The Human Transcription Factors

Conclusion

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

Description

Description:

nuclear factor I X [Source:HGNC Symbol;Acc:HGNC:7788]

Entrez Summary

The protein encoded by this gene is a transcription factor that binds the palindromic sequence 5'-TTGGCNNNNNGCCAA-3 in viral and cellular promoters. The encoded protein can also stimulate adenovirus replication in vitro. Three transcript variants encoding different isoforms have been found for this gene. [provided by RefSeq, Aug 2012]

Ensembl ID:

ENSG00000008441

External Link:

CisBP

Interpro

IPR000647; IPR003619; IPR019548; IPR019739; IPR020604; ;

Protein Domain:

ENSP00000380781

Protein Domain:

ENSP00000467785

Protein Domain:

ENSP00000466389

Protein Domain:

ENSP00000466735

Protein Domain:

ENSP00000465616

Protein Domain:

ENSP00000468707

Protein Domain:

ENSP00000465094

Domain:

Protein: ENSP00000380781	DBD: MH1 Family DBDs	Other: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000467785	DBD: MH1 Family DBDs	Other: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000466389	DBD: MH1 Family DBDs	Other: CTF_NFI, NfI_DNAbd_pre-N
Protein: ENSP00000466735	DBD: MH1 Family DBDs	Other: CTF_NFI
Protein: ENSP00000465616	DBD: MH1 Family DBDs	Other:
Protein: ENSP00000468707	DBD: MH1 Family DBDs	Other:
Protein: ENSP00000465094	DBD: MH1 Family DBDs	Other: NfI_DNAbd_pre-N

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding Transactivation_ PMIDS:9660824 9822643
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:0003700 sequence-specific DNA binding transcription factor activity TAS - PMID:7590749, PMID:8340106 GO:0003705 RNA polymerase II distal enhancer sequence-specific DNA binding transcription factor activity TAS - PMID:7937100
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-SELEX	Jolma2013		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Jolma2013		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Transfac	Transfac	License required	Inferred - NFIA (94% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - Nfia (94% AA Identity, Rattus norvegicus)
HT-SELEX	Yin2017		Inferred - NFIB (89% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFIB (89% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFIB (89% AA Identity, Homo sapiens)
HT-SELEX	Yin2017		Inferred - NFIC (87% AA Identity, Homo sapiens)
Methyl-HT-SELEX	Yin2017		Inferred - NFIC (87% AA Identity, Homo sapiens)
High-throughput SELEX SAGE	JASPAR		Inferred - NFIC (87% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFIC (87% AA Identity, Homo sapiens)
Transfac	Transfac	License required	Inferred - NFIC (87% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - NFIC (87% AA Identity, Homo sapiens)
Misc	HOMER		Inferred - NFIC (87% AA Identity, Homo sapiens)
HT-SELEX	Nitta2015		Inferred - NfI (78% 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

Name
Email
Comment
Reference

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TF Info Page for NFIX (SMAD)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution