TF Info Page for RXRG (Nuclear receptor)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro Usually binds in vivo as a heterodimer, but can bind as a homodimer in vitro

Description

Description: retinoid X receptor gamma [Source:HGNC Symbol;Acc:HGNC:10479]
Entrez Summary NA
Ensembl ID: ENSG00000143171
External Link: CisBP
Interpro IPR000003; IPR000536; IPR001628; IPR001723; IPR008946; IPR021780;
Protein Domain: ENSP00000352900
Protein Domain: ENSP00000482458
Domain:
Protein: ENSP00000352900DBD: Nuclear Hormone ReceptorOther: Hormone_recep, Nuc_recep-AF1
Protein: ENSP00000482458DBD: Nuclear Hormone ReceptorOther: Hormone_recep

Previous Annotations

Source Annotation
TF-CAT classification Indeterminate - There is no evidence for or against this genes role as a TF___
PMIDS:0
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:0004886
9-cis retinoic acid receptor activity
IEA - GO_REF:0000019
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
SMiLE-seqIsakova2017Direct
HT-SELEXJolma2010Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
MiscHocoMocoDirect
PBMZoo_01Inferred - Rxrg (100% AA Identity, Mus musculus)
SMiLE-seqIsakova2017Inferred - RXRA (95% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RXRA (95% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RXRA (95% AA Identity, Homo sapiens)
PBMBadis09Inferred - Rxra (95% AA Identity, Mus musculus)
ChIP-seqENCODEInferred - RXRA (95% AA Identity, Homo sapiens)
ChIP-seqENCODEInferred - RXRA (95% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RXRA (95% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RXRA (95% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - RXRA (95% AA Identity, Homo sapiens)
SELEXJASPARInferred - Rxra (95% AA Identity, Mus musculus)
MiscHocoMocoInferred - RXRA (95% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RXRB (88% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - RXRB (88% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RXRB (88% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - RXRB (88% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Rxrb (88% AA Identity, Mus musculus)
MiscHocoMocoInferred - RXRB (88% AA Identity, Homo sapiens)
HT-SELEXNitta2015Inferred - usp (82% AA Identity, Drosophila melanogaster)
SELEXJASPARInferred - usp (82% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - usp (82% AA Identity, Drosophila melanogaster)
TransfacTransfacLicense requiredInferred - usp (82% AA Identity, Drosophila melanogaster)
MisciDMMPMMInferred - usp (82% AA Identity, Drosophila melanogaster)

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