TF Info Page for VDR (Nuclear receptor)
Conclusion
| Assessment | Binding Mode | Motif Status | Notes | Comments |
|---|---|---|---|---|
| Known motif | 1 Monomer or homomultimer | High-throughput in vitro |
Description
| Description: | vitamin D (1,25- dihydroxyvitamin D3) receptor [Source:HGNC Symbol;Acc:HGNC:12679] | |||||||||
| Entrez Summary | This gene encodes vitamin D3 receptor, which is a member of the nuclear hormone receptor superfamily of ligand-inducible transcription factors. This receptor also functions as a receptor for the secondary bile acid, lithocholic acid. Downstream targets of vitamin D3 receptor are principally involved in mineral metabolism, though this receptor regulates a variety of other metabolic pathways, such as those involved in immune response and cancer. Mutations in this gene are associated with type II vitamin D-resistant rickets. A single nucleotide polymorphism in the initiation codon results in an alternate translation start site three codons downstream. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. A recent study provided evidence for translational readthrough in this gene, and expression of an additional C-terminally extended isoform via the use of an alternative in-frame translation termination codon. [provided by RefSeq, Jun 2018] | |||||||||
| Ensembl ID: | ENSG00000111424 | |||||||||
| External Link: | CisBP | |||||||||
| Interpro | IPR000324; IPR000536; IPR001628; IPR001723; IPR008946; ; | |||||||||
| Protein Domain: | ENSP00000449573 | |||||||||
| Protein Domain: | ENSP00000447173 | |||||||||
| Protein Domain: | ENSP00000449561 | |||||||||
| Domain: |
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Previous Annotations
| Source | Annotation |
| TF-CAT classification |
TF Gene Candidate_DNA-Binding sequence-specific Transcription Factor Binding tf co-factor binding_Co-activation DNA Binding_ PMIDS:16750418 8674817 |
| 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:0003700 sequence-specific DNA binding transcription factor activity IDA - PMID:17426122 GO:0008434 vitamin D3 receptor activity IDA - PMID:12016314, PMID:16549446, PMID:17082781 |
|
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 |