TF Info Page for JRK (CENPB)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Likely to be sequence specific TF 1 Monomer or homomultimer No motif

Description

Description: Jrk helix-turn-helix protein [Source:HGNC Symbol;Acc:HGNC:6199]
Entrez Summary This gene encodes a conserved protein that is similar to DNA-binding proteins, such as major centromere autoantigen B (CENPB). Inactivation of the related gene in mice resulted in epileptic seizures. Childhood Absence Epilepsy (CAE) has been mapped to the same chromosomal location (8q24.3) as this gene. Alternative splicing results in multiple transcript variants. [provided by RefSeq, Jul 2013]
Ensembl ID: ENSG00000234616
External Link: CisBP
Interpro IPR004875; IPR006600; IPR007889; IPR009057;
Protein Domain: ENSP00000461610
Protein Domain: ENSP00000485390
Protein Domain: ENSP00000483808
Protein Domain: ENSP00000482410
Domain:
Protein: ENSP00000461610DBD: CENP-B N-terminal DNA-binding domainOther: DDE_1, HTH_Tnp_Tc5
Protein: ENSP00000485390DBD: CENP-B N-terminal DNA-binding domainOther: DDE_1, HTH_Tnp_Tc5
Protein: ENSP00000483808DBD: CENP-B N-terminal DNA-binding domainOther: DDE_1, HTH_Tnp_Tc5
Protein: ENSP00000482410DBD: CENP-B N-terminal DNA-binding domainOther: DDE_1, HTH_Tnp_Tc5

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.
No
CisBP considers it as a TF? Yes
TFclass considers it as a TF? No
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
5a, one of the source datasets predicts is as a TF
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence

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