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Q9ZDK2

- TOP1_RICPR

UniProt

Q9ZDK2 - TOP1_RICPR

Protein

DNA topoisomerase 1

Gene

topA

Organism
Rickettsia prowazekii (strain Madrid E)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 100 (01 Oct 2014)
      Sequence version 1 (01 May 1999)
      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
    Sitei31 – 311Interaction with DNAUniRule annotation
    Metal bindingi80 – 801Magnesium 1; catalyticUniRule annotation
    Metal bindingi80 – 801Magnesium 2UniRule annotation
    Metal bindingi82 – 821Magnesium 2UniRule annotation
    Sitei142 – 1421Interaction with DNAUniRule annotation
    Sitei143 – 1431Interaction with DNAUniRule annotation
    Sitei146 – 1461Interaction with DNAUniRule annotation
    Sitei158 – 1581Interaction with DNAUniRule annotation
    Active sitei304 – 3041O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei306 – 3061Interaction with DNAUniRule annotation
    Sitei499 – 4991Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri600 – 62728C4-typeAdd
    BLAST

    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, Zinc

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 1UniRule annotation (EC:5.99.1.2UniRule annotation)
    Alternative name(s):
    DNA topoisomerase IUniRule annotation
    Omega-protein
    Relaxing enzyme
    Swivelase
    Untwisting enzyme
    Gene namesi
    Name:topAUniRule annotation
    Ordered Locus Names:RP326
    OrganismiRickettsia prowazekii (strain Madrid E)
    Taxonomic identifieri272947 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaRickettsialesRickettsiaceaeRickettsieaeRickettsiatyphus group
    ProteomesiUP000002480: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 776776DNA topoisomerase 1PRO_0000145163Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi272947.RP326.

    Structurei

    3D structure databases

    ProteinModelPortaliQ9ZDK2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini1 – 111111ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni166 – 1716Interaction with DNAUniRule annotation

    Sequence similaritiesi

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

    Zinc finger

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri600 – 62728C4-typeAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG1754.
    HOGENOMiHOG000004020.
    KOiK03168.
    OMAiVVECDKC.
    OrthoDBiEOG6S7XQ9.

    Family and domain databases

    Gene3Di1.10.460.10. 2 hits.
    2.70.20.10. 2 hits.
    3.40.50.140. 1 hit.
    HAMAPiMF_00952. Topoisom_1_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.
    IPR013498. Topo_IA_Znf.
    IPR005733. TopoI_bac-type.
    IPR028612. Topoisom_1_IA.
    IPR006171. Toprim_domain.
    [Graphical view]
    PANTHERiPTHR11390. PTHR11390. 1 hit.
    PfamiPF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    PF01396. zf-C4_Topoisom. 1 hit.
    [Graphical view]
    PRINTSiPR00417. PRTPISMRASEI.
    SMARTiSM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF56712. SSF56712. 2 hits.
    TIGRFAMsiTIGR01051. topA_bact. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    Q9ZDK2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKLVIVESPA KAKTINKYLG DEFKVIASFG HIRDLPSKKG SVLPDKNFLM    50
    EYDISDKAGK YVDAIVKEAR KAEVVYLATD PDREGESISW HVAEVIKEKN 100
    KVESDDFFKR VAFNEITKKA IMNAVANPRK LDTNLVNAQQ ARRALDYLVG 150
    FTLSPLLWRK LPGCKSAGRV QSVALRLICD REDEIERFKS EEYWDISLKM 200
    QNSNNDLFTA KLTHVNDQKL KKFSIINEKE AKDLTQKLKL QKFYVEKIEK 250
    KQQKRQPQPP FITSSLQQEA ARKLGFSAKK TMQIAQKLYE GVDIGKETIG 300
    LITYMRTDGV TLSNDAIADI RKLIDKNYGN QYLPIKPRIY QSKVKNAQEA 350
    HEAIRPTNIT YTPDSLKQKL EKDYYKLYEL IWHRTIACQM ENVIMDLVIA 400
    NLASENKEYL AKANGSIIAF DGFYKVYRES LDDEDEEDNK MLPPLKEQEH 450
    IKTKEVIPNK HFTEPPPRYS EASLVKKLEE LGIGRPSTYA SILSVLQDRK 500
    YVALEKKRFI PEELGRLVTV FLVGFFKKYV EYDFTAGLEN ELDEIAAGKL 550
    EWKTALNNFW RGFNHNIESV NEQKITEIIN YLQKALDYHL FGEDKESKVC 600
    PSCKTGQLSL KLGKFGAFLA CSNYPECTFK KSIVSGNDNN EDEGDPSTIL 650
    NDNKILGTDQ DGVEIYLKKG PYGPYIQLGE QCGKVKPKRT PVPANLKQSE 700
    ITLEIALKLL NLPLKIGIHK DSGEEIIIGY SKFGPYIKYM CKFISVPKKY 750
    DFLNLSLNDA MKLIQNNKAK LEKKYG 776
    Length:776
    Mass (Da):88,722
    Last modified:May 1, 1999 - v1
    Checksum:iC0F738A3691B7CCE
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ235271 Genomic DNA. Translation: CAA14786.1.
    PIRiH71688.
    RefSeqiNP_220709.1. NC_000963.1.

    Genome annotation databases

    EnsemblBacteriaiCAA14786; CAA14786; CAA14786.
    GeneIDi883482.
    KEGGirpr:RP326.
    PATRICi17901421. VBIRicPro72556_0336.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AJ235271 Genomic DNA. Translation: CAA14786.1 .
    PIRi H71688.
    RefSeqi NP_220709.1. NC_000963.1.

    3D structure databases

    ProteinModelPortali Q9ZDK2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 272947.RP326.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai CAA14786 ; CAA14786 ; CAA14786 .
    GeneIDi 883482.
    KEGGi rpr:RP326.
    PATRICi 17901421. VBIRicPro72556_0336.

    Phylogenomic databases

    eggNOGi COG1754.
    HOGENOMi HOG000004020.
    KOi K03168.
    OMAi VVECDKC.
    OrthoDBi EOG6S7XQ9.

    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_00952. Topoisom_1_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.
    IPR013498. Topo_IA_Znf.
    IPR005733. TopoI_bac-type.
    IPR028612. Topoisom_1_IA.
    IPR006171. Toprim_domain.
    [Graphical view ]
    PANTHERi PTHR11390. PTHR11390. 1 hit.
    Pfami PF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    PF01396. zf-C4_Topoisom. 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. 2 hits.
    TIGRFAMsi TIGR01051. topA_bact. 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: Madrid E.

    Entry informationi

    Entry nameiTOP1_RICPR
    AccessioniPrimary (citable) accession number: Q9ZDK2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: May 1, 1999
    Last modified: October 1, 2014
    This is version 100 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. Rickettsia prowazekii
      Rickettsia prowazekii (strain Madrid E): entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3