The Human Transcription Factors

Conclusion

Assessment	Binding Mode	Motif Status	Notes	Comments
Known motif	1 Monomer or homomultimer	High-throughput in vitro	Has a putative AT-hook

Description

Description:

interferon regulatory factor 5 [Source:HGNC Symbol;Acc:HGNC:6120]

Entrez Summary

This gene encodes a member of the interferon regulatory factor (IRF) family, a group of transcription factors with diverse roles, including virus-mediated activation of interferon, and modulation of cell growth, differentiation, apoptosis, and immune system activity. Members of the IRF family are characterized by a conserved N-terminal DNA-binding domain containing tryptophan (W) repeats. Alternative promoter use and alternative splicing result in multiple transcript variants, and a 30-nt indel polymorphism (SNP rs60344245) can result in loss of a 10-aa segment. [provided by RefSeq, Dec 2016]

Ensembl ID:

ENSG00000128604

External Link:

CisBP

Interpro

IPR001346; IPR008984; IPR019471; IPR019817;

Protein Domain:

ENSP00000249375

Protein Domain:

ENSP00000349770

Protein Domain:

ENSP00000385352

Protein Domain:

ENSP00000419950

Protein Domain:

ENSP00000483292

Domain:

Protein: ENSP00000249375	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000349770	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000385352	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000419950	DBD: Interferon regulatory factor (IRF)	Other: IRF-3
Protein: ENSP00000483292	DBD: Interferon regulatory factor (IRF)	Other:

Previous Annotations

Source	Annotation
TF-CAT classification	TF Gene_DNA-Binding sequence-specific_DNA Binding TF PPI Transactivation_ PMIDS:12600985 15308637
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"	No
GO-Info	GO:0003700 sequence-specific DNA binding transcription factor activity IEA - GO_REF:0000002
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	Yin2017		Direct
HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Methyl-HT-SELEX	Yin2017		Direct
Transfac	Transfac	License required	Direct
Misc	HocoMoco		Direct
PBM	Badis09		Inferred - Irf5 (97% AA Identity, Mus musculus)
PBM	Zoo_01		Inferred - IRF5 (96% AA Identity, Oryctolagus cuniculus)

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": 121, "endStyle": "curved", "aliStart": 16, "text": "IRF", "colour": "#009900", "aliEnd": 121, "start": 16, "href": "http://pfam.xfam.org/family/PF00605.15", "type": "pfama", "display": "true", "metadata": {"end": 121, "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": 16, "scoreName": "E-value", "accession": "PF00605.15", "start": 16, "score": 5.2e-39, "identifier": "Interferon regulatory factor transcription factor", "type": "DBD", "aliEnd": 121}}, {"startStyle": "straight", "end": 431, "endStyle": "straight", "aliStart": 248, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 430, "start": 247, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 431, "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": 248, "scoreName": "E-value", "accession": "PF10401.7", "start": 247, "score": 1.2999999999999998e-70, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 430}}], "length": 499}

{"regions": [{"startStyle": "curved", "end": 121, "endStyle": "curved", "aliStart": 16, "text": "IRF", "colour": "#009900", "aliEnd": 121, "start": 16, "href": "http://pfam.xfam.org/family/PF00605.15", "type": "pfama", "display": "true", "metadata": {"end": 121, "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": 16, "scoreName": "E-value", "accession": "PF00605.15", "start": 16, "score": 5.5e-39, "identifier": "Interferon regulatory factor transcription factor", "type": "DBD", "aliEnd": 121}}, {"startStyle": "straight", "end": 447, "endStyle": "straight", "aliStart": 264, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 446, "start": 263, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 447, "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": 264, "scoreName": "E-value", "accession": "PF10401.7", "start": 263, "score": 1.3999999999999996e-70, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 446}}], "length": 515}

{"regions": [{"startStyle": "curved", "end": 121, "endStyle": "curved", "aliStart": 16, "text": "IRF", "colour": "#009900", "aliEnd": 121, "start": 16, "href": "http://pfam.xfam.org/family/PF00605.15", "type": "pfama", "display": "true", "metadata": {"end": 121, "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": 16, "scoreName": "E-value", "accession": "PF00605.15", "start": 16, "score": 3.6e-39, "identifier": "Interferon regulatory factor transcription factor", "type": "DBD", "aliEnd": 121}}, {"startStyle": "straight", "end": 345, "endStyle": "straight", "aliStart": 162, "text": "IRF-3", "colour": "#9999ff", "aliEnd": 344, "start": 161, "href": "http://pfam.xfam.org/family/PF10401.7", "type": "pfama", "display": "true", "metadata": {"end": 345, "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": 162, "scoreName": "E-value", "accession": "PF10401.7", "start": 161, "score": 9.499999999999998e-71, "identifier": "Interferon-regulatory factor 3", "type": "DBD", "aliEnd": 344}}], "length": 413}

TF Info Page for IRF5 (IRF)

Conclusion

Description

Previous Annotations

DNA-Binding

Published Motif Data

Structure

Experimental History

External Contribution