TF Info Page for PRRX1 (Homeodomain)

Conclusion

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

Description

Description: paired related homeobox 1 [Source:HGNC Symbol;Acc:HGNC:9142]
Entrez Summary The DNA-associated protein encoded by this gene is a member of the paired family of homeobox proteins localized to the nucleus. The protein functions as a transcription co-activator, enhancing the DNA-binding activity of serum response factor, a protein required for the induction of genes by growth and differentiation factors. The protein regulates muscle creatine kinase, indicating a role in the establishment of diverse mesodermal muscle types. Alternative splicing yields two isoforms that differ in abundance and expression patterns. [provided by RefSeq, Jul 2008]
Ensembl ID: ENSG00000116132
External Link: CisBP
Interpro IPR001356; IPR003654; IPR009057; IPR017970;
Protein Domain: ENSP00000239461
Protein Domain: ENSP00000356734
Protein Domain: ENSP00000450762
Domain:
Protein: ENSP00000239461DBD: HomeodomainOther: OAR
Protein: ENSP00000356734DBD: HomeodomainOther:
Protein: ENSP00000450762DBD: HomeodomainOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_Transcription Factor Binding
tf co-factor binding_TF PPI_
PMIDS:9334314
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-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBerger08Inferred - Prrx1 (100% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Prrx1 (100% AA Identity, Rattus norvegicus)
HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PRRX2 (96% AA Identity, Homo sapiens)
PBMBerger08Inferred - Prrx2 (96% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PRRX2 (96% AA Identity, Homo sapiens)
SELEXJASPARInferred - Prrx2 (96% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Prrx2 (96% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - PRRX2 (96% AA Identity, Sus scrofa)
MiscHocoMocoInferred - PRRX2 (96% AA Identity, Homo sapiens)
B1HJASPARInferred - CG9876 (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (84% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG9876 (84% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - Pph13 (75% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - Pph13 (75% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - DRGX (73% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - DRGX (73% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Drgx (73% AA Identity, Rattus norvegicus)
HT-SELEXYin2017Inferred - ALX1 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX1 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx1 (71% AA Identity, Mus musculus)
PBMBerger08Inferred - Alx1 (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - ALX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX4 (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX4 (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx4 (71% AA Identity, Mus musculus)
PBMBarrera2016Inferred - ARX (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ARX (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ARX (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Arx (71% AA Identity, Mus musculus)
HT-SELEXNitta2015Inferred - CG2808 (71% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - PHOX2A (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PHOX2A (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Phox2a (71% AA Identity, Mus musculus)
PBMBarrera2016Inferred - PHOX2B (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PHOX2B (71% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - PHOX2B (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PHOX2B (71% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - PHOX2B (71% AA Identity, Homo sapiens)
PBMBerger08Inferred - Phox2b (71% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - ALX1 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - ALX4 (71% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Arx (71% AA Identity, Rattus norvegicus)
MiscHocoMocoInferred - ALX1 (71% AA Identity, Homo sapiens)
MiscHOMERInferred - Phox2a (71% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - ALX3 (70% AA Identity, Homo sapiens)
PBMBerger08Inferred - Alx3 (70% AA Identity, Mus musculus)
PBMBarrera2016Inferred - ARX (70% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (70% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (70% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (70% AA Identity, Homo sapiens)
PBMBarrera2016Inferred - ARX (70% AA Identity, Homo sapiens)
B1HJASPARInferred - hbn (70% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - hbn (70% AA Identity, Drosophila melanogaster)
PBMBarrera2016Inferred - PHOX2B (70% AA Identity, Homo sapiens)
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)
TransfacTransfacLicense requiredInferred - Rax (70% AA Identity, Rattus norvegicus)
B1HJASPARInferred - al (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - al (68% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - CG11294 (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG11294 (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG5369 (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG5369 (68% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - CG5369 (68% AA Identity, Drosophila melanogaster)
B1HJASPARInferred - PHDP (66% AA Identity, Drosophila melanogaster)
HT-SELEXNitta2015Inferred - PHDP (66% AA Identity, Drosophila melanogaster)
HT-SELEXYin2017Inferred - SHOX (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - SHOX (66% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - SHOX (66% AA Identity, Homo sapiens)
PBMZoo_01Inferred - SHOX (66% AA Identity, Homo sapiens)
PBMBerger08Inferred - Shox2 (66% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - Shox2 (66% AA Identity, Rattus norvegicus)

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