscHocoMocoInferred - OTX2 (70% AA Identity, Homo sapiens)
MiscHOMERInferred - Otx2 (70% AA Identity, Mus musculus)
PBMBarrera2016Inferred - CRX (68% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - CRX (68% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - CRX (68% AA Identity, Homo sapiens)
B1HJASPARInferred - oc (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - oc (68% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - OdsH (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - OdsH (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - OdsH (68% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - OTX1 (68% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - OTX1 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - OTX1 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - OTX1 (68% AA Identity, Homo sapiens)
PBMBerger08Inferred - Otx1 (68% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - UNCX (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - UNCX (68% AA Identity, Homo sapiens)
PBMBerger08Inferred - Uncx (68% AA Identity, Mus musculus)
PBMZoo_01Inferred - uncx4.1 (68% AA Identity, Tetraodon nigroviridis)
PBMBarrera2016Inferred - VSX2 (68% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - VSX2 (68% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - OTX1 (68% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - VSX2 (68% AA Identity, Homo sapiens)
MisciDMMPMMInferred - oc (68% AA Identity, Drosophila melanogaster)
MiscHocoMocoInferred - OTX1 (68% AA Identity, Homo sapiens)
MiscHocoMocoInferred - VSX2 (68% AA Identity, Homo sapiens)
PBMZoo_01Inferred - ENSCING00000016045 (66% AA Identity, Ciona intestinalis)
PBMBerger08Inferred - Isx (66% AA Identity, Mus musculus)
PBMZoo_01Inferred - Sebox (66% AA Identity, Mus musculus)
PBMZoo_01Inferred - si:dkey-43p13.5 (66% AA Identity, Danio rerio)
B1HJASPARInferred - unc-4 (66% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - unc-4 (66% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - VSX1 (66% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - VSX1 (66% AA Identity, Homo sapiens)
PBMBerger08Inferred - Vsx1 (66% AA Identity, Mus musculus)
PBMZoo_01Inferred - vsx2 (66% AA Identity, Danio rerio)
PBMBarrera2016Inferred - CRX (65% 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