TF Info Page for PROX1 (Prospero)

Conclusion

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

Description

Description: prospero homeobox 1 [Source:HGNC Symbol;Acc:HGNC:9459]
Entrez Summary The protein encoded by this gene is a member of the homeobox transcription factor family. Members of this family contain a homeobox domain that consists of a 60-amino acid helix-turn-helix structure that binds DNA and RNA. The protein encoded by this gene is conserved across vertebrates and may play an essential role during development. Altered levels of this protein have been reported in cancers of different organs, such as colon, brain, blood, breast, pancreas, liver and esophagus. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2012]
Ensembl ID: ENSG00000117707
External Link: CisBP
Interpro IPR009057; IPR023082;
Protein Domain: ENSP00000261454
Protein Domain: ENSP00000355925
Protein Domain: ENSP00000400694
Protein Domain: ENSP00000420283
Protein Domain: ENSP00000419517
Protein Domain: ENSP00000475357
Domain:
Protein: ENSP00000261454DBD: Homeo-prospero domainOther:
Protein: ENSP00000355925DBD: Homeo-prospero domainOther:
Protein: ENSP00000400694DBD: Homeo-prospero domainOther:
Protein: ENSP00000420283DBD: Homeo-prospero domainOther:
Protein: ENSP00000419517DBD: Homeo-prospero domainOther:
Protein: ENSP00000475357DBD: Homeo-prospero domainOther:

Previous Annotations

Source Annotation
TF-CAT classification No
PMIDS:
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:0001078
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IBA - GO_REF:0000033
GO:0003700
sequence-specific DNA binding transcription factor activity
IC - PMID:19210544
GO:0003705
RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity
ISS - GO_REF:0000024
GO:0043433
negative regulation of sequence-specific DNA binding transcription factor activity
IDA - PMID:15205472, PMID:16488887
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

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