TF Info Page for NFYC (Unknown)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 2 Obligate heteromer In vivo/Misc source Only known motifs are from Transfac or HocoMoco - origin is uncertain PDB 4AWL is a very tightly intertwined heterotrimeric complex of NFYA, NFYB and NFYC with a plenty of protein-protein interactions. NFYA contains the recognition alpha-helix but there is no point considering any of the components separately as they are definitely complexed even in the solution and all contribute contacts with the DNA backbone.

Description

Description: nuclear transcription factor Y subunit gamma [Source:HGNC Symbol;Acc:HGNC:7806]
Entrez Summary This gene encodes one subunit of a trimeric complex forming a highly conserved transcription factor that binds with high specificity to CCAAT motifs in the promoters of a variety of genes. The encoded protein, subunit C, forms a tight dimer with the B subunit, a prerequisite for subunit A association. The resulting trimer binds to DNA with high specificity and affinity. Subunits B and C each contain a histone-like motif. Multiple transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Dec 2008]
Ensembl ID: ENSG00000066136
External Link: CisBP
Interpro IPR003958; IPR009072;
Protein Domain: ENSP00000312617
Protein Domain: ENSP00000361738
Protein Domain: ENSP00000404427
Protein Domain: ENSP00000408867
Protein Domain: ENSP00000361736
Protein Domain: ENSP00000361737
Protein Domain: ENSP00000396620
Protein Domain: ENSP00000408315
Protein Domain: ENSP00000416403
Domain:
Protein: ENSP00000312617DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000361738DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000404427DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000408867DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000361736DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000361737DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000396620DBD: OtherOther: CBFD_NFYB_HMF, Histone
Protein: ENSP00000408315DBD: OtherOther: CBFD_NFYB_HMF
Protein: ENSP00000416403DBD: OtherOther:

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific__
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:0001077
RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a
IEA - GO_REF:0000019
GO:0003700
sequence-specific DNA binding transcription factor activity
TAS - PMID:10446203, PMID:9332362
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 Obligate_Multimer

DNA-Binding

Published Motif Data

Source Annotation Motif Evidence
TransfacTransfacLicense requiredDirect
MiscHocoMocoDirect

Structure

Structure PDB 4AWL

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