TF Info Page for TBP (TBP)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer 100 perc ID - in vitro Binds DNA in the pre-initiation complex

Description

Description: TATA-box binding protein [Source:HGNC Symbol;Acc:HGNC:11588]
Entrez Summary Initiation of transcription by RNA polymerase II requires the activities of more than 70 polypeptides. The protein that coordinates these activities is transcription factor IID (TFIID), which binds to the core promoter to position the polymerase properly, serves as the scaffold for assembly of the remainder of the transcription complex, and acts as a channel for regulatory signals. TFIID is composed of the TATA-binding protein (TBP) and a group of evolutionarily conserved proteins known as TBP-associated factors or TAFs. TAFs may participate in basal transcription, serve as coactivators, function in promoter recognition or modify general transcription factors (GTFs) to facilitate complex assembly and transcription initiation. This gene encodes TBP, the TATA-binding protein. A distinctive feature of TBP is a long string of glutamines in the N-terminus. This region of the protein modulates the DNA binding activity of the C terminus, and modulation of DNA binding affects the rate of transcription complex formation and initiation of transcription. The number of CAG repeats encoding the polyglutamine tract is usually 25-42, and expansion of the number of repeats to 45-66 increases the length of the polyglutamine string and is associated with spinocerebellar ataxia 17, a neurodegenerative disorder classified as a polyglutamine disease. Two transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Jul 2016]
Ensembl ID: ENSG00000112592
External Link: CisBP
Interpro IPR000814; IPR030491;
Protein Domain: ENSP00000230354
Protein Domain: ENSP00000375942
Protein Domain: ENSP00000400008
Protein Domain: ENSP00000442132
Protein Domain: ENSP00000416482
Domain:
Protein: ENSP00000230354DBD: TBPOther: DDHD, DUF4746, EPL1, MMR1, Presenilin
Protein: ENSP00000375942DBD: TBPOther: DDHD, DUF4746, EPL1, MMR1, Presenilin
Protein: ENSP00000400008DBD: TBPOther: DDHD, DUF4746, EPL1, MMR1, Presenilin, SpoIIP, TFI
Protein: ENSP00000442132DBD: TBPOther: DDHD, EPL1, MMR1, Presenilin
Protein: ENSP00000416482DBD: TBPOther: DUF4746, SpoIIP, TFIIA

Previous Annotations

Source Annotation
TF-CAT classification No
PMIDS:
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.
No
CisBP considers it as a TF? Yes
TFclass considers it as a TF? Yes
Has GO:0003700 "transcription factor activity, sequence-specific DNA binding" No
GO-Info GO:0001034
sequence-specific DNA binding RNA polymerase III transcription factor activity
IMP - PMID:26638071
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
ChIP-seqmodENCODEDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect
PBMBadis09Inferred - Tbp (100% AA Identity, Mus musculus)
PBMJASPARInferred - SPT15 (77% AA Identity, Saccharomyces cerevisiae)
PBMZhu09Inferred - SPT15 (77% AA Identity, Saccharomyces cerevisiae)
TransfacTransfacLicense requiredInferred - SPT15 (77% AA Identity, Saccharomyces cerevisiae)
MiscDeBoer11Inferred - SPT15 (77% AA Identity, Saccharomyces cerevisiae)

Structure

Structure PDB 1CDW

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