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UniProtKB/Swiss-Prot entry O14896


[Entry info] [Name and origin] [References] [Comments] [Cross-references] [Keywords] [Features] [Sequence] [Tools]

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Entry information
Entry name IRF6_HUMAN
Primary accession number O14896
Secondary accession numbers None
Integrated into Swiss-Prot on July 15, 1998
Sequence was last modified on January 1, 1998 (Sequence version 1)
Annotations were last modified on    June 16, 2009 (Entry version 82)
Name and origin of the protein
Protein name Interferon regulatory factor 6
Synonym IRF-6
Gene name
Name: IRF6
From
Homo sapiens (Human) [TaxID: 9606] 
Taxonomy Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo.
Protein existence 1: Evidence at protein level;
References
[1]
NUCLEOTIDE SEQUENCE [MRNA].
Grossman A., Mittrucker H.W., Antonio L., Ozato K., Mak T.W.;
Submitted (SEP-1997) to the EMBL/GenBank/DDBJ databases.
[2]
NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
DOI=10.1038/nature04727; PubMed=16710414 [NCBI, ExPASy, EBI, Israel, Japan]
Gregory S.G., Barlow K.F., McLay K.E., Kaul R., Swarbreck D., Dunham A., Scott C.E., Howe K.L., Woodfine K., Spencer C.C.A., Jones M.C., Gillson C., Searle S., Zhou Y., Kokocinski F., McDonald L., Evans R., Phillips K., Atkinson A., Cooper R., Jones C., Hall R.E., Andrews T.D., Lloyd C., Ainscough R., Almeida J.P., Ambrose K.D., Anderson F., Andrew R.W., Ashwell R.I.S., Aubin K., Babbage A.K., Bagguley C.L., Bailey J., Beasley H., Bethel G., Bird C.P., Bray-Allen S., Brown J.Y., Brown A.J., Buckley D., Burton J., Bye J., Carder C., Chapman J.C., Clark S.Y., Clarke G., Clee C., Cobley V., Collier R.E., Corby N., Coville G.J., Davies J., Deadman R., Dunn M., Earthrowl M., Ellington A.G., Errington H., Frankish A., Frankland J., French L., Garner P., Garnett J., Gay L., Ghori M.R.J., Gibson R., Gilby L.M., Gillett W., Glithero R.J., Grafham D.V., Griffiths C., Griffiths-Jones S., Grocock R., Hammond S., Harrison E.S.I., Hart E., Haugen E., Heath P.D., Holmes S., Holt K., Howden P.J., Hunt A.R., Hunt S.E., Hunter G., Isherwood J., James R., Johnson C., Johnson D., Joy A., Kay M., Kershaw J.K., Kibukawa M., Kimberley A.M., King A., Knights A.J., Lad H., Laird G., Lawlor S., Leongamornlert D.A., Lloyd D.M., Loveland J., Lovell J., Lush M.J., Lyne R., Martin S., Mashreghi-Mohammadi M., Matthews L., Matthews N.S.W., McLaren S., Milne S., Mistry S., Moore M.J.F., Nickerson T., O'Dell C.N., Oliver K., Palmeiri A., Palmer S.A., Parker A., Patel D., Pearce A.V., Peck A.I., Pelan S., Phelps K., Phillimore B.J., Plumb R., Rajan J., Raymond C., Rouse G., Saenphimmachak C., Sehra H.K., Sheridan E., Shownkeen R., Sims S., Skuce C.D., Smith M., Steward C., Subramanian S., Sycamore N., Tracey A., Tromans A., Van Helmond Z., Wall M., Wallis J.M., White S., Whitehead S.L., Wilkinson J.E., Willey D.L., Williams H., Wilming L., Wray P.W., Wu Z., Coulson A., Vaudin M., Sulston J.E., Durbin R.M., Hubbard T., Wooster R., Dunham I., Carter N.P., McVean G., Ross M.T., Harrow J., Olson M.V., Beck S., Rogers J., Bentley D.R.;
"The DNA sequence and biological annotation of human chromosome 1.";
Nature 441:315-321(2006).
[3]
NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
TISSUE=Placenta;
DOI=10.1101/gr.2596504; PubMed=15489334 [NCBI, ExPASy, EBI, Israel, Japan]
The MGC Project Team;
"The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC).";
Genome Res. 14:2121-2127(2004).
[4]
VARIANTS VWS VAL-2; ALA-18; MET-18; ALA-39; GLY-61; ARG-70; SER-76; HIS-88; GLY-90; HIS-98; GLN-250; ARG-273; 290-PHE--ASP-296 DELINS LEU; PRO-294; ILE-297; GLU-320; MET-321; GLU-325; PRO-345; PHE-347; SER-369; TRP-374 AND GLU-388, VARIANTS PPS GLY-60; THR-66; LYS-82; CYS-84; HIS-84; GLU-89 AND ASN-430, AND VARIANT ILE-274.
DOI=10.1038/ng985; PubMed=12219090 [NCBI, ExPASy, EBI, Israel, Japan]
Kondo S., Schutte B.C., Richardson R.J., Bjork B.C., Knight A.S., Watanabe Y., Howard E., de Lima R.L.L., Daack-Hirsch S., Sander A., McDonald-McGinn D.M., Zackai E.H., Lammer E.J., Aylsworth A.S., Ardinger H.H., Lidral A.C., Pober B.R., Moreno L., Arcos-Burgos M., Valencia C., Houdayer C., Bahuau M., Moretti-Ferreira D., Richieri-Costa A., Dixon M.J., Murray J.C.;
"Mutations in IRF6 cause Van der Woude and popliteal pterygium syndromes.";
Nat. Genet. 32:285-289(2002).
[5]
VARIANTS VWS VAL-2; CYS-6 AND TRP-400.
DOI=10.1007/s00439-003-0989-2; PubMed=12920575 [NCBI, ExPASy, EBI, Israel, Japan]
Wang X., Liu J., Zhang H., Xiao M., Li J., Yang C., Lin X., Wu Z., Hu L., Kong X.;
"Novel mutations in the IRF6 gene for Van der Woude syndrome.";
Hum. Genet. 113:382-386(2003).
[6]
VARIANTS VWS VAL-16; ILE-64; ALA-100 AND PRO-251, AND VARIANT VWS/PPS PRO-22.
PubMed=14640121 [NCBI, ExPASy, EBI, Israel, Japan]
Ghassibe M., Revencu N., Bayet B., Gillerot Y., Vanwijck R., Verellen-Dumoulin C., Vikkula M.;
"Gene symbol IRF6. Disease: Van der Woude syndrome and popliteal pterygium.";
Hum. Genet. 113:558-558(2003).
[7]
VARIANTS VWS GLN-45 AND SER-396.
DOI=10.1007/s10038-003-0089-0; PubMed=14618417 [NCBI, ExPASy, EBI, Israel, Japan]
Kayano S., Kure S., Suzuki Y., Kanno K., Aoki Y., Kondo S., Schutte B.C., Murray J.C., Yamada A., Matsubara Y.;
"Novel IRF6 mutations in Japanese patients with Van der Woude syndrome: two missense mutations (R45Q and P396S) and a 17-kb deletion.";
J. Hum. Genet. 48:622-628(2003).
[8]
VARIANT VWS GLY-84.
PubMed=15300989 [NCBI, ExPASy, EBI, Israel, Japan]
Item C.B., Turhani D., Thurnher D., Sinko K., Yerit K., Galev K., Wittwer G., Lanre Adeyemo W., Klemens F., Ewers R., Watzinger F.;
"Gene symbol: IRF6. Disease: Van der Woude syndrome.";
Hum. Genet. 115:175-175(2004).
[9]
ASSOCIATION OF VARIANT ILE-274 WITH OFC6.
DOI=10.1056/NEJMoa032909; PubMed=15317890 [NCBI, ExPASy, EBI, Israel, Japan]
Zucchero T.M., Cooper M.E., Maher B.S., Daack-Hirsch S., Nepomuceno B., Ribeiro L., Caprau D., Christensen K., Suzuki Y., Machida J., Natsume N., Yoshiura K., Vieira A.R., Orioli I.M., Castilla E.E., Moreno L., Arcos-Burgos M., Lidral A.C., Field L.L., Liu Y.-E., Ray A., Goldstein T.H., Schultz R.E., Shi M., Johnson M.K., Kondo S., Schutte B.C., Marazita M.L., Murray J.C.;
"Interferon regulatory factor 6 (IRF6) gene variants and the risk of isolated cleft lip or palate.";
N. Engl. J. Med. 351:769-780(2004).
[10]
VARIANT VWS VAL-349.
PubMed=17122170 [NCBI, ExPASy, EBI, Israel, Japan]
Matsuzawa N., Shimozato K., Natsume N., Niikawa N., Yoshiura K.;
"A novel missense mutation in Van der Woude syndrome: usefulness of fingernail DNA for genetic analysis.";
J. Dent. Res. 85:1143-1146(2006).
Comments
  • SUBCELLULAR LOCATION: Nucleus (Potential).
  • DISEASE: Defects in IRF6 are a cause of van der Woude syndrome (VWS) [MIM:119300]; also known as lip-pit syndrome (LPS). It is an autosomal dominant developmental disorder characterized by lower lip pits, cleft lip and/or cleft palate. Penetrance is incomplete. Van der Woude and popliteal pterygium syndrome are allelic disorders.
  • DISEASE: Defects in IRF6 are the cause of popliteal pterygium syndrome (PPS) [MIM:119500]. PPS is an autosomal dominant developmental disorder characterized by cleft lip and/or cleft palate, and skin and genital anomalies. Penetrance is incomplete and expressivity is variable. It shows orofacial phenotypic similarities with van der Woude syndrome. Van der Woude and popliteal pterygium syndrome are allelic disorders.
  • DISEASE: Genetic variation in IRF6 is associated with non-syndromic orofacial cleft type 6 (OFC6) [MIM:608864]; also called non-syndromic cleft lip with or without cleft palate 6. Non-syndromic orofacial cleft is a common birth defect consisting of cleft lips with or without cleft palate. Cleft lips are associated with cleft palate in two-third of cases. A cleft lip can occur on one or both sides and range in severity from a simple notch in the upper lip to a complete opening in the lip extending into the floor of the nostril and involving the upper gum.
  • SIMILARITY: Belongs to the IRF family.
  • SIMILARITY: Contains 1 tryptophan pentad repeat DNA-binding domain.
  • WEB RESOURCE: Name=GeneReviews; URL="http://www.genetests.org/query?gene=IRF6";.
Copyright
Copyrighted by the UniProt Consortium, see http://www.uniprot.org/terms. Distributed under the Creative Commons Attribution-NoDerivs License.
Cross-references
Sequence databases
EMBL
AF027292; AAB84111.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
AL022398; CAA18545.1; -; Genomic_DNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
BC014852; AAH14852.1; -; mRNA.[EMBL / GenBank / DDBJ] [CoDingSequence]
IPI IPI00024290; -.
RefSeq NP_006138.1; -.
UniGene Hs.591415
3D structure databases
HSSP P23906; 2IRF. [HSSP ENTRY / PDB]
ModBase O14896.
Organism-specific databases
GeneCards GC01M208025; -.
H-InvDB HIX0001556; -.
HGNC HGNC:6121; IRF6.
GenAtlas IRF6.
MIM 119300; phenotype. [NCBI / EBI]
119500; phenotype. [NCBI / EBI]
607199; gene. [NCBI / EBI]
608864; phenotype. [NCBI / EBI]
Orphanet 1991; Cleft lip with or without cleft palate.
1300; Pterygium popliteal syndrome, autosomal dominant.
888; Van Der Woude syndrome.
PharmGKB PA29920; -.
Gene expression databases
ArrayExpress O14896; -.
Bgee O14896; -.
CleanEx HS_IRF6; -.
GermOnline ENSG00000117595; Homo sapiens.
Ontologies
GO
GO:0005634; Cellular component: nucleus (inferred from electronic annotation from UniProtKB-SubCell).
GO:0003700; Molecular function: transcription factor activity (inferred from electronic annotation from InterPro).
GO:0006355; Biological process: regulation of transcription, DNA-dependent (inferred from electronic annotation from UniProtKB-KW).
GO:0006350; Biological process: transcription (inferred from electronic annotation from UniProtKB-KW).
QuickGo view.
Family and domain databases
InterPro IPR019817; Interferon_regulatory_fac_CS.
IPR001346; Interferon_regulatory_factor.
IPR019471; Interferon_regulatory_factor-3.
IPR017855; SMAD_dom-like.
IPR011991; Wing_hlx_DNA_bd.
Graphical view of domain structure.
Gene3D G3DSA:2.60.200.10; MH2_Dwarfin-type; 1.
G3DSA:1.10.10.10; Wing_hlx_DNA_bd; 1.
Pfam PF00605; IRF; 1.
PF10401; IRF-3; 1.
Pfam graphical view of domain structure.
PRINTS PR00267; INTFRNREGFCT.
ProDom PD002355; IRF; 1.
[Domain structure / List of seq. sharing at least 1 domain]
SMART SM00348; IRF; 1.
SMART graphical view of domain structure.
PROSITE PS00601; IRF; 1.
Proteomic databases
PeptideAtlas O14896; -.
PRIDE O14896; -.
Genome annotation databases
Ensembl ENSG00000117595; Homo sapiens. [Contig view]
GeneID 3664; -.
KEGG hsa:3664; -.
Phylogenomic databases
HOGENOM O14896; -.
HOVERGEN O14896; -.
OMA O14896; DNDVDED.
Other
NextBio 14343; -.
SOURCE IRF6; Homo sapiens.
ProtoNet O14896.
UniRef View cluster of proteins with at least 50% / 90% / 100% identity.
Keywords
Disease mutation; DNA-binding; Nucleus; Polymorphism; Transcription; Transcription regulation.
Features
SEVIEWER logo Feature table viewer FT aligner logo Feature aligner
KeyFrom   To Length Description FTId
CHAIN   1   467  467     Interferon regulatory factor 6. PRO_0000154560
DNA_BIND   9   111  103     Tryptophan pentad repeat. 
VARIANT   2     2  1     A -> V (in VWS). VAR_014961 
VARIANT   6     6  1     R -> C (in VWS). VAR_030046 
VARIANT   16    16  1     A -> V (in VWS). VAR_030047 
VARIANT   18    18  1     V -> A (in VWS). VAR_014962 
VARIANT   18    18  1     V -> M (in VWS). VAR_014963 
VARIANT   22    22  1     L -> P (in VWS and PPS). VAR_030048 
VARIANT   39    39  1     P -> A (in VWS). VAR_014964 
VARIANT   45    45  1     R -> Q (in VWS). VAR_030049 
VARIANT   60    60  1     W -> G (in PPS). VAR_014965 
VARIANT   61    61  1     A -> G (in VWS). VAR_014966 
VARIANT   64    64  1     T -> I (in VWS). VAR_030050 
VARIANT   66    66  1     K -> T (in PPS). VAR_014967 
VARIANT   70    70  1     G -> R (in VWS). VAR_014968 
VARIANT   76    76  1     P -> S (in VWS). VAR_014969 
VARIANT   82    82  1     Q -> K (in PPS). VAR_014970 
VARIANT   84    84  1     R -> C (in PPS). VAR_014971 
VARIANT   84    84  1     R -> G (in VWS). VAR_030051 
VARIANT   84    84  1     R -> H (in PPS). VAR_014972 
VARIANT   88    88  1     N -> H (in VWS). VAR_014973 
VARIANT   89    89  1     K -> E (in PPS). VAR_014974 
VARIANT   90    90  1     S -> G (in VWS). VAR_014975 
VARIANT   98    98  1     D -> H (in VWS). VAR_014976 
VARIANT   100   100  1     T -> A (in VWS). VAR_030052 
VARIANT   250   250  1     R -> Q (in VWS). VAR_014977 
VARIANT   251   251  1     L -> P (in VWS). VAR_030053 
VARIANT   273   273  1     Q -> R (in VWS). VAR_014978 
VARIANT   274   274  1     V -> I (common polymorphism; 3% in European-descended and 22% in Asian populations; responsible for 12% of the genetic contribution to cleft lip or palate; tripled the risk of recurrence in families that already had 1 affected child; dbSNP:rs2235371 [NCBI]). VAR_014979 
VARIANT   290   296  7     FTSKLLD -> L (in VWS). VAR_014980
VARIANT   294   294  1     L -> P (in VWS). VAR_014981 
VARIANT   297   297  1     V -> I (in VWS). VAR_014982 
VARIANT   320   320  1     K -> E (in VWS). VAR_014983 
VARIANT   321   321  1     V -> M (in VWS). VAR_014984 
VARIANT   325   325  1     G -> E (in VWS). VAR_014985 
VARIANT   345   345  1     L -> P (in VWS). VAR_014986 
VARIANT   347   347  1     C -> F (in VWS). VAR_014987 
VARIANT   349   349  1     E -> V (in VWS). VAR_030054 
VARIANT   369   369  1     F -> S (in VWS). VAR_014988 
VARIANT   374   374  1     C -> W (in VWS). VAR_014989 
VARIANT   388   388  1     K -> E (in VWS). VAR_014990 
VARIANT   396   396  1     P -> S (in VWS). VAR_030055 
VARIANT   400   400  1     R -> W (in VWS). VAR_030056 
VARIANT   430   430  1     D -> N (in PPS). VAR_014991 
Sequence information
Length: 467 AA [This is the length of the unprocessed precursor] Molecular weight: 53130 Da [This is the MW of the unprocessed precursor] CRC64: 7E28F5E0F5BA4053 [This is a checksum on the sequence]
        10         20         30         40         50         60 
MALHPRRVRL KPWLVAQVDS GLYPGLIWLH RDSKRFQIPW KHATRHSPQQ EEENTIFKAW 

        70         80         90        100        110        120 
AVETGKYQEG VDDPDPAKWK AQLRCALNKS REFNLMYDGT KEVPMNPVKI YQVCDIPQPQ 

       130        140        150        160        170        180 
GSIINPGSTG SAPWDEKDND VDEEDEEDEL DQSQHHVPIQ DTFPFLNING SPMAPASVGN 

       190        200        210        220        230        240 
CSVGNCSPEA VWPKTEPLEM EVPQAPIQPF YSSPELWISS LPMTDLDIKF QYRGKEYGQT 

       250        260        270        280        290        300 
MTVSNPQGCR LFYGDLGPMP DQEELFGPVS LEQVKFPGPE HITNEKQKLF TSKLLDVMDR 

       310        320        330        340        350        360 
GLILEVSGHA IYAIRLCQCK VYWSGPCAPS LVAPNLIERQ KKVKLFCLET FLSDLIAHQK 

       370        380        390        400        410        420 
GQIEKQPPFE IYLCFGEEWP DGKPLERKLI LVQVIPVVAR MIYEMFSGDF TRSFDSGSVR 

       430        440        450        460 
LQISTPDIKD NIVAQLKQLY RILQTQESWQ PMQPTPSMQL PPALPPQ 

O14896 in FASTA format

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