TF Info Page for NFIC (SMAD)

Conclusion

Assessment Binding Mode Motif Status Notes Comments
Known motif 1 Monomer or homomultimer High-throughput in vitro

Description

Description: nuclear factor I C [Source:HGNC Symbol;Acc:HGNC:7786]
Entrez Summary The protein encoded by this gene belongs to the CTF/NF-I family. These are dimeric DNA-binding proteins, and function as cellular transcription factors and as replication factors for adenovirus DNA replication. Alternatively spliced transcript variants encoding different isoforms have been described for this gene. [provided by RefSeq, Oct 2011]
Ensembl ID: ENSG00000141905
External Link: CisBP
Interpro IPR000647; IPR003619; IPR019548; IPR019739; IPR020604; ;
Protein Domain: ENSP00000342194
Protein Domain: ENSP00000465655
Protein Domain: ENSP00000378543
Protein Domain: ENSP00000396843
Protein Domain: ENSP00000466647
Domain:
Protein: ENSP00000342194DBD: MH1 Family DBDsOther: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000465655DBD: MH1 Family DBDsOther: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000378543DBD: MH1 Family DBDsOther: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000396843DBD: MH1 Family DBDsOther: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000466647DBD: MH1 Family DBDsOther: CTF_NFI, NfI_DNAbd_pre-N

Previous Annotations

Source Annotation
TF-CAT classification TF Gene_DNA-Binding
sequence-specific_DNA Binding
Transactivation_
PMIDS:2504497
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:1524678
GO:0003700
sequence-specific DNA binding transcription factor activity
IDA - PMID:1524678
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-SELEXYin2017Direct
Methyl-HT-SELEXYin2017Direct
High-throughput SELEX SAGEJASPARDirect
TransfacTransfacLicense requiredDirect
TransfacTransfacLicense requiredDirect
MiscHOMERDirect
MiscHOMERDirect
TransfacTransfacLicense requiredInferred - NFIA (89% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - Nfia (89% AA Identity, Rattus norvegicus)
HT-SELEXYin2017Inferred - NFIX (87% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NFIX (87% AA Identity, Homo sapiens)
HT-SELEXYin2017Inferred - NFIB (84% AA Identity, Homo sapiens)
Methyl-HT-SELEXYin2017Inferred - NFIB (84% AA Identity, Homo sapiens)
TransfacTransfacLicense requiredInferred - NFIB (84% AA Identity, Homo sapiens)
HT-SELEXNitta2015Inferred - NfI (80% AA Identity, Drosophila melanogaster)

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