The Human Transcription Factors

Conclusion

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

Description

Description:	interferon regulatory factor 6 [Source:HGNC Symbol;Acc:HGNC:6121]
Entrez Summary	TBA
Ensembl ID:	ENSG00000117595
External Link:	T107580_1.02
Interpro	IPR001346; IPR008984; IPR019471; IPR019817;
Protein Domain:
Protein: ENSP00000355988	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000440532	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000403855	DBD: Interferon regulatory factor (IRF)	Other: IRF-3

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.	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 ISS - GO_REF:0000024
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	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
PBM	Badis09		Inferred - Irf6 (100% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - IRF6 (93% AA Identity, Meleagris gallopavo)
PBM	Zoo_01		Inferred - IRF6 (92% AA Identity, Gallus gallus)
PBM	Zoo_01		Inferred - irf6.2 (91% AA Identity, Xenopus tropicalis)
PBM	Zoo_01		Inferred - AAH82862 (79% AA Identity, Xenopus laevis)

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": "curved", "end": 114, "endStyle": "curved", "aliStart": 9, "text": "IRF", "colour": "#009900", "aliEnd": 114, "start": 9, "href": "http://pfam.xfam.org/family/PF00605.15", "type": "pfama", "display": "true", "metadata": {"end": 114, "description": "This family of transcription factors are important in the regulation of interferons in response to infection by virus and in the regulation of interferon-inducible genes. Three of the five conserved tryptophan residues bind to DNA.", "database": "PfamA", "aliStart": 9, "scoreName": "E-value", "accession": "PF00605.15", "start": 9, "score": 1.6e-38, "identifier": "Interferon regulatory factor transcription factor", "type": "DBD", "aliEnd": 114}}, {"startStyle": "straight", "end": 407, "endStyle": "straight", "aliStart": 224, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 406, "start": 223, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 407, "description": "This is the interferon-regulatory factor 3 chain of the hetero-dimeric structure which also contains the shorter chain CREB-binding protein.  These two subunits make up the DRAF1 (double-stranded RNA-activated factor 1).          Viral dsRNA produced during viral transcription or replication leads to the activation of DRAF1. The DNA-binding specificity of DRAF1 correlates with transcriptional induction of ISG (interferon-alpha,beta-stimulated gene). IRF-3 preexists in the cytoplasm of uninfected cells and translocates to the nucleus following viral infection. Translocation of IRF-3 is accompanied by an increase in serine and threonine phosphorylation, and association with the CREB coactivator occurs only after infection.", "database": "PfamA", "aliStart": 224, "scoreName": "E-value", "accession": "PF10401.7", "start": 223, "score": 1.3999999999999997e-67, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 406}}], "length": 468}

{"regions": [{"startStyle": "straight", "end": 312, "endStyle": "straight", "aliStart": 129, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 311, "start": 128, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 312, "description": "This is the interferon-regulatory factor 3 chain of the hetero-dimeric structure which also contains the shorter chain CREB-binding protein.  These two subunits make up the DRAF1 (double-stranded RNA-activated factor 1).          Viral dsRNA produced during viral transcription or replication leads to the activation of DRAF1. The DNA-binding specificity of DRAF1 correlates with transcriptional induction of ISG (interferon-alpha,beta-stimulated gene). IRF-3 preexists in the cytoplasm of uninfected cells and translocates to the nucleus following viral infection. Translocation of IRF-3 is accompanied by an increase in serine and threonine phosphorylation, and association with the CREB coactivator occurs only after infection.", "database": "PfamA", "aliStart": 129, "scoreName": "E-value", "accession": "PF10401.7", "start": 128, "score": 8.3e-68, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 311}}], "length": 373}

{"regions": [{"startStyle": "curved", "end": 114, "endStyle": "curved", "aliStart": 9, "text": "IRF", "colour": "#009900", "aliEnd": 114, "start": 9, "href": "http://pfam.xfam.org/family/PF00605.15", "type": "pfama", "display": "true", "metadata": {"end": 114, "description": "This family of transcription factors are important in the regulation of interferons in response to infection by virus and in the regulation of interferon-inducible genes. Three of the five conserved tryptophan residues bind to DNA.", "database": "PfamA", "aliStart": 9, "scoreName": "E-value", "accession": "PF00605.15", "start": 9, "score": 7.7e-39, "identifier": "Interferon regulatory factor transcription factor", "type": "DBD", "aliEnd": 114}}, {"startStyle": "straight", "end": 276, "endStyle": "jagged", "aliStart": 224, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 276, "start": 223, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 276, "description": "This is the interferon-regulatory factor 3 chain of the hetero-dimeric structure which also contains the shorter chain CREB-binding protein.  These two subunits make up the DRAF1 (double-stranded RNA-activated factor 1).          Viral dsRNA produced during viral transcription or replication leads to the activation of DRAF1. The DNA-binding specificity of DRAF1 correlates with transcriptional induction of ISG (interferon-alpha,beta-stimulated gene). IRF-3 preexists in the cytoplasm of uninfected cells and translocates to the nucleus following viral infection. Translocation of IRF-3 is accompanied by an increase in serine and threonine phosphorylation, and association with the CREB coactivator occurs only after infection.", "database": "PfamA", "aliStart": 224, "scoreName": "E-value", "accession": "PF10401.7", "start": 223, "score": 2.2e-09, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 276}}], "length": 276}

TF Info Page for IRF6 (IRF)