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P63158

- HMGB1_MOUSE

UniProt

P63158 - HMGB1_MOUSE

Protein

High mobility group protein B1

Gene

Hmgb1

Organism
Mus musculus (Mouse)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 106 (01 Oct 2014)
      Sequence version 2 (23 Jan 2007)
      Previous versions | rss
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    Functioni

    DNA binding proteins that associates with chromatin and has the ability to bend DNA. Binds preferentially single-stranded DNA. Involved in V(D)J recombination by acting as a cofactor of the RAG complex. Acts by stimulating cleavage and RAG protein binding at the 23 bp spacer of conserved recombination signal sequences (RSS). Heparin-binding protein that has a role in the extension of neurite-type cytoplasmic processes in developing cells.1 Publication

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    DNA bindingi9 – 7971HMG box 1PROSITE-ProRule annotationAdd
    BLAST
    DNA bindingi95 – 16369HMG box 2PROSITE-ProRule annotationAdd
    BLAST

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. heparin binding Source: UniProtKB-KW
    3. phosphatidylserine binding Source: BHF-UCL
    4. protein binding Source: IntAct
    5. sequence-specific DNA binding transcription factor activity Source: Ensembl

    GO - Biological processi

    1. base-excision repair, DNA ligation Source: Ensembl
    2. inflammatory response Source: BHF-UCL
    3. inflammatory response to antigenic stimulus Source: Ensembl
    4. negative regulation of apoptotic cell clearance Source: BHF-UCL
    5. negative regulation of RNA polymerase II transcriptional preinitiation complex assembly Source: Ensembl
    6. positive regulation of apoptotic process Source: Ensembl
    7. positive regulation of cysteine-type endopeptidase activity involved in apoptotic process Source: Ensembl
    8. positive regulation of DNA binding Source: Ensembl
    9. positive regulation of transcription from RNA polymerase II promoter Source: Ensembl
    10. V(D)J recombination Source: Ensembl

    Keywords - Ligandi

    DNA-binding, Heparin-binding

    Enzyme and pathway databases

    ReactomeiREACT_198647. Advanced glycosylation endproduct receptor signaling.
    REACT_202898. TRAF6 mediated NF-kB activation.
    REACT_205002. Activation of DNA fragmentation factor.
    REACT_219800. TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
    REACT_222971. RIP-mediated NFkB activation via ZBP1.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    High mobility group protein B1
    Alternative name(s):
    High mobility group protein 1
    Short name:
    HMG-1
    Gene namesi
    Name:Hmgb1
    Synonyms:Hmg-1, Hmg1
    OrganismiMus musculus (Mouse)
    Taxonomic identifieri10090 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
    ProteomesiUP000000589: Chromosome 5

    Organism-specific databases

    MGIiMGI:96113. Hmgb1.

    Subcellular locationi

    Nucleus. Cytoplasm. Chromosome
    Note: Associated with the plasma membrane of filipodia in process-growing cells, and also deposited into the substrate-attached material.

    GO - Cellular componenti

    1. cell surface Source: Ensembl
    2. condensed chromosome Source: Ensembl
    3. cytoplasm Source: UniProtKB-SubCell
    4. extracellular region Source: BHF-UCL
    5. extracellular space Source: Ensembl
    6. nucleus Source: UniProtKB-SubCell
    7. transcriptional repressor complex Source: Ensembl

    Keywords - Cellular componenti

    Chromosome, Cytoplasm, Nucleus

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Initiator methioninei1 – 11RemovedBy similarity
    Chaini2 – 215214High mobility group protein B1PRO_0000048528Add
    BLAST

    Amino acid modifications

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Modified residuei30 – 301N6-acetyllysine1 Publication
    Modified residuei35 – 351PhosphoserineBy similarity
    Modified residuei43 – 431N6-acetyllysine1 Publication
    Modified residuei90 – 901N6-acetyllysine1 Publication
    Modified residuei100 – 1001PhosphoserineBy similarity
    Cross-linki112 – 112Glycyl lysine isopeptide (Lys-Gly) (interchain with G-Cter in ubiquitin)By similarity
    Modified residuei141 – 1411N6-acetyllysine1 Publication

    Keywords - PTMi

    Acetylation, Isopeptide bond, Phosphoprotein, Ubl conjugation

    Proteomic databases

    MaxQBiP63158.
    PaxDbiP63158.
    PRIDEiP63158.

    PTM databases

    PhosphoSiteiP63158.

    Expressioni

    Gene expression databases

    ArrayExpressiP63158.
    BgeeiP63158.
    CleanExiMM_HMGB1.
    GenevestigatoriP63158.

    Interactioni

    Subunit structurei

    Component of the RAG complex composed of core components RAG1 and RAG2, and associated component HMGB1 or HMGB2.1 Publication

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    Havcr2Q8VIM04EBI-6665811,EBI-6665112
    POU5F1Q018603EBI-6665811,EBI-475687From a different organism.

    Protein-protein interaction databases

    BioGridi200322. 1 interaction.
    IntActiP63158. 7 interactions.
    MINTiMINT-225214.

    Structurei

    3D structure databases

    DisProtiDP00384.
    ProteinModelPortaliP63158.
    SMRiP63158. Positions 5-166.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi186 – 21530Asp/Glu-rich (acidic)Add
    BLAST

    Sequence similaritiesi

    Belongs to the HMGB family.Curated
    Contains 2 HMG box DNA-binding domains.PROSITE-ProRule annotation

    Keywords - Domaini

    Repeat

    Phylogenomic databases

    eggNOGiCOG5648.
    HOGENOMiHOG000197861.
    HOVERGENiHBG009000.
    InParanoidiP63158.
    KOiK10802.
    OMAiDMGKPPV.
    OrthoDBiEOG7WHHBQ.
    PhylomeDBiP63158.
    TreeFamiTF105371.

    Family and domain databases

    Gene3Di1.10.30.10. 2 hits.
    InterProiIPR009071. HMG_box_dom.
    IPR017967. HMG_boxA_CS.
    [Graphical view]
    PfamiPF00505. HMG_box. 1 hit.
    PF09011. HMG_box_2. 1 hit.
    [Graphical view]
    SMARTiSM00398. HMG. 2 hits.
    [Graphical view]
    SUPFAMiSSF47095. SSF47095. 2 hits.
    PROSITEiPS00353. HMG_BOX_1. 1 hit.
    PS50118. HMG_BOX_2. 2 hits.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    P63158-1 [UniParc]FASTAAdd to Basket

    « Hide

    MGKGDPKKPR GKMSSYAFFV QTCREEHKKK HPDASVNFSE FSKKCSERWK    50
    TMSAKEKGKF EDMAKADKAR YEREMKTYIP PKGETKKKFK DPNAPKRPPS 100
    AFFLFCSEYR PKIKGEHPGL SIGDVAKKLG EMWNNTAADD KQPYEKKAAK 150
    LKEKYEKDIA AYRAKGKPDA AKKGVVKAEK SKKKKEEEDD EEDEEDEEEE 200
    EEEEDEDEEE DDDDE 215
    Length:215
    Mass (Da):24,894
    Last modified:January 23, 2007 - v2
    Checksum:i8A868DE266D552B5
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti179 – 1791E → V in AAA57042. (PubMed:9047378)Curated
    Sequence conflicti190 – 1901D → E in CAA56631. (PubMed:7961836)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z11997 mRNA. Translation: CAA78042.1.
    X80457 Genomic DNA. Translation: CAA56631.1.
    U00431 mRNA. Translation: AAA20508.1.
    L38477 mRNA. Translation: AAA57042.1.
    BC006586 mRNA. Translation: AAH06586.1.
    BC008565 mRNA. Translation: AAH08565.1.
    BC083067 mRNA. Translation: AAH83067.1.
    BC085090 mRNA. Translation: AAH85090.1.
    CCDSiCCDS19883.1.
    PIRiI48688.
    RefSeqiNP_034569.1. NM_010439.3.
    XP_003945388.1. XM_003945339.2.
    XP_006504870.1. XM_006504807.1.
    UniGeneiMm.207047.
    Mm.313345.

    Genome annotation databases

    EnsembliENSMUST00000085546; ENSMUSP00000082682; ENSMUSG00000066551.
    ENSMUST00000093196; ENSMUSP00000106131; ENSMUSG00000066551.
    ENSMUST00000110505; ENSMUSP00000106132; ENSMUSG00000066551.
    GeneIDi100862258.
    15289.
    KEGGimmu:100862258.
    mmu:15289.
    UCSCiuc009apb.2. mouse.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    Z11997 mRNA. Translation: CAA78042.1 .
    X80457 Genomic DNA. Translation: CAA56631.1 .
    U00431 mRNA. Translation: AAA20508.1 .
    L38477 mRNA. Translation: AAA57042.1 .
    BC006586 mRNA. Translation: AAH06586.1 .
    BC008565 mRNA. Translation: AAH08565.1 .
    BC083067 mRNA. Translation: AAH83067.1 .
    BC085090 mRNA. Translation: AAH85090.1 .
    CCDSi CCDS19883.1.
    PIRi I48688.
    RefSeqi NP_034569.1. NM_010439.3.
    XP_003945388.1. XM_003945339.2.
    XP_006504870.1. XM_006504807.1.
    UniGenei Mm.207047.
    Mm.313345.

    3D structure databases

    DisProti DP00384.
    ProteinModelPortali P63158.
    SMRi P63158. Positions 5-166.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 200322. 1 interaction.
    IntActi P63158. 7 interactions.
    MINTi MINT-225214.

    Chemistry

    ChEMBLi CHEMBL2311237.

    PTM databases

    PhosphoSitei P63158.

    Proteomic databases

    MaxQBi P63158.
    PaxDbi P63158.
    PRIDEi P63158.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSMUST00000085546 ; ENSMUSP00000082682 ; ENSMUSG00000066551 .
    ENSMUST00000093196 ; ENSMUSP00000106131 ; ENSMUSG00000066551 .
    ENSMUST00000110505 ; ENSMUSP00000106132 ; ENSMUSG00000066551 .
    GeneIDi 100862258.
    15289.
    KEGGi mmu:100862258.
    mmu:15289.
    UCSCi uc009apb.2. mouse.

    Organism-specific databases

    CTDi 3146.
    MGIi MGI:96113. Hmgb1.

    Phylogenomic databases

    eggNOGi COG5648.
    HOGENOMi HOG000197861.
    HOVERGENi HBG009000.
    InParanoidi P63158.
    KOi K10802.
    OMAi DMGKPPV.
    OrthoDBi EOG7WHHBQ.
    PhylomeDBi P63158.
    TreeFami TF105371.

    Enzyme and pathway databases

    Reactomei REACT_198647. Advanced glycosylation endproduct receptor signaling.
    REACT_202898. TRAF6 mediated NF-kB activation.
    REACT_205002. Activation of DNA fragmentation factor.
    REACT_219800. TAK1 activates NFkB by phosphorylation and activation of IKKs complex.
    REACT_222971. RIP-mediated NFkB activation via ZBP1.

    Miscellaneous databases

    NextBioi 287931.
    PROi P63158.
    SOURCEi Search...

    Gene expression databases

    ArrayExpressi P63158.
    Bgeei P63158.
    CleanExi MM_HMGB1.
    Genevestigatori P63158.

    Family and domain databases

    Gene3Di 1.10.30.10. 2 hits.
    InterProi IPR009071. HMG_box_dom.
    IPR017967. HMG_boxA_CS.
    [Graphical view ]
    Pfami PF00505. HMG_box. 1 hit.
    PF09011. HMG_box_2. 1 hit.
    [Graphical view ]
    SMARTi SM00398. HMG. 2 hits.
    [Graphical view ]
    SUPFAMi SSF47095. SSF47095. 2 hits.
    PROSITEi PS00353. HMG_BOX_1. 1 hit.
    PS50118. HMG_BOX_2. 2 hits.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Nucleotide sequence of a mouse cDNA encoding the nonhistone chromosomal high mobility group protein-1 (HMG1)."
      Yotov W.V., St Arnaud R.
      Nucleic Acids Res. 20:3516-3516(1992) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: C3H/He.
    2. "The mouse gene coding for high mobility group 1 protein (HMG1)."
      Ferrari S., Ronfani L., Calogero S., Bianchi M.
      J. Biol. Chem. 269:28803-28808(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 129/Sv.
      Tissue: Liver.
    3. "Molecular cloning, expression analysis, and chromosomal localization of mouse Hmg1-containing sequences."
      Pauken C.M., Nagle D.L., Bucan M., Lo C.W.
      Mamm. Genome 5:91-99(1994) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    4. "The conserved lymphokine element-0 in the IL5 promoter binds to a high mobility group-1 protein."
      Marrugo J., Marsh D.G., Ghosh B.
      Mol. Immunol. 33:1119-1125(1996) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].
      Strain: AKR/J.
    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].
    6. Lubec G., Kang S.U.
      Submitted (APR-2007) to UniProtKB
      Cited for: PROTEIN SEQUENCE OF 31-43 AND 113-127, IDENTIFICATION BY MASS SPECTROMETRY.
      Strain: C57BL/6.
      Tissue: Brain.
    7. "Stimulation of V(D)J cleavage by high mobility group proteins."
      van Gent D.C., Hiom K., Paull T.T., Gellert M.
      EMBO J. 16:2665-2670(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: FUNCTION, IDENTIFICATION IN THE RAG COMPLEX.
    8. "SIRT5-mediated lysine desuccinylation impacts diverse metabolic pathways."
      Park J., Chen Y., Tishkoff D.X., Peng C., Tan M., Dai L., Xie Z., Zhang Y., Zwaans B.M., Skinner M.E., Lombard D.B., Zhao Y.
      Mol. Cell 50:919-930(2013) [PubMed] [Europe PMC] [Abstract]
      Cited for: ACETYLATION [LARGE SCALE ANALYSIS] AT LYS-30; LYS-43; LYS-90 AND LYS-141, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
      Tissue: Embryonic fibroblast.

    Entry informationi

    Entry nameiHMGB1_MOUSE
    AccessioniPrimary (citable) accession number: P63158
    Secondary accession number(s): P07155, P27109, P27428
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: April 1, 1988
    Last sequence update: January 23, 2007
    Last modified: October 1, 2014
    This is version 106 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. MGD cross-references
      Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3