TF Info Page for PAX2 (Homeodomain; Paired box)

Conclusion

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

Description

Description: paired box 2 [Source:HGNC Symbol;Acc:HGNC:8616]
Entrez Summary PAX2 encodes paired box gene 2, one of many human homologues of the Drosophila melanogaster gene prd. The central feature of this transcription factor gene family is the conserved DNA-binding paired box domain. PAX2 is believed to be a target of transcriptional supression by the tumor suppressor gene WT1. Mutations within PAX2 have been shown to result in optic nerve colobomas and renal hypoplasia. Alternative splicing of this gene results in multiple transcript variants. [provided by RefSeq, Dec 2014]
Ensembl ID: ENSG00000075891
External Link: CisBP
Interpro IPR001523; IPR009057; IPR022130; ;
Protein Domain: ENSP00000347385
Protein Domain: ENSP00000359319
Protein Domain: ENSP00000452489
Protein Domain: ENSP00000355069
Protein Domain: ENSP00000398652
Domain:
Protein: ENSP00000347385DBD: Homeodomain,Paired boxOther: Pax2_C
Protein: ENSP00000359319DBD: Homeodomain,Paired boxOther: Pax2_C
Protein: ENSP00000452489DBD: Homeodomain,Paired boxOther:
Protein: ENSP00000355069DBD: Homeodomain,Paired boxOther: Pax2_C
Protein: ENSP00000398652DBD: Homeodomain,Paired boxOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_Transactivation_
PMIDS:11700324 11731455 14561758 12756174
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" No
GO-Info
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
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
MiscHocoMocoDirect
PBMZoo_01Inferred - pax2 (100% AA Identity, Xenopus tropicalis)
PBMZoo_01Inferred - pax2b (99% AA Identity, Danio rerio)
SELEXJASPARInferred - Pax2 (99% AA Identity, Mus musculus)
PBMTF_EvolutionUnpublished DataInferred - Pax5 (97% AA Identity, Gallus gallus)
ChIP-seqENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqJASPARInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqmodENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
ChIP-seqmodENCODEInferred - PAX5 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX5 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX5 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX5 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX5 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX5 (97% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PAX5 (97% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PAX5 (97% AA Identity, Homo sapiens)
MiscHOMERInferred - PAX5 (97% AA Identity, Homo sapiens)
MiscHOMERInferred - PAX5 (97% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PAX8 (92% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PAX8 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX8 (92% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - PAX8 (92% AA Identity, Homo sapiens)
MiscHocoMocoInferred - PAX8 (92% AA Identity, Homo sapiens)
MiscHOMERInferred - Pax8 (92% AA Identity, Rattus norvegicus)
HT-SELEXNitta2015Inferred - sv (88% AA Identity, Drosophila melanogaster)
PBMTF_EvolutionUnpublished DataInferred - sv (88% AA Identity, Drosophila melanogaster)
PBMZoo_01Inferred - egl-38 (71% AA Identity, Caenorhabditis elegans)
PBMCEPDInferred - pax-2 (71% AA Identity, Caenorhabditis elegans)

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