TF Info Page for NR4A3 (Nuclear receptor)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain

Description

Description: nuclear receptor subfamily 4 group A member 3 [Source:HGNC Symbol;Acc:HGNC:7982]
Entrez Summary This gene encodes a member of the steroid-thyroid hormone-retinoid receptor superfamily. The encoded protein may act as a transcriptional activator. The protein can efficiently bind the NGFI-B Response Element (NBRE). Three different versions of extraskeletal myxoid chondrosarcomas (EMCs) are the result of reciprocal translocations between this gene and other genes. The translocation breakpoints are associated with Nuclear Receptor Subfamily 4, Group A, Member 3 (on chromosome 9) and either Ewing Sarcome Breakpoint Region 1 (on chromosome 22), RNA Polymerase II, TATA Box-Binding Protein-Associated Factor, 68-KD (on chromosome 17), or Transcription factor 12 (on chromosome 15). Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Mar 2010]
Ensembl ID: ENSG00000119508
External Link: CisBP
Interpro IPR000536; IPR001628; IPR001723; IPR003070; IPR003072; IPR008946;
Protein Domain: ENSP00000340301
Protein Domain: ENSP00000378531
Protein Domain: ENSP00000333122
Protein Domain: ENSP00000482027
Domain:
Protein: ENSP00000340301DBD: Nuclear Hormone ReceptorOther:
Protein: ENSP00000378531DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000333122DBD: Nuclear Hormone ReceptorOther: Hormone_recep
Protein: ENSP00000482027DBD: Nuclear Hormone ReceptorOther: Hormone_recep

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:10875239
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:0001077
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IDA - PMID:20558821
GO:0004887
thyroid hormone receptor activity
TAS - PMID:8570200
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
MiscHocoMocoDirect
SMiLE-seqIsakova2017Inferred - NR4A2 (97% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - NR4A2 (97% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NR4A2 (97% AA Identity, Homo sapiens)
PBMDREAM_contestInferred - Nr4a2 (97% AA Identity, Mus musculus)
COMPILEDJASPARInferred - NR4A2 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NR4A2 (97% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NR4A2 (97% AA Identity, Homo sapiens)
MiscHocoMocoInferred - NR4A2 (97% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - NR4A1 (91% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - NR4A1 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NR4A1 (91% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NR4A1 (91% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NR4A1 (91% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NR4A1 (91% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NR4A1 (91% AA Identity, Homo sapiens)
MiscHocoMocoInferred - NR4A1 (91% AA Identity, Homo sapiens)
MiscHOMERInferred - NR4A1 (91% AA Identity, Homo sapiens)
HT-SELEXNitta2015Inferred - Hr38 (88% AA Identity, Drosophila melanogaster)
PBMTF_EvolutionUnpublished DataInferred - nhr-6 (75% AA Identity, Caenorhabditis elegans)

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