TF Info Page for KDM5B (ARID/BRIGHT)
Conclusion
| Assessment | Binding Mode | Motif Status | Notes | Comments |
|---|---|---|---|---|
| Likely to be sequence specific TF | 1 Monomer or homomultimer | No motif | Binds GC-rich sequences such as CCGCCC (PMID: 18270511). |
Description
| Description: | lysine demethylase 5B [Source:HGNC Symbol;Acc:HGNC:18039] | |||||||||
| Entrez Summary | This gene encodes a lysine-specific histone demethylase that belongs to the jumonji/ARID domain-containing family of histone demethylases. The encoded protein is capable of demethylating tri-, di- and monomethylated lysine 4 of histone H3. This protein plays a role in the transcriptional repression or certain tumor suppressor genes and is upregulated in certain cancer cells. This protein may also play a role in genome stability and DNA repair. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Nov 2016] | |||||||||
| Ensembl ID: | ENSG00000117139 | |||||||||
| External Link: | CisBP | |||||||||
| Interpro | IPR001606; IPR001965; IPR003347; IPR003349; IPR004198; IPR011011; IPR013637; IPR019786; IPR019787; ; | |||||||||
| Protein Domain: | ENSP00000356233 | |||||||||
| Protein Domain: | ENSP00000356234 | |||||||||
| Protein Domain: | ENSP00000235790 | |||||||||
| Domain: |
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Previous Annotations
| Source | Annotation |
| TF-CAT classification |
TF Gene_Transcription Factor Binding tf co-factor binding_TF PPI Transactivation_ PMIDS:12657635 |
| 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? | Yes |
| Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" | Yes |
| GO-Info |
GO:0003700 sequence-specific DNA binding transcription factor activity TAS - PMID:10336460 |
|
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 |
4a, two or more datasets predict it as a TF |
| TF has conditional DNA-binding requirements |