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Q5WAX6

- TOP3_BACSK

UniProt

Q5WAX6 - TOP3_BACSK

Protein

DNA topoisomerase 3

Gene

topB

Organism
Bacillus clausii (strain KSM-K16)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 69 (01 Oct 2014)
      Sequence version 1 (23 Nov 2004)
      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 bindingi9 – 91Magnesium; catalyticUniRule annotation
    Sitei61 – 611Interaction with DNAUniRule annotation
    Metal bindingi105 – 1051Magnesium; catalyticUniRule annotation
    Sitei168 – 1681Interaction with DNAUniRule annotation
    Sitei176 – 1761Interaction with DNAUniRule annotation
    Active sitei311 – 3111O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei313 – 3131Interaction 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

    BioCyciBCLA66692:GHMP-4033-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:ABC3953
    OrganismiBacillus clausii (strain KSM-K16)
    Taxonomic identifieri66692 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001168: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 729729DNA topoisomerase 3PRO_0000286365Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi66692.ABC3953.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5WAX6.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini3 – 136134ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni187 – 1926Interaction 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. 2 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.

    Q5WAX6-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKKKAVLAEK PSVARDIARV LGCNQKGNGY LEGNGYIITW ALGHLVTHAD    50
    PEHYGKQYKT WKLEELPMLP KRLELVVIKQ TAKQFHAVKH VLNRQDVGEV 100
    VIATDAGREG ELVARWILEK AHVKKPVKRL WISSVTDKAI KDGFKQLKDG 150
    KRYETLYAAA AARAEADWYV GINGTRALTT KHNAQLSCGR VQTPTLAILA 200
    DREEAIRKFV PKPYHTISVE TKDGVTFRWA DRRSKEERIF DDKRAKTLQE 250
    KLQQSAIVID SVNAKTKRTP PPPLYDLTEL QREANKRFGY SAKETLAALQ 300
    RLYEQHKAVT YPRTDSRYLS SDLVETLKER LHAVDVQPFR KMVANAKKQG 350
    LANAKRQMVN DAKVSDHHAL IPTEQPQSAS AMSDKEAKLY HLIVRRFLAN 400
    FFPPSESELT SVEATANGEL LRAKGERLVS AGWRGQETGE EDEALARLLP 450
    AMSKGDKKAV KWVGMTQGKT SPPPRFNEGT LLAAMEKPAQ HMEAKDETIK 500
    KTLAQAGGIG TVATRADIIE KLFSSFYIEK KGKDLYITSK GKQLLELVPA 550
    ELKSPALTAE WEQRLEKIVQ GKEQKQMFIA EMKEYAKAVV AQVKADTATF 600
    RHDNKTGEKC PECGKFLLEV NGKKGKMRVC QDRECGYRKN IAMTTNARCP 650
    KCKKKLELRG EGEGQVFACV CGHREKKAQF EQRRKQNKHK NVSKREVQSY 700
    MKKQNKQDQF ANSALADQLA KLGLKGDDS 729
    Length:729
    Mass (Da):82,115
    Last modified:November 23, 2004 - v1
    Checksum:i538DCA474A448178
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006627 Genomic DNA. Translation: BAD66484.1.
    RefSeqiYP_177445.1. NC_006582.1.

    Genome annotation databases

    EnsemblBacteriaiBAD66484; BAD66484; ABC3953.
    GeneIDi3203429.
    KEGGibcl:ABC3953.
    PATRICi18927718. VBIBacCla58185_4207.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AP006627 Genomic DNA. Translation: BAD66484.1 .
    RefSeqi YP_177445.1. NC_006582.1.

    3D structure databases

    ProteinModelPortali Q5WAX6.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 66692.ABC3953.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAD66484 ; BAD66484 ; ABC3953 .
    GeneIDi 3203429.
    KEGGi bcl:ABC3953.
    PATRICi 18927718. VBIBacCla58185_4207.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci BCLA66692:GHMP-4033-MONOMER.

    Family and domain databases

    Gene3Di 1.10.460.10. 2 hits.
    2.70.20.10. 2 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. "The complete genome sequence of the alkaliphilic Bacillus clausii KSM-K16."
      Takaki Y., Kageyama Y., Shimamura S., Suzuki H., Nishi S., Hatada Y., Kawai S., Ito S., Horikoshi K.
      Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: KSM-K16.

    Entry informationi

    Entry nameiTOP3_BACSK
    AccessioniPrimary (citable) accession number: Q5WAX6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 2007
    Last sequence update: November 23, 2004
    Last modified: October 1, 2014
    This is version 69 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, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3