TF Info Page for NR1H3 (Nuclear receptor)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Inferred motif 2 Obligate heteromer In vivo/Misc source Binds as an obligate heterodimer with RXR-proteins. (PDB: 2ACL) is a crystal structure of the two proteins without DNA

Description

Description: nuclear receptor subfamily 1 group H member 3 [Source:HGNC Symbol;Acc:HGNC:7966]
Entrez Summary The protein encoded by this gene belongs to the NR1 subfamily of the nuclear receptor superfamily. The NR1 family members are key regulators of macrophage function, controlling transcriptional programs involved in lipid homeostasis and inflammation. This protein is highly expressed in visceral organs, including liver, kidney and intestine. It forms a heterodimer with retinoid X receptor (RXR), and regulates expression of target genes containing retinoid response elements. Studies in mice lacking this gene suggest that it may play an important role in the regulation of cholesterol homeostasis. Alternatively spliced transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Oct 2011]
Ensembl ID: ENSG00000025434
External Link: CisBP
Interpro IPR000536; IPR001628; IPR001723; IPR008946; IPR023257; ;
Protein Domain: ENSP00000378793
Protein Domain: ENSP00000384745
Protein Domain: ENSP00000387946
Protein Domain: ENSP00000420656
Protein Domain: ENSP00000432073
Protein Domain: ENSP00000403798
Protein Domain: ENSP00000396132
Protein Domain: ENSP00000391005
Protein Domain: ENSP00000434650
Domain:
Protein: ENSP00000378793DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000384745DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000387946DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000420656DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000432073DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000403798DBD: Nuclear Hormone ReceptorOther:
Protein: ENSP00000396132DBD: Nuclear Hormone ReceptorOther:
Protein: ENSP00000391005DBD: Nuclear Hormone ReceptorOther:
Protein: ENSP00000434650DBD: Nuclear Hormone ReceptorOther: Hormone_recep

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:9013544
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:0004879
ligand-activated sequence-specific DNA binding RNA polymerase II transcription factor activity
TAS - PMID:7744246
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
1a2, Orthologous HQ evidence
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
MiscHocoMocoInferred - NR1H2 (73% AA Identity, Homo sapiens)
MiscHOMERInferred - Nr1h2 (72% AA Identity, Mus musculus)
TransfacTransfacLicense requiredInferred - AAM33367 (70% AA Identity, Xenopus laevis)

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