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O15226

- NKRF_HUMAN

UniProt

O15226 - NKRF_HUMAN

Protein

NF-kappa-B-repressing factor

Gene

NKRF

Organism
Homo sapiens (Human)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 144 (01 Oct 2014)
      Sequence version 2 (15 Aug 2003)
      Previous versions | rss
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    Functioni

    Interacts with a specific negative regulatory element (NRE) 5'-AATTCCTCTGA-3' to mediate transcriptional repression of certain NK-kappa-B responsive genes. Involved in the constitutive silencing of the interferon beta promoter, independently of the virus-induced signals, and in the inhibition of the basal and cytokine-induced iNOS promoter activity. Also involved in the regulation of IL-8 transcription.1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi296 – 38893Add
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. poly(A) RNA binding Source: UniProtKB
    3. protein binding Source: IntAct

    GO - Biological processi

    1. negative regulation of transcription, DNA-templated Source: UniProtKB
    2. transcription, DNA-templated Source: UniProtKB-KW

    Keywords - Molecular functioni

    Repressor

    Keywords - Biological processi

    Transcription, Transcription regulation

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    NF-kappa-B-repressing factor
    Short name:
    NFkB-repressing factor
    Alternative name(s):
    Protein ITBA4
    Transcription factor NRF
    Gene namesi
    Name:NKRF
    Synonyms:ITBA4, NRF
    OrganismiHomo sapiens (Human)
    Taxonomic identifieri9606 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
    ProteomesiUP000005640: Chromosome X

    Organism-specific databases

    HGNCiHGNC:19374. NKRF.

    Subcellular locationi

    Nucleusnucleolus 1 Publication

    GO - Cellular componenti

    1. nucleolus Source: UniProtKB-SubCell
    2. nucleus Source: UniProtKB

    Keywords - Cellular componenti

    Nucleus

    Pathology & Biotechi

    Organism-specific databases

    PharmGKBiPA134990602.

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 690690NF-kappa-B-repressing factorPRO_0000096869Add
    BLAST

    Proteomic databases

    MaxQBiO15226.
    PaxDbiO15226.
    PeptideAtlasiO15226.
    PRIDEiO15226.

    2D gel databases

    SWISS-2DPAGEO15226.

    PTM databases

    PhosphoSiteiO15226.

    Expressioni

    Tissue specificityi

    Widely and constitutively expressed. Expressed at lower level in colon, peripheral blood lymphocytes, lung and kidney.

    Gene expression databases

    ArrayExpressiO15226.
    BgeeiO15226.
    CleanExiHS_NKRF.
    GenevestigatoriO15226.

    Interactioni

    Subunit structurei

    Interacts with NF-kappa-B.

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    DHX58Q96C102EBI-766011,EBI-744193

    Protein-protein interaction databases

    BioGridi121002. 22 interactions.
    DIPiDIP-34570N.
    IntActiO15226. 9 interactions.
    MINTiMINT-4728497.
    STRINGi9606.ENSP00000304803.

    Structurei

    3D structure databases

    ProteinModelPortaliO15226.
    SMRiO15226. Positions 348-411, 446-518, 604-663.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini551 – 59646G-patchPROSITE-ProRule annotationAdd
    BLAST
    Domaini600 – 66465R3HPROSITE-ProRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni1 – 296296Active repression domainAdd
    BLAST

    Motif

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Motifi25 – 4521Nuclear localization signalAdd
    BLAST

    Sequence similaritiesi

    Contains 1 G-patch domain.PROSITE-ProRule annotation
    Contains 1 R3H domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiNOG123689.
    HOGENOMiHOG000230930.
    HOVERGENiHBG052630.
    InParanoidiO15226.
    OMAiWRYSHES.
    OrthoDBiEOG7XWPN1.
    PhylomeDBiO15226.
    TreeFamiTF326321.

    Family and domain databases

    Gene3Di3.30.1370.50. 1 hit.
    3.30.160.20. 1 hit.
    InterProiIPR014720. dsRNA-bd_dom.
    IPR000467. G_patch_dom.
    IPR001374. R3H_ss-bd.
    [Graphical view]
    PfamiPF01585. G-patch. 1 hit.
    PF01424. R3H. 1 hit.
    [Graphical view]
    SMARTiSM00358. DSRM. 2 hits.
    SM00443. G_patch. 1 hit.
    SM00393. R3H. 1 hit.
    [Graphical view]
    SUPFAMiSSF82708. SSF82708. 1 hit.
    PROSITEiPS50174. G_PATCH. 1 hit.
    PS51061. R3H. 1 hit.
    [Graphical view]

    Sequences (2)i

    Sequence statusi: Complete.

    This entry describes 2 isoformsi produced by alternative splicing. Align

    Isoform 1 (identifier: O15226-1) [UniParc]FASTAAdd to Basket

    This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

    « Hide

    MEKILQMAEG IDIGEMPSYD LVLSKPSKGQ KRHLSTCDGQ NPPKKQAGSK    50
    FHARPRFEPV HFVASSSKDE RQEDPYGPQT KEVNEQTHFA SMPRDIYQDY 100
    TQDSFSIQDG NSQYCDSSGF ILTKDQPVTA NMYFDSGNPA PSTTSQQANS 150
    QSTPEPSPSQ TFPESVVAEK QYFIEKLTAT IWKNLSNPEM TSGSDKINYT 200
    YMLTRCIQAC KTNPEYIYAP LKEIPPADIP KNKKLLTDGY ACEVRCQNIY 250
    LTTGYAGSKN GSRDRATELA VKLLQKRIEV RVVRRKFKHT FGEDLVVCQI 300
    GMSSYEFPPA LKPPEDLVVL GKDASGQPIF NASAKHWTNF VITENANDAI 350
    GILNNSASFN KMSIEYKYEM MPNRTWRCRV FLQDHCLAEG YGTKKTSKHA 400
    AADEALKILQ KTQPTYPSVK SSQCHTGSSP RGSGKKKDIK DLVVYENSSN 450
    PVCTLNDTAQ FNRMTVEYVY ERMTGLRWKC KVILESEVIA EAVGVKKTVK 500
    YEAAGEAVKT LKKTQPTVIN NLKKGAVEDV ISRNEIQGRS AEEAYKQQIK 550
    EDNIGNQLLR KMGWTGGGLG KSGEGIREPI SVKEQHKREG LGLDVERVNK 600
    IAKRDIEQII RNYARSESHT DLTFSRELTN DERKQIHQIA QKYGLKSKSH 650
    GVGHDRYLVV GRKRRKEDLL DQLKQEGQVG HYELVMPQAN 690
    Length:690
    Mass (Da):77,673
    Last modified:August 15, 2003 - v2
    Checksum:i3067A52671A7AE8F
    GO
    Isoform 2 (identifier: O15226-2) [UniParc]FASTAAdd to Basket

    The sequence of this isoform differs from the canonical sequence as follows:
         1-1: M → MGFMLPLIFRYSPRLM

    Note: No experimental confirmation available.

    Show »
    Length:705
    Mass (Da):79,496
    Checksum:i48B245E4929BD14B
    GO

    Sequence cautioni

    The sequence AL539002 differs from that shown. Reason: Probable cloning artifact.
    The sequence CAB56459.1 differs from that shown. Reason: Frameshift at positions 378, 405, 410, 441, 502, 516, 588, 599, 601 and 681.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti71 – 711R → G in CAB56459. (PubMed:10562553)Curated
    Sequence conflicti453 – 4531C → G in CAA68976. (PubMed:9224902)Curated
    Sequence conflicti614 – 6152AR → ES in CAB56459. (PubMed:10562553)Curated

    Alternative sequence

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Alternative sequencei1 – 11M → MGFMLPLIFRYSPRLM in isoform 2. 1 PublicationVSP_047377

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ011812 mRNA. Translation: CAB56459.1. Frameshift.
    AY208891 mRNA. Translation: AAP43025.1.
    AC004913 Genomic DNA. No translation available.
    CH471161 Genomic DNA. Translation: EAW89859.1.
    BC040379 mRNA. Translation: AAH40379.1.
    BC047878 mRNA. Translation: AAH47878.1.
    AL539002 mRNA. No translation available.
    Y07707 mRNA. Translation: CAA68976.1.
    CCDSiCCDS35375.1. [O15226-1]
    CCDS55486.1. [O15226-2]
    RefSeqiNP_001166958.1. NM_001173487.1. [O15226-2]
    NP_001166959.1. NM_001173488.1. [O15226-1]
    NP_060014.2. NM_017544.3. [O15226-1]
    XP_005262500.1. XM_005262443.2. [O15226-2]
    UniGeneiHs.437084.

    Genome annotation databases

    EnsembliENST00000304449; ENSP00000304803; ENSG00000186416. [O15226-1]
    ENST00000371527; ENSP00000360582; ENSG00000186416. [O15226-1]
    ENST00000542113; ENSP00000442308; ENSG00000186416. [O15226-2]
    GeneIDi55922.
    KEGGihsa:55922.
    UCSCiuc004erq.3. human. [O15226-1]
    uc022cdk.1. human.

    Keywords - Coding sequence diversityi

    Alternative splicing

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ011812 mRNA. Translation: CAB56459.1 . Frameshift.
    AY208891 mRNA. Translation: AAP43025.1 .
    AC004913 Genomic DNA. No translation available.
    CH471161 Genomic DNA. Translation: EAW89859.1 .
    BC040379 mRNA. Translation: AAH40379.1 .
    BC047878 mRNA. Translation: AAH47878.1 .
    AL539002 mRNA. No translation available.
    Y07707 mRNA. Translation: CAA68976.1 .
    CCDSi CCDS35375.1. [O15226-1 ]
    CCDS55486.1. [O15226-2 ]
    RefSeqi NP_001166958.1. NM_001173487.1. [O15226-2 ]
    NP_001166959.1. NM_001173488.1. [O15226-1 ]
    NP_060014.2. NM_017544.3. [O15226-1 ]
    XP_005262500.1. XM_005262443.2. [O15226-2 ]
    UniGenei Hs.437084.

    3D structure databases

    ProteinModelPortali O15226.
    SMRi O15226. Positions 348-411, 446-518, 604-663.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 121002. 22 interactions.
    DIPi DIP-34570N.
    IntActi O15226. 9 interactions.
    MINTi MINT-4728497.
    STRINGi 9606.ENSP00000304803.

    Chemistry

    ChEMBLi CHEMBL3163.

    PTM databases

    PhosphoSitei O15226.

    2D gel databases

    SWISS-2DPAGE O15226.

    Proteomic databases

    MaxQBi O15226.
    PaxDbi O15226.
    PeptideAtlasi O15226.
    PRIDEi O15226.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENST00000304449 ; ENSP00000304803 ; ENSG00000186416 . [O15226-1 ]
    ENST00000371527 ; ENSP00000360582 ; ENSG00000186416 . [O15226-1 ]
    ENST00000542113 ; ENSP00000442308 ; ENSG00000186416 . [O15226-2 ]
    GeneIDi 55922.
    KEGGi hsa:55922.
    UCSCi uc004erq.3. human. [O15226-1 ]
    uc022cdk.1. human.

    Organism-specific databases

    CTDi 55922.
    GeneCardsi GC0XM118722.
    HGNCi HGNC:19374. NKRF.
    MIMi 300440. gene.
    neXtProti NX_O15226.
    PharmGKBi PA134990602.
    GenAtlasi Search...

    Phylogenomic databases

    eggNOGi NOG123689.
    HOGENOMi HOG000230930.
    HOVERGENi HBG052630.
    InParanoidi O15226.
    OMAi WRYSHES.
    OrthoDBi EOG7XWPN1.
    PhylomeDBi O15226.
    TreeFami TF326321.

    Miscellaneous databases

    GeneWikii NKRF_(gene).
    GenomeRNAii 55922.
    NextBioi 61327.
    PROi O15226.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi O15226.
    Bgeei O15226.
    CleanExi HS_NKRF.
    Genevestigatori O15226.

    Family and domain databases

    Gene3Di 3.30.1370.50. 1 hit.
    3.30.160.20. 1 hit.
    InterProi IPR014720. dsRNA-bd_dom.
    IPR000467. G_patch_dom.
    IPR001374. R3H_ss-bd.
    [Graphical view ]
    Pfami PF01585. G-patch. 1 hit.
    PF01424. R3H. 1 hit.
    [Graphical view ]
    SMARTi SM00358. DSRM. 2 hits.
    SM00443. G_patch. 1 hit.
    SM00393. R3H. 1 hit.
    [Graphical view ]
    SUPFAMi SSF82708. SSF82708. 1 hit.
    PROSITEi PS50174. G_PATCH. 1 hit.
    PS51061. R3H. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Constitutive silencing of IFN-beta promoter is mediated by NRF (NF-kB-repressing factor), a nuclear inhibitor of NF-kB."
      Nourbakhsh M., Hauser H.
      EMBO J. 18:6415-6425(1999) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
      Tissue: Cervix carcinoma.
    2. "Cloning and identification of human transcription factor NRF complete cDNA."
      Mao Y., Xie Y., Dai J.
      Submitted (DEC-2002) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] (ISOFORM 1).
    3. "The DNA sequence of the human X chromosome."
      Ross M.T., Grafham D.V., Coffey A.J., Scherer S., McLay K., Muzny D., Platzer M., Howell G.R., Burrows C., Bird C.P., Frankish A., Lovell F.L., Howe K.L., Ashurst J.L., Fulton R.S., Sudbrak R., Wen G., Jones M.C.
      , Hurles M.E., Andrews T.D., Scott C.E., Searle S., Ramser J., Whittaker A., Deadman R., Carter N.P., Hunt S.E., Chen R., Cree A., Gunaratne P., Havlak P., Hodgson A., Metzker M.L., Richards S., Scott G., Steffen D., Sodergren E., Wheeler D.A., Worley K.C., Ainscough R., Ambrose K.D., Ansari-Lari M.A., Aradhya S., Ashwell R.I., Babbage A.K., Bagguley C.L., Ballabio A., Banerjee R., Barker G.E., Barlow K.F., Barrett I.P., Bates K.N., Beare D.M., Beasley H., Beasley O., Beck A., Bethel G., Blechschmidt K., Brady N., Bray-Allen S., Bridgeman A.M., Brown A.J., Brown M.J., Bonnin D., Bruford E.A., Buhay C., Burch P., Burford D., Burgess J., Burrill W., Burton J., Bye J.M., Carder C., Carrel L., Chako J., Chapman J.C., Chavez D., Chen E., Chen G., Chen Y., Chen Z., Chinault C., Ciccodicola A., Clark S.Y., Clarke G., Clee C.M., Clegg S., Clerc-Blankenburg K., Clifford K., Cobley V., Cole C.G., Conquer J.S., Corby N., Connor R.E., David R., Davies J., Davis C., Davis J., Delgado O., Deshazo D., Dhami P., Ding Y., Dinh H., Dodsworth S., Draper H., Dugan-Rocha S., Dunham A., Dunn M., Durbin K.J., Dutta I., Eades T., Ellwood M., Emery-Cohen A., Errington H., Evans K.L., Faulkner L., Francis F., Frankland J., Fraser A.E., Galgoczy P., Gilbert J., Gill R., Gloeckner G., Gregory S.G., Gribble S., Griffiths C., Grocock R., Gu Y., Gwilliam R., Hamilton C., Hart E.A., Hawes A., Heath P.D., Heitmann K., Hennig S., Hernandez J., Hinzmann B., Ho S., Hoffs M., Howden P.J., Huckle E.J., Hume J., Hunt P.J., Hunt A.R., Isherwood J., Jacob L., Johnson D., Jones S., de Jong P.J., Joseph S.S., Keenan S., Kelly S., Kershaw J.K., Khan Z., Kioschis P., Klages S., Knights A.J., Kosiura A., Kovar-Smith C., Laird G.K., Langford C., Lawlor S., Leversha M., Lewis L., Liu W., Lloyd C., Lloyd D.M., Loulseged H., Loveland J.E., Lovell J.D., Lozado R., Lu J., Lyne R., Ma J., Maheshwari M., Matthews L.H., McDowall J., McLaren S., McMurray A., Meidl P., Meitinger T., Milne S., Miner G., Mistry S.L., Morgan M., Morris S., Mueller I., Mullikin J.C., Nguyen N., Nordsiek G., Nyakatura G., O'dell C.N., Okwuonu G., Palmer S., Pandian R., Parker D., Parrish J., Pasternak S., Patel D., Pearce A.V., Pearson D.M., Pelan S.E., Perez L., Porter K.M., Ramsey Y., Reichwald K., Rhodes S., Ridler K.A., Schlessinger D., Schueler M.G., Sehra H.K., Shaw-Smith C., Shen H., Sheridan E.M., Shownkeen R., Skuce C.D., Smith M.L., Sotheran E.C., Steingruber H.E., Steward C.A., Storey R., Swann R.M., Swarbreck D., Tabor P.E., Taudien S., Taylor T., Teague B., Thomas K., Thorpe A., Timms K., Tracey A., Trevanion S., Tromans A.C., d'Urso M., Verduzco D., Villasana D., Waldron L., Wall M., Wang Q., Warren J., Warry G.L., Wei X., West A., Whitehead S.L., Whiteley M.N., Wilkinson J.E., Willey D.L., Williams G., Williams L., Williamson A., Williamson H., Wilming L., Woodmansey R.L., Wray P.W., Yen J., Zhang J., Zhou J., Zoghbi H., Zorilla S., Buck D., Reinhardt R., Poustka A., Rosenthal A., Lehrach H., Meindl A., Minx P.J., Hillier L.W., Willard H.F., Wilson R.K., Waterston R.H., Rice C.M., Vaudin M., Coulson A., Nelson D.L., Weinstock G., Sulston J.E., Durbin R.M., Hubbard T., Gibbs R.A., Beck S., Rogers J., Bentley D.R.
      Nature 434:325-337(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    4. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    5. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
      The MGC Project Team
      Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 1).
      Tissue: Pancreas and Skin.
    6. "Full-length cDNA libraries and normalization."
      Li W.B., Gruber C., Jessee J., Polayes D.
      Submitted (APR-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 1-258 (ISOFORM 2).
      Tissue: Fetal brain.
    7. "Identification of a new member (ZNF183) of the Ring finger gene family in Xq24-25."
      Frattini A., Faranda S., Bagnasco L., Patrosso C., Nulli P., Zucchi I., Vezzoni P.
      Gene 192:291-298(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA] OF 453-690 (ISOFORM 1/2).
      Tissue: Brain.
    8. "Identification of a negative response element in the human inducible nitric-oxide synthase (hiNOS) promoter: the role of NF-kappa B-repressing factor (NRF) in basal repression of the hiNOS gene."
      Feng X., Guo Z., Nourbakhsh M., Hauser H., Ganster R., Shao L., Geller D.A.
      Proc. Natl. Acad. Sci. U.S.A. 99:14212-14217(2002) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION.
    9. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
      Tissue: Cervix carcinoma.
    10. Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].

    Entry informationi

    Entry nameiNKRF_HUMAN
    AccessioniPrimary (citable) accession number: O15226
    Secondary accession number(s): G3V1N1, Q4VC41, Q9UJ91
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: July 15, 1998
    Last sequence update: August 15, 2003
    Last modified: October 1, 2014
    This is version 144 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program
    DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Human chromosome X
      Human chromosome X: entries, gene names and cross-references to MIM
    2. MIM cross-references
      Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
    3. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3