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Q5HLZ4

- TOP3_STAEQ

UniProt

Q5HLZ4 - TOP3_STAEQ

Protein

DNA topoisomerase 3

Gene

topB

Organism
Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
Status
Reviewed - Annotation score: 3 out of 5- Protein inferred from homologyi
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    • History
      Entry version 70 (01 Oct 2014)
      Sequence version 1 (15 Feb 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

    BioCyciSEPI176279:GJJB-1914-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:SERP1836
    OrganismiStaphylococcus epidermidis (strain ATCC 35984 / RP62A)
    Taxonomic identifieri176279 [NCBI]
    Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcus
    ProteomesiUP000000531: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 711711DNA topoisomerase 3PRO_0000286376Add
    BLAST

    Interactioni

    Protein-protein interaction databases

    STRINGi176279.SERP1836.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5HLZ4.
    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

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi560 – 710151Lys-richAdd
    BLAST

    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

    Gene3Di1.10.290.10. 1 hit.
    1.10.460.10. 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.
    IPR013826. Topo_IA_cen_sub3.
    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.

    Q5HLZ4-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKSLILAEKP SVGRDIANAL NLQQKSNGYI EGKQYIVTWA LGHLVTNATP    50
    EQYNPSYKEW NLEDLPIIPK KMKTVVISKT NRQFKIVKSL ILDKNVKEII 100
    IATDAGREGE LVARLILDKV GNKKPIKRLW ISSVTKKAIQ EGFKQLKNGN 150
    AYQNLYEAAL ARSEADWIVG INATRALTTK YDAQLSLGRV QTPTIQIVKS 200
    RQDEINYFKP EKYYTLSINV DGYDLNLKQQ KRYKDKKELE LIEHKIKHQE 250
    GKILEVKGKN KKSYAQPLFN LTDLQQEAYK HYKMGPKETL NTLQHLYERH 300
    KLVTYPRTDS NYLTDDMVDT IQERLRAILA TDYKSHVRDL ISESFSSKMH 350
    IFNNQKVSDH HAIIPTEVRP SIEQLSQREF KIYMLIAERF LENLMNPYLY 400
    EVLTIHAQLK DYNFVLKEII PKQLGYKALK DQTSSHTLTH SFKEGQLFKV 450
    HRIEIHEHET KAPEYFNEGS LLKAMENPQN HIDLNDKKYA KTLKHSGGIG 500
    TVATRADIIE KLFNMNALES RDGKIKVTSK GKQILELSPS ELTSPILTAQ 550
    WEEKLMLIEK GKYNSQKFIQ EMKNFTFKVV NKIKSSEQKY KHDNLTTTEC 600
    PTCGKFMIKV KTKNGQMLVC QDPKCKTKKN IQRKTNARCP YCKKKMTLFG 650
    KGKEAVYRCV CGHTETQSQM DKRMRDKTNG KVSRKEMKKY INKKEEIDNN 700
    PFKDALKNLK L 711
    Length:711
    Mass (Da):82,393
    Last modified:February 15, 2005 - v1
    Checksum:i13AB643F53065FB9
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000029 Genomic DNA. Translation: AAW55174.1.
    RefSeqiYP_189399.1. NC_002976.3.

    Genome annotation databases

    EnsemblBacteriaiAAW55174; AAW55174; SERP1836.
    GeneIDi3241273.
    KEGGiser:SERP1836.
    PATRICi19614606. VBIStaEpi130894_1792.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000029 Genomic DNA. Translation: AAW55174.1 .
    RefSeqi YP_189399.1. NC_002976.3.

    3D structure databases

    ProteinModelPortali Q5HLZ4.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 176279.SERP1836.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAW55174 ; AAW55174 ; SERP1836 .
    GeneIDi 3241273.
    KEGGi ser:SERP1836.
    PATRICi 19614606. VBIStaEpi130894_1792.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci SEPI176279:GJJB-1914-MONOMER.

    Family and domain databases

    Gene3Di 1.10.290.10. 1 hit.
    1.10.460.10. 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.
    IPR013826. Topo_IA_cen_sub3.
    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. "Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain."
      Gill S.R., Fouts D.E., Archer G.L., Mongodin E.F., DeBoy R.T., Ravel J., Paulsen I.T., Kolonay J.F., Brinkac L.M., Beanan M.J., Dodson R.J., Daugherty S.C., Madupu R., Angiuoli S.V., Durkin A.S., Haft D.H., Vamathevan J.J., Khouri H.
      , Utterback T.R., Lee C., Dimitrov G., Jiang L., Qin H., Weidman J., Tran K., Kang K.H., Hance I.R., Nelson K.E., Fraser C.M.
      J. Bacteriol. 187:2426-2438(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 35984 / RP62A.

    Entry informationi

    Entry nameiTOP3_STAEQ
    AccessioniPrimary (citable) accession number: Q5HLZ4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 2007
    Last sequence update: February 15, 2005
    Last modified: October 1, 2014
    This is version 70 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