The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Likely to be sequence specific TF	1 Monomer or homomultimer	No motif

Description

Description:	nuclear transcription factor, X-box binding 1 [Source:HGNC Symbol;Acc:HGNC:7803]
Entrez Summary	TBA
Ensembl ID:	ENSG00000086102
External Link:	T130745_1.02
Interpro	IPR000967; IPR001374; IPR001841; IPR019786; IPR019787; ;
Protein Domain:
Protein: ENSP00000317695	DBD: NF-X1 ZF	Other:
Protein: ENSP00000368836	DBD: NF-X1 ZF	Other:
Protein: ENSP00000368856	DBD: NF-X1 ZF	Other: R3H

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_Single stranded RNA/DNA binding_DNA Binding Transactivation_ PMIDS:7964459
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:0001078 RNA polymerase II core promoter proximal region sequence-specific DNA binding transcription factor a IDA - PMID:7964459 GO:0003700 sequence-specific DNA binding transcription factor activity TAS - PMID:7964459
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	3a, decent circumstantial evidence for its role as
TF has conditional DNA-binding requirements

DNA-Binding

Published Motif Data

Source	Annotation	Motif	Evidence

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

{"regions": [{"startStyle": "jagged", "end": 470, "endStyle": "curved", "aliStart": 455, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 470, "start": 453, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 470, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 455, "scoreName": "E-value", "accession": "PF01422.15", "start": 453, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 470}}, {"startStyle": "curved", "end": 524, "endStyle": "curved", "aliStart": 506, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 523, "start": 506, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 524, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 506, "scoreName": "E-value", "accession": "PF01422.15", "start": 506, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 523}}, {"startStyle": "curved", "end": 585, "endStyle": "curved", "aliStart": 567, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 585, "start": 567, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 585, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 567, "scoreName": "E-value", "accession": "PF01422.15", "start": 567, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 585}}, {"startStyle": "curved", "end": 654, "endStyle": "curved", "aliStart": 632, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 654, "start": 622, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 654, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 632, "scoreName": "E-value", "accession": "PF01422.15", "start": 622, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 654}}, {"startStyle": "curved", "end": 706, "endStyle": "jagged", "aliStart": 694, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 704, "start": 694, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 706, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 694, "scoreName": "E-value", "accession": "PF01422.15", "start": 694, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 704}}, {"startStyle": "curved", "end": 739, "endStyle": "curved", "aliStart": 721, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 739, "start": 721, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 739, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 721, "scoreName": "E-value", "accession": "PF01422.15", "start": 721, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 739}}, {"startStyle": "curved", "end": 857, "endStyle": "curved", "aliStart": 832, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 853, "start": 832, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 857, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 832, "scoreName": "E-value", "accession": "PF01422.15", "start": 832, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 853}}, {"startStyle": "curved", "end": 883, "endStyle": "curved", "aliStart": 863, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 883, "start": 863, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 883, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 863, "scoreName": "E-value", "accession": "PF01422.15", "start": 863, "score": 1.1000000000000001e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 883}}], "length": 1025}

{"regions": [{"startStyle": "jagged", "end": 470, "endStyle": "curved", "aliStart": 455, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 470, "start": 453, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 470, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 455, "scoreName": "E-value", "accession": "PF01422.15", "start": 453, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 470}}, {"startStyle": "curved", "end": 524, "endStyle": "curved", "aliStart": 506, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 523, "start": 506, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 524, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 506, "scoreName": "E-value", "accession": "PF01422.15", "start": 506, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 523}}, {"startStyle": "curved", "end": 585, "endStyle": "curved", "aliStart": 567, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 585, "start": 567, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 585, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 567, "scoreName": "E-value", "accession": "PF01422.15", "start": 567, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 585}}, {"startStyle": "curved", "end": 654, "endStyle": "curved", "aliStart": 632, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 654, "start": 622, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 654, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 632, "scoreName": "E-value", "accession": "PF01422.15", "start": 622, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 654}}, {"startStyle": "curved", "end": 706, "endStyle": "jagged", "aliStart": 694, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 704, "start": 694, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 706, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 694, "scoreName": "E-value", "accession": "PF01422.15", "start": 694, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 704}}, {"startStyle": "curved", "end": 739, "endStyle": "curved", "aliStart": 721, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 739, "start": 721, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 739, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 721, "scoreName": "E-value", "accession": "PF01422.15", "start": 721, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 739}}, {"startStyle": "curved", "end": 857, "endStyle": "curved", "aliStart": 832, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 853, "start": 832, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 857, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 832, "scoreName": "E-value", "accession": "PF01422.15", "start": 832, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 853}}, {"startStyle": "curved", "end": 883, "endStyle": "curved", "aliStart": 863, "text": "NF-X1", "colour": "#2cb42c", "aliEnd": 883, "start": 863, "href": "http://pfam.xfam.org/family/PF01422.15", "type": "pfama", "display": "true", "metadata": {"end": 883, "description": "This domain is presumed to be a zinc binding domain. The following pattern describes the zinc finger. C-X(1-6)-H-X-C-X3-C(H/C)-X(3-4)-(H/C)-X(1-10)-C Where X can be any amino acid, and numbers in brackets indicate the number of residues. Two position can be either his or cys. This family includes Swiss:P40798, Swiss:Q12986 and Swiss:P53971. The zinc fingers in Swiss:Q12986 bind to DNA [1].", "database": "PfamA", "aliStart": 863, "scoreName": "E-value", "accession": "PF01422.15", "start": 863, "score": 3.3e-16, "identifier": "NF-X1 type zinc finger", "type": "DBD", "aliEnd": 883}}, {"startStyle": "straight", "end": 1060, "endStyle": "straight", "aliStart": 996, "text": "R3H", "colour": "#9999ff", "aliEnd": 1059, "start": 995, "href": "http://pfam.xfam.org/family/PF01424.20", "type": "pfama", "display": "true", "metadata": {"end": 1060, "description": "The name of the R3H domain comes from the characteristic spacing of the most conserved arginine and histidine residues.  The function of the domain is predicted to be binding ssDNA.", "database": "PfamA", "aliStart": 996, "scoreName": "E-value", "accession": "PF01424.20", "start": 995, "score": 5.1e-21, "identifier": "R3H domain", "type": "DBD", "aliEnd": 1059}}], "length": 1121}

TF Info Page for NFX1 (NFX)