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P96583

- TOP3_BACSU

UniProt

P96583 - TOP3_BACSU

Protein

DNA topoisomerase 3

Gene

topB

Organism
Bacillus subtilis (strain 168)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 95 (01 Oct 2014)
      Sequence version 1 (01 May 1997)
      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 sitei310 – 3101O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei312 – 3121Interaction 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

    BioCyciBSUB:BSU04260-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:BSU04260
    OrganismiBacillus subtilis (strain 168)
    Taxonomic identifieri224308 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
    ProteomesiUP000001570: Chromosome

    Organism-specific databases

    GenoListiBSU04260. [Micado]

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 727727DNA topoisomerase 3PRO_0000286366Add
    BLAST

    Proteomic databases

    PaxDbiP96583.

    Interactioni

    Protein-protein interaction databases

    STRINGi224308.BSU04260.

    Structurei

    3D structure databases

    ProteinModelPortaliP96583.
    SMRiP96583. Positions 5-626.
    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.
    PhylomeDBiP96583.

    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.

    P96583-1 [UniParc]FASTAAdd to Basket

    « Hide

    MSKTVVLAEK PSVGRDLARV LKCHKKGNGY LEGDQYIVTW ALGHLVTLAD    50
    PEGYGKEFQS WRLEDLPIIP EPLKLVVIKK TGKQFNAVKS QLTRKDVNQI 100
    VIATDAGREG ELVARWIIEK ANVRKPIKRL WISSVTDKAI KEGFQKLRSG 150
    KEYENLYHSA VARAEADWIV GINATRALTT KFNAQLSCGR VQTPTLAMIA 200
    KREADIQAFT PVPYYGIRAA VDGMTLTWQD KKSKQTRTFN QDVTSRLLKN 250
    LQGKQAVVAE LKKTAKKSFA PALYDLTELQ RDAHKRFGFS AKETLSVLQK 300
    LYEQHKLVTY PRTDSRFLSS DIVPTLKDRL EGMEVKPYAQ YVSQIKKRGI 350
    KSHKGYVNDA KVSDHHAIIP TEEPLVLSSL SDKERKLYDL IAKRFLAVLM 400
    PAFEYEETKV IAEIGGETFT AKGKTVQSQG WKAVYDMAEE DDEQEDDRDQ 450
    TLPALQKGDT LAVRTLTETS GQTKPPARFN EGTLLSAMEN PSAFMQGEEK 500
    GLVKTLGETG GLGTVATRAD IIEKLFNSFL IEKKGQDIFI TSKGKQLLQL 550
    VPEDLKSPAL TAEWEQKLSA IAAGKLKSAV FIKDMKAYAH QTVKEIKNSS 600
    QTFRHDNITG TACPECGKMM LKVNGKRGTM LVCQDRECGS RKTIARKTNA 650
    RCPNCHKRME LRGQGEGQTF ACVCGHREKL SVFEKRKNKD KARATKRDVS 700
    SYMKKQNKDE PINNALAEQL KKLGLDK 727
    Length:727
    Mass (Da):81,477
    Last modified:May 1, 1997 - v1
    Checksum:i7146120F257C5FF3
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB001488 Genomic DNA. Translation: BAA19263.1.
    AL009126 Genomic DNA. Translation: CAB12233.1.
    PIRiH69724.
    RefSeqiNP_388307.1. NC_000964.3.

    Genome annotation databases

    EnsemblBacteriaiCAB12233; CAB12233; BSU04260.
    GeneIDi938247.
    KEGGibsu:BSU04260.
    PATRICi18972430. VBIBacSub10457_0443.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AB001488 Genomic DNA. Translation: BAA19263.1 .
    AL009126 Genomic DNA. Translation: CAB12233.1 .
    PIRi H69724.
    RefSeqi NP_388307.1. NC_000964.3.

    3D structure databases

    ProteinModelPortali P96583.
    SMRi P96583. Positions 5-626.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 224308.BSU04260.

    Chemistry

    BindingDBi P96583.
    ChEMBLi CHEMBL4320.

    Proteomic databases

    PaxDbi P96583.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAB12233 ; CAB12233 ; BSU04260 .
    GeneIDi 938247.
    KEGGi bsu:BSU04260.
    PATRICi 18972430. VBIBacSub10457_0443.

    Organism-specific databases

    GenoListi BSU04260. [Micado ]

    Phylogenomic databases

    eggNOGi COG0551.
    HOGENOMi HOG000086847.
    KOi K03169.
    OMAi TKHDEYF.
    OrthoDBi EOG60CWM6.
    PhylomeDBi P96583.

    Enzyme and pathway databases

    BioCyci BSUB:BSU04260-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. "A 148 kbp sequence of the region between 35 and 47 degree of the Bacillus subtilis genome."
      Kasahara Y., Nakai S., Lee S., Sadaie Y., Ogasawara N.
      Submitted (MAR-1997) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: 168.
    2. "The complete genome sequence of the Gram-positive bacterium Bacillus subtilis."
      Kunst F., Ogasawara N., Moszer I., Albertini A.M., Alloni G., Azevedo V., Bertero M.G., Bessieres P., Bolotin A., Borchert S., Borriss R., Boursier L., Brans A., Braun M., Brignell S.C., Bron S., Brouillet S., Bruschi C.V.
      , Caldwell B., Capuano V., Carter N.M., Choi S.-K., Codani J.-J., Connerton I.F., Cummings N.J., Daniel R.A., Denizot F., Devine K.M., Duesterhoeft A., Ehrlich S.D., Emmerson P.T., Entian K.-D., Errington J., Fabret C., Ferrari E., Foulger D., Fritz C., Fujita M., Fujita Y., Fuma S., Galizzi A., Galleron N., Ghim S.-Y., Glaser P., Goffeau A., Golightly E.J., Grandi G., Guiseppi G., Guy B.J., Haga K., Haiech J., Harwood C.R., Henaut A., Hilbert H., Holsappel S., Hosono S., Hullo M.-F., Itaya M., Jones L.-M., Joris B., Karamata D., Kasahara Y., Klaerr-Blanchard M., Klein C., Kobayashi Y., Koetter P., Koningstein G., Krogh S., Kumano M., Kurita K., Lapidus A., Lardinois S., Lauber J., Lazarevic V., Lee S.-M., Levine A., Liu H., Masuda S., Mauel C., Medigue C., Medina N., Mellado R.P., Mizuno M., Moestl D., Nakai S., Noback M., Noone D., O'Reilly M., Ogawa K., Ogiwara A., Oudega B., Park S.-H., Parro V., Pohl T.M., Portetelle D., Porwollik S., Prescott A.M., Presecan E., Pujic P., Purnelle B., Rapoport G., Rey M., Reynolds S., Rieger M., Rivolta C., Rocha E., Roche B., Rose M., Sadaie Y., Sato T., Scanlan E., Schleich S., Schroeter R., Scoffone F., Sekiguchi J., Sekowska A., Seror S.J., Serror P., Shin B.-S., Soldo B., Sorokin A., Tacconi E., Takagi T., Takahashi H., Takemaru K., Takeuchi M., Tamakoshi A., Tanaka T., Terpstra P., Tognoni A., Tosato V., Uchiyama S., Vandenbol M., Vannier F., Vassarotti A., Viari A., Wambutt R., Wedler E., Wedler H., Weitzenegger T., Winters P., Wipat A., Yamamoto H., Yamane K., Yasumoto K., Yata K., Yoshida K., Yoshikawa H.-F., Zumstein E., Yoshikawa H., Danchin A.
      Nature 390:249-256(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: 168.

    Entry informationi

    Entry nameiTOP3_BACSU
    AccessioniPrimary (citable) accession number: P96583
    Secondary accession number(s): Q797M6
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 2007
    Last sequence update: May 1, 1997
    Last modified: October 1, 2014
    This is version 95 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. Bacillus subtilis
      Bacillus subtilis (strain 168): entries, gene names and cross-references to SubtiList
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3