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Q4L8B8

- TOP3_STAHJ

UniProt

Q4L8B8 - TOP3_STAHJ

Protein

DNA topoisomerase 3

Gene

topB

Organism
Staphylococcus haemolyticus (strain JCSC1435)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 66 (01 Oct 2014)
      Sequence version 1 (02 Aug 2005)
      Previous versions | rss
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    Functioni

    Releases the supercoiling and torsional tension of DNA, which is introduced during the DNA replication and transcription, by transiently cleaving and rejoining one strand of the DNA duplex. Introduces a single-strand break via transesterification at a target site in duplex DNA. The scissile phosphodiester is attacked by the catalytic tyrosine of the enzyme, resulting in the formation of a DNA-(5'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 3'-OH DNA strand. The free DNA strand then undergoes passage around the unbroken strand, thus removing DNA supercoils. Finally, in the religation step, the DNA 3'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone.UniRule annotation

    Catalytic activityi

    ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.UniRule annotation

    Cofactori

    Magnesium.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi8 – 81Magnesium; catalyticUniRule annotation
    Sitei60 – 601Interaction with DNAUniRule annotation
    Metal bindingi104 – 1041Magnesium; catalyticUniRule annotation
    Sitei167 – 1671Interaction with DNAUniRule annotation
    Sitei175 – 1751Interaction with DNAUniRule annotation
    Active sitei305 – 3051O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei307 – 3071Interaction with DNAUniRule annotation

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
    3. magnesium ion binding Source: UniProtKB-HAMAP

    GO - Biological processi

    1. DNA topological change Source: UniProtKB-HAMAP

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding, Magnesium, Metal-binding

    Enzyme and pathway databases

    BioCyciSHAE279808:GJX7-800-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 3UniRule annotation (EC:5.99.1.2UniRule annotation)
    Alternative name(s):
    DNA topoisomerase IIIUniRule annotation
    Gene namesi
    Name:topBUniRule annotation
    Ordered Locus Names:SH0798
    OrganismiStaphylococcus haemolyticus (strain JCSC1435)
    Taxonomic identifieri279808 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcus
    ProteomesiUP000000543: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 711711DNA topoisomerase 3PRO_0000286378Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi279808.SH0798.

    Structurei

    3D structure databases

    ProteinModelPortaliQ4L8B8.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 135134ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni186 – 1916Interaction with DNAUniRule annotation

    Sequence similaritiesi

    Belongs to the type IA topoisomerase family.UniRule annotation
    Contains 1 Toprim domain.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG0551.
    HOGENOMiHOG000086847.
    KOiK03169.
    OMAiTKHDEYF.
    OrthoDBiEOG60CWM6.

    Family and domain databases

    Gene3Di1.10.460.10. 2 hits.
    2.70.20.10. 3 hits.
    3.40.50.140. 1 hit.
    HAMAPiMF_00953. Topoisom_3_prok.
    InterProiIPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013825. Topo_IA_cen_sub2.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR005738. TopoIII.
    IPR006171. Toprim_domain.
    [Graphical view]
    PANTHERiPTHR11390. PTHR11390. 1 hit.
    PfamiPF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view]
    PRINTSiPR00417. PRTPISMRASEI.
    SMARTiSM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF56712. SSF56712. 1 hit.
    TIGRFAMsiTIGR01056. topB. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q4L8B8-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKSLILAEKP SVARDIAEAM NIKGKRNGYI ENEKYVVTWA LGHLVTNAQP    50
    EHYDKAYKEW KLEDLPIIPK RMQTVVIGKT SKQFKTVKSL ILDKKVKEVI 100
    IATDAGREGE LVARLILDKV HNKKPIKRLW ISSVTKKAIQ EGFKKLKDGR 150
    EFQHLYEAAL ARSEADWIVG INATRALTTK YDAQLSLGRV QTPTIQLVNA 200
    RQQEINHFKA KKYYTLSTEI GGLTFQLSTN KQHMTMEDAT QIANEIKHVE 250
    GNVDSVEKKV KKSHPKPLYN LTDLQQEAYQ RYKMGPKETL NTIQNLYERH 300
    KVLTYPRTDS NYLTDDMVDT IKERLYALLA TDYKSQVKSL LGQSYSSKMR 350
    IFKNHKVSDH HAIIPTEVRP DMQSLSNRES KIYMMVAERF LESLMAPHEY 400
    EAVRVNVTVG QHIFAFNEKV TRQLGYKALK MNNDNVVKKV AFQKGEKYHL 450
    QSLKVNEHET TPPDYFNEGS LLKAMENPQN YIQLKEKKHA NTLRQTGGIG 500
    TVATRADIIE KLFNLNAIES RDGKIKVTSK GKQILDLAPQ ELTSPLLTAE 550
    WEEKLLLIEK GRYNSRHFID EMKAFTQSIV NTIKNSEQKY KHDNLTTTEC 600
    PTCGKFMIKV KTKNGQMLVC QDPTCKTKKN VQRKTNARCP NCKKKMTLFG 650
    RGKDAVYRCV CGHTETQEQM DKRFKNKSSG KVSKKEMKKY MNNEDSLENN 700
    PFKDALKNLK L 711
    Length:711
    Mass (Da):81,732
    Last modified:August 2, 2005 - v1
    Checksum:i20D6F54E0A534035
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006716 Genomic DNA. Translation: BAE04107.1.
    RefSeqiYP_252713.1. NC_007168.1.

    Genome annotation databases

    EnsemblBacteriaiBAE04107; BAE04107; SH0798.
    GeneIDi3481648.
    KEGGisha:SH0798.
    PATRICi19617616. VBIStaHae67511_0784.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006716 Genomic DNA. Translation: BAE04107.1 .
    RefSeqi YP_252713.1. NC_007168.1.

    3D structure databases

    ProteinModelPortali Q4L8B8.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 279808.SH0798.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAE04107 ; BAE04107 ; SH0798 .
    GeneIDi 3481648.
    KEGGi sha:SH0798.
    PATRICi 19617616. VBIStaHae67511_0784.

    Phylogenomic databases

    eggNOGi COG0551.
    HOGENOMi HOG000086847.
    KOi K03169.
    OMAi TKHDEYF.
    OrthoDBi EOG60CWM6.

    Enzyme and pathway databases

    BioCyci SHAE279808:GJX7-800-MONOMER.

    Family and domain databases

    Gene3Di 1.10.460.10. 2 hits.
    2.70.20.10. 3 hits.
    3.40.50.140. 1 hit.
    HAMAPi MF_00953. Topoisom_3_prok.
    InterProi IPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013825. Topo_IA_cen_sub2.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR005738. TopoIII.
    IPR006171. Toprim_domain.
    [Graphical view ]
    PANTHERi PTHR11390. PTHR11390. 1 hit.
    Pfami PF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view ]
    PRINTSi PR00417. PRTPISMRASEI.
    SMARTi SM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56712. SSF56712. 1 hit.
    TIGRFAMsi TIGR01056. topB. 1 hit.
    PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "Whole-genome sequencing of Staphylococcus haemolyticus uncovers the extreme plasticity of its genome and the evolution of human-colonizing staphylococcal species."
      Takeuchi F., Watanabe S., Baba T., Yuzawa H., Ito T., Morimoto Y., Kuroda M., Cui L., Takahashi M., Ankai A., Baba S., Fukui S., Lee J.C., Hiramatsu K.
      J. Bacteriol. 187:7292-7308(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: JCSC1435.

    Entry informationi

    Entry nameiTOP3_STAHJ
    AccessioniPrimary (citable) accession number: Q4L8B8
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 2007
    Last sequence update: August 2, 2005
    Last modified: October 1, 2014
    This is version 66 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programProkaryotic Protein Annotation Program

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3