TF Info Page for NPAS3 (bHLH)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Inferred motif 2 Obligate heteromer In vivo/Misc source Likely obligate heteromer (PMID: 9374395; PMID: 27782878).

Description

Description: neuronal PAS domain protein 3 [Source:HGNC Symbol;Acc:HGNC:19311]
Entrez Summary This gene encodes a member of the basic helix-loop-helix and PAS domain-containing family of transcription factors. The encoded protein is localized to the nucleus and may regulate genes involved in neurogenesis. Chromosomal abnormalities that affect the coding potential of this gene are associated with schizophrenia and cognitive disability. Alternate splicing results in multiple transcript variants. [provided by RefSeq, Sep 2009]
Ensembl ID: ENSG00000151322
External Link: CisBP
Interpro IPR000014; IPR011598; IPR013655; IPR013767;
Protein Domain: ENSP00000319610
Protein Domain: ENSP00000348460
Protein Domain: ENSP00000350446
Protein Domain: ENSP00000449542
Protein Domain: ENSP00000448916
Protein Domain: ENSP00000447213
Protein Domain: ENSP00000446700
Domain:
Protein: ENSP00000319610DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_4, PAS_9
Protein: ENSP00000348460DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_4, PAS_9
Protein: ENSP00000350446DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_4, PAS_9
Protein: ENSP00000449542DBD: bHLHOther: PAS, PAS_3
Protein: ENSP00000448916DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_4, PAS_9
Protein: ENSP00000447213DBD: bHLHOther: PAS, PAS_3
Protein: ENSP00000446700DBD: bHLHOther: PAS

Previous Annotations

Source Annotation
TF-CAT classification TF Gene Candidate_DNA-Binding
sequence-specific_Other_
PMIDS:16172381 9374395 16172381 10534623 16172381 16190882
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.
c
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:0000981
sequence-specific DNA binding RNA polymerase II transcription factor activity
IBA - GO_REF:0000033
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
TransfacTransfacLicense requiredInferred - HIF1A (69% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HIF1A (69% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HIF1A (69% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HIF1A (69% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - HIF1A (69% AA Identity, Homo sapiens)
MiscHocoMocoInferred - HIF1A (69% AA Identity, Homo sapiens)
MiscHOMERInferred - HIF1A (69% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - EPAS1 (64% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - EPAS1 (64% AA Identity, Homo sapiens)
MiscHocoMocoInferred - EPAS1 (64% AA Identity, Homo sapiens)
MiscHOMERInferred - EPAS1 (64% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Hif3a (61% AA Identity, Mus musculus)

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