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Q8Z6F5

- TOP3_SALTI

UniProt

Q8Z6F5 - TOP3_SALTI

Protein

DNA topoisomerase 3

Gene

topB

Organism
Salmonella typhi
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 92 (01 Oct 2014)
      Sequence version 1 (01 Mar 2002)
      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. Binds two Mg2+ per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi7 – 71Magnesium 1; catalyticUniRule annotation
    Sitei61 – 611Interaction with DNAUniRule annotation
    Metal bindingi103 – 1031Magnesium 1; catalyticUniRule annotation
    Metal bindingi103 – 1031Magnesium 2UniRule annotation
    Metal bindingi105 – 1051Magnesium 2UniRule annotation
    Sitei170 – 1701Interaction with DNAUniRule annotation
    Sitei178 – 1781Interaction with DNAUniRule annotation
    Sitei185 – 1851Interaction with DNAUniRule annotation
    Active sitei328 – 3281O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei330 – 3301Interaction 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

    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
    Synonyms:top3
    Ordered Locus Names:STY1816, t1177
    OrganismiSalmonella typhi
    Taxonomic identifieri90370 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaEnterobacterialesEnterobacteriaceaeSalmonella
    ProteomesiUP000000541: Chromosome, UP000002670: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 649649DNA topoisomerase 3PRO_0000145185Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi220341.STY1816.

    Structurei

    3D structure databases

    ProteinModelPortaliQ8Z6F5.
    SMRiQ8Z6F5. Positions 1-623.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini1 – 134134ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni194 – 1996Interaction with DNAUniRule annotation

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0550.
    HOGENOMiHOG000086848.
    KOiK03169.
    OMAiMANPDAY.
    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.

    Q8Z6F5-1 [UniParc]FASTAAdd to Basket

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    MRLFIAEKPS LGRAIADVLP KPHRKGDGFI ECGNGQVVTW CIGHLLEQAQ    50
    PDAYDSRYAR WNLADLPIVP EKWQLQPRPS VTKQLNVIKR FLHQAGEIIH 100
    AGDPDREGQL LVDEVLDYLQ LPAEKRQQVR RCLINDLNPQ AVERAIDRLR 150
    ANSDFVPLCV SALARARADW LYGINMTRAY TILGRNAGYQ GVLSVGRVQT 200
    PVLGLVVRRD EEIENFVAKD FFEVKAHIVT PADERFTAIW QPSEACEPYQ 250
    DEEGRLLHRP LAEHVVNRIN GQPALVTSYN DKRESESAPL PFSLSTLQIE 300
    AAKRFGLSAQ NVLDICQKLY ETHKLITYPR SDCRYLPEEH FAGRQAVMNA 350
    ISVHAPDLLP QPVVNPDTRN RCWDDKKVDA HHAIIPTARS SSVHLTENEA 400
    KVYTLIARQY LMQFCPDAVF RKCVIELEIA KGKFVAKARF LAEAGWRTLL 450
    GSKERDEEND GTPLSVVAKG DELLCEKGEV VERQTQPPRH FTDATLLSAM 500
    TGIARFVQDK DLKKILRATD GLGTEATRAG IIELLFKRSF LTKKGRYIHS 550
    TDAGKALIHS LPEMAARPDM TAHWESVLTQ ISEKQCRYQD FMQPLVGTLY 600
    QLIDQAKRTP VKRFRGIVAP GGGEKKKSAP RKRAGKKSPP AEETGRQTE 649
    Length:649
    Mass (Da):73,087
    Last modified:March 1, 2002 - v1
    Checksum:i1620030D62ED1729
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL513382 Genomic DNA. Translation: CAD02056.1.
    AE014613 Genomic DNA. Translation: AAO68834.1.
    RefSeqiNP_456214.1. NC_003198.1.
    NP_804985.1. NC_004631.1.

    Genome annotation databases

    EnsemblBacteriaiAAO68834; AAO68834; t1177.
    CAD02056; CAD02056; CAD02056.
    GeneIDi1248185.
    KEGGisty:STY1816.
    PATRICi18541534. VBISalEnt120419_1829.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AL513382 Genomic DNA. Translation: CAD02056.1 .
    AE014613 Genomic DNA. Translation: AAO68834.1 .
    RefSeqi NP_456214.1. NC_003198.1.
    NP_804985.1. NC_004631.1.

    3D structure databases

    ProteinModelPortali Q8Z6F5.
    SMRi Q8Z6F5. Positions 1-623.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 220341.STY1816.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAO68834 ; AAO68834 ; t1177 .
    CAD02056 ; CAD02056 ; CAD02056 .
    GeneIDi 1248185.
    KEGGi sty:STY1816.
    PATRICi 18541534. VBISalEnt120419_1829.

    Phylogenomic databases

    eggNOGi COG0550.
    HOGENOMi HOG000086848.
    KOi K03169.
    OMAi MANPDAY.
    OrthoDBi EOG60CWM6.

    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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: CT18.
    2. "Comparative genomics of Salmonella enterica serovar Typhi strains Ty2 and CT18."
      Deng W., Liou S.-R., Plunkett G. III, Mayhew G.F., Rose D.J., Burland V., Kodoyianni V., Schwartz D.C., Blattner F.R.
      J. Bacteriol. 185:2330-2337(2003) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 700931 / Ty2.

    Entry informationi

    Entry nameiTOP3_SALTI
    AccessioniPrimary (citable) accession number: Q8Z6F5
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: August 13, 2002
    Last sequence update: March 1, 2002
    Last modified: October 1, 2014
    This is version 92 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