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O58356

- TOP1_PYRHO

UniProt

O58356 - TOP1_PYRHO

Protein

DNA topoisomerase 1

Gene

topA

Organism
Pyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 106 (01 Oct 2014)
      Sequence version 1 (01 Aug 1998)
      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
    Sitei52 – 521Interaction with DNAUniRule annotation
    Metal bindingi107 – 1071Magnesium 1; catalyticUniRule annotation
    Metal bindingi107 – 1071Magnesium 2UniRule annotation
    Metal bindingi109 – 1091Magnesium 2UniRule annotation
    Sitei166 – 1661Interaction with DNAUniRule annotation
    Sitei170 – 1701Interaction with DNAUniRule annotation
    Active sitei317 – 3171O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei319 – 3191Interaction with DNAUniRule annotation
    Sitei507 – 5071Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri606 – 63429C4-type 1Add
    BLAST
    Zinc fingeri653 – 67826C4-type 2; atypicalAdd
    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

    Enzyme and pathway databases

    BioCyciPHOR70601:GJWR-617-MONOMER.

    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:PH0622
    OrganismiPyrococcus horikoshii (strain ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3)
    Taxonomic identifieri70601 [NCBI]
    Taxonomic lineageiArchaeaEuryarchaeotaThermococciThermococcalesThermococcaceaePyrococcus
    ProteomesiUP000000752: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 686686DNA topoisomerase 1PRO_0000145181Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi70601.PH0622.

    Structurei

    3D structure databases

    ProteinModelPortaliO58356.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini1 – 141141ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni196 – 2016Interaction 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 fingeri606 – 63429C4-type 1Add
    BLAST
    Zinc fingeri653 – 67826C4-type 2; atypicalAdd
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0551.
    HOGENOMiHOG000004019.
    KOiK03168.
    OMAiARFSNTE.

    Family and domain databases

    Gene3Di1.10.290.10. 1 hit.
    1.10.460.10. 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.
    IPR013826. Topo_IA_cen_sub3.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR013498. Topo_IA_Znf.
    IPR005739. TopoI_arch.
    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.
    TIGRFAMsiTIGR01057. topA_arch. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O58356-1 [UniParc]FASTAAdd to Basket

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    MILIIAEKPN VARKIAGALS ERRPIKKSLF GVPYYEIFRE GKKLIVASAV    50
    GHLYGLAPKR DVFGYPIFDI EWVPVYIAEK GKEYAREYIK ALSVLAKRVR 100
    EFIVACDYDT EGEVIGYTAL KYACGVDPRV AKRMKFSALT KRDLLNAWRN 150
    LEPTINFGMA NAGIARHILD WYWGVNLSRA LTHAIKKASG KWVVLSTGRV 200
    QGPTLKFLVE REREIQSFVP RPYWVIKLIF EKNGQKFTAN YEKDKIWEEE 250
    EGKRIVLEVK KSIPRVSNVE IKRQKRTPPH PFDLGTLQRE AYSAFGFSPK 300
    KTLDIAQSLY EKGFSSYPRT ESQKLPRNIN FRMIIQNLAK MPQYRPYAHI 350
    LLGLPELKPV EGKKEDPAHP AIYPTGEIPR PGDLTKDEEK LYDMIVRRFL 400
    AVFMEPAIRE SVKVTIRAGP HKFFLSGGRT VKKGWLSVYG KYVKFEEVTL 450
    PEFFIGERIK VIQVKREKKK TKPPARYSPA AVIKKMEDLG LGTKATRAQI 500
    LETLYQRGYI EGKKSIKVTP LGMKVIETLE KYVPEIISVE LTREFEKKME 550
    LIMEGRLTKE EVIEEAKERL TKILEEFKKR ELEIGIELAK IVVGEDEVKP 600
    LVVGKCPKCG GDLIVKYNKK TGKRFVGCSN WPKCDVTYPI LQRGEIIPTN 650
    KTCCNGAPVV IIREEDGREF EICLDINCKD WKAKSH 686
    Length:686
    Mass (Da):78,637
    Last modified:August 1, 1998 - v1
    Checksum:i775D9013CADDF944
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000001 Genomic DNA. Translation: BAA29711.1.
    PIRiE71106.
    RefSeqiNP_142581.1. NC_000961.1.
    WP_010884720.1. NC_000961.1.

    Genome annotation databases

    EnsemblBacteriaiBAA29711; BAA29711; BAA29711.
    GeneIDi1442954.
    KEGGipho:PH0622.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BA000001 Genomic DNA. Translation: BAA29711.1 .
    PIRi E71106.
    RefSeqi NP_142581.1. NC_000961.1.
    WP_010884720.1. NC_000961.1.

    3D structure databases

    ProteinModelPortali O58356.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 70601.PH0622.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai BAA29711 ; BAA29711 ; BAA29711 .
    GeneIDi 1442954.
    KEGGi pho:PH0622.

    Phylogenomic databases

    eggNOGi COG0551.
    HOGENOMi HOG000004019.
    KOi K03168.
    OMAi ARFSNTE.

    Enzyme and pathway databases

    BioCyci PHOR70601:GJWR-617-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_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.
    IPR013826. Topo_IA_cen_sub3.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR013498. Topo_IA_Znf.
    IPR005739. TopoI_arch.
    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 TIGR01057. topA_arch. 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: ATCC 700860 / DSM 12428 / JCM 9974 / NBRC 100139 / OT-3.

    Entry informationi

    Entry nameiTOP1_PYRHO
    AccessioniPrimary (citable) accession number: O58356
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 20, 2001
    Last sequence update: August 1, 1998
    Last modified: October 1, 2014
    This is version 106 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