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O83409

- TOP1_TREPA

UniProt

O83409 - TOP1_TREPA

Protein

DNA topoisomerase 1

Gene

topA

Organism
Treponema pallidum (strain Nichols)
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 Nov 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 bindingi23 – 231Magnesium 1; catalyticUniRule annotation
    Sitei47 – 471Interaction with DNAUniRule annotation
    Metal bindingi96 – 961Magnesium 1; catalyticUniRule annotation
    Metal bindingi96 – 961Magnesium 2UniRule annotation
    Metal bindingi98 – 981Magnesium 2UniRule annotation
    Sitei154 – 1541Interaction with DNAUniRule annotation
    Sitei155 – 1551Interaction with DNAUniRule annotation
    Sitei158 – 1581Interaction with DNAUniRule annotation
    Sitei163 – 1631Interaction with DNAUniRule annotation
    Sitei170 – 1701Interaction with DNAUniRule annotation
    Active sitei312 – 3121O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei314 – 3141Interaction with DNAUniRule annotation
    Sitei501 – 5011Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri591 – 61727C4-type 1Add
    BLAST
    Zinc fingeri628 – 65730C4-type 2Add
    BLAST
    Zinc fingeri670 – 69627C4-type 3Add
    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

    BioCyciTPAL243276:GC1H-420-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:TP_0394
    OrganismiTreponema pallidum (strain Nichols)
    Taxonomic identifieri243276 [NCBI]
    Taxonomic lineageiBacteriaSpirochaetesSpirochaetalesSpirochaetaceaeTreponema
    ProteomesiUP000000811: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 731731DNA topoisomerase 1PRO_0000145170Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    IntActiO83409. 2 interactions.
    STRINGi243276.TP0394.

    Structurei

    3D structure databases

    ProteinModelPortaliO83409.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini17 – 130114ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni178 – 1836Interaction 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 fingeri591 – 61727C4-type 1Add
    BLAST
    Zinc fingeri628 – 65730C4-type 2Add
    BLAST
    Zinc fingeri670 – 69627C4-type 3Add
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0551.
    KOiK03168.
    OMAiKEYNNWQ.
    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. 3 hits.
    [Graphical view]
    PRINTSiPR00417. PRTPISMRASEI.
    SMARTiSM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF56712. SSF56712. 1 hit.
    TIGRFAMsiTIGR01051. topA_bact. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    O83409-1 [UniParc]FASTAAdd to Basket

    « Hide

    MEVRGLQPKR QKTFARKHLV IVESPAKAQT IEKYLGTQYV VRASMGHVID    50
    LPKSRLAIDI EHDFQPEYIT VRGRAQCLKE LRTLSKQSLQ VFLASDRDRE 100
    GEAIAYHLAQ SIQAYCDTPI KRIVFNEITP HAIRAAIGHP VPIDTAKVNA 150
    QKARRVLDRL VGYHLCPLLW HKVKNGLSAG RVQSVALRLI CEREVEVKRF 200
    VPEEYWTVEG TFEKDKKSFS ALLILIQGKK AVFKSKQEAT SAIGLFSQSE 250
    ARVSQIRSFE KNVRPKQPFT TSTLQQCAAN RLGFTSRKTM QVAQQLYEGV 300
    SLGTHRVGLI TYMRTDSVRV SEAAVKEVRA WIATHFSDAL PGTPNRYAAK 350
    GKSQDAHEAI RPTYVAHTPE RIKAHLTRDQ IRLYTLIWER FVASQMTDAR 400
    VRSLTFEITA GPAVFSATET QVIEQGFYRV LKMLSPKDLS KAVLPPTKEG 450
    EVVALHNVQS VQHFTQGPVR YTDASIVKML EEKGIGRPST YAPTISVLLD 500
    RYYVTRIQKQ LMPTPLGKVI SDLLTTYFHD VVDVSFTARM ESKLDEVEED 550
    KIKWNCVIAD FYPAFSEKVS TVMKDLNSMR GVFDEKTDVV CSQCGDTMVK 600
    KLGRFGFFLA CGKFPECRNT QPVPLAKCPR PACDGNIVGK KTRGRKEFYG 650
    CTRFPVCDFV THFKPTFAVC PQCRCFLVEK SNRRVGTYTA CVNPECRYVS 700
    PTRKNLSLGK EAVLDGSHRG AQDKGAVQHY E 731
    Length:731
    Mass (Da):82,441
    Last modified:November 1, 1998 - v1
    Checksum:iC0F0C6C3DDD16F29
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000520 Genomic DNA. Translation: AAC65378.1.
    PIRiD71332.
    RefSeqiNP_218834.1. NC_000919.1.
    YP_008091243.1. NC_021490.2.

    Genome annotation databases

    EnsemblBacteriaiAAC65378; AAC65378; TP_0394.
    GeneIDi15851683.
    2610767.
    KEGGitpa:TP0394.
    tpw:TPANIC_0394.
    PATRICi20530797. VBITrePal57110_0418.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000520 Genomic DNA. Translation: AAC65378.1 .
    PIRi D71332.
    RefSeqi NP_218834.1. NC_000919.1.
    YP_008091243.1. NC_021490.2.

    3D structure databases

    ProteinModelPortali O83409.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    IntActi O83409. 2 interactions.
    STRINGi 243276.TP0394.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAC65378 ; AAC65378 ; TP_0394 .
    GeneIDi 15851683.
    2610767.
    KEGGi tpa:TP0394.
    tpw:TPANIC_0394.
    PATRICi 20530797. VBITrePal57110_0418.

    Phylogenomic databases

    eggNOGi COG0551.
    KOi K03168.
    OMAi KEYNNWQ.
    OrthoDBi EOG6S7XQ9.

    Enzyme and pathway databases

    BioCyci TPAL243276:GC1H-420-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_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. 3 hits.
    [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 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: Nichols.

    Entry informationi

    Entry nameiTOP1_TREPA
    AccessioniPrimary (citable) accession number: O83409
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: December 15, 1998
    Last sequence update: November 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, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3