TF Info Page for CLOCK (bHLH)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro Can also bind as heterodimer with ARNTL.

Description

Description: clock circadian regulator [Source:HGNC Symbol;Acc:HGNC:2082]
Entrez Summary NA
Ensembl ID: ENSG00000134852
External Link: CisBP
Interpro IPR000014; IPR001067; IPR001610; IPR011598; IPR013767; ;
Protein Domain: ENSP00000308741
Protein Domain: ENSP00000370723
Protein Domain: ENSP00000426983
Protein Domain: ENSP00000396649
Domain:
Protein: ENSP00000308741DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_9
Protein: ENSP00000370723DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_9
Protein: ENSP00000426983DBD: bHLHOther: PAS, PAS_11, PAS_3, PAS_9
Protein: ENSP00000396649DBD: bHLHOther: PAS, PAS_9

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding_
PMIDS:9616112 15147242 15500444
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:0000982
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
ISS - GO_REF:0000024
GO:0003700
sequence-specific DNA binding transcription factor activity
ISS - GO_REF:0000024
GO:0051092
positive regulation of NF-kappaB transcription factor activity
ISS - GO_REF:0000024
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
HT-SELEXJolma2013Direct
HT-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
TransfacTransfacLicense requiredDirect
PBMZoo_01Inferred - Clock (100% AA Identity, Mus musculus)
MiscHOMERInferred - Clock (100% AA Identity, Mus musculus)
HT-SELEXYin2017Inferred - NPAS2 (82% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NPAS2 (82% AA Identity, Homo sapiens)
PBMZoo_01Inferred - Npas2 (82% AA Identity, Mus musculus)
MiscHOMERInferred - Npas2 (82% AA Identity, Mus musculus)

Structure

Structure PDB 4H10

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