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P55991

- TOP1_HELPY

UniProt

P55991 - TOP1_HELPY

Protein

DNA topoisomerase 1

Gene

topA

Organism
Helicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 106 (01 Oct 2014)
      Sequence version 1 (01 Nov 1997)
      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 bindingi8 – 81Magnesium 1; catalyticUniRule annotation
    Sitei32 – 321Interaction with DNAUniRule annotation
    Metal bindingi82 – 821Magnesium 1; catalyticUniRule annotation
    Metal bindingi82 – 821Magnesium 2UniRule annotation
    Metal bindingi84 – 841Magnesium 2UniRule annotation
    Sitei139 – 1391Interaction with DNAUniRule annotation
    Sitei140 – 1401Interaction with DNAUniRule annotation
    Sitei143 – 1431Interaction with DNAUniRule annotation
    Active sitei297 – 2971O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei299 – 2991Interaction with DNAUniRule annotation
    Sitei484 – 4841Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri572 – 59827C4-type 1Add
    BLAST
    Zinc fingeri616 – 64227C4-type 2Add
    BLAST
    Zinc fingeri663 – 68927C4-type 3Add
    BLAST
    Zinc fingeri702 – 72524C4-type 4Add
    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
    4. protein binding Source: IntAct

    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

    BioCyciHPY:HP0116-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:HP_0116
    OrganismiHelicobacter pylori (strain ATCC 700392 / 26695) (Campylobacter pylori)
    Taxonomic identifieri85962 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaEpsilonproteobacteriaCampylobacteralesHelicobacteraceaeHelicobacter
    ProteomesiUP000000429: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 736736DNA topoisomerase 1PRO_0000145150Add
    BLAST

    Proteomic databases

    PRIDEiP55991.

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    flgBO260813EBI-7493738,EBI-7500288

    Protein-protein interaction databases

    DIPiDIP-3057N.
    IntActiP55991. 16 interactions.
    MINTiMINT-182749.
    STRINGi85962.HP0116.

    Structurei

    3D structure databases

    ProteinModelPortaliP55991.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 113112ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni163 – 1686Interaction 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 fingeri572 – 59827C4-type 1Add
    BLAST
    Zinc fingeri616 – 64227C4-type 2Add
    BLAST
    Zinc fingeri663 – 68927C4-type 3Add
    BLAST
    Zinc fingeri702 – 72524C4-type 4Add
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0551.
    KOiK03168.
    OMAiQNDPIEP.
    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.

    P55991-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKHLIIVESP AKAKTIKNFL DKNYEVIASK GHVRDLSKFA LGIKIDETGF    50
    TPNYVVDKDH KELVKQIIEL SKKASITYIA TDEDREGEAI GYHVACLIGG 100
    KLESYPRIVF HEITQNAILN ALKTPRKIDM SKVNAQQARR FLDRIVGFKL 150
    SSLIASKITK GLSAGRVQSA ALKLVIDKER EIKAFKPLTY FTLDAYFESH 200
    LEAQLISYKG NKLKAQELID EKKAQEIKNE LEKESYAISS IVKKSKKSPT 250
    PPPFMTSTLQ QSASSLLGFS PTKTMSIAQK LYEGVATPQG VMGVITYMRT 300
    DSLNIAKEAL EEARNKILKD YGKDYLPPKA KVYSSKNKNA QEAHEAIRPT 350
    SIILEPNALK DYLKPEELRL YTLIYKRFLA SQMQDALFES QSVVVACEKG 400
    EFKASGRKLL FDGYYKILGN DDKDKLLPNL KENDPIKLEK LESNAHVTEP 450
    PARYSEASLI KVLESLGIGR PSTYAPTISL LQNRDYIKVE KKQISALESA 500
    FKVIEILEKH FEEIVDSKFS ASLEEELDNI AQNKADYQQV LKDFYYPFMD 550
    KIEAGKKNII SQKVHEKTGQ SCPKCGGELV KKNSRYGEFI ACNNYPKCKY 600
    VKQTESANDE ADQELCEKCG GEMVQKFSRN GAFLACNNYP ECKNTKSLKN 650
    TPNAKETIEG VKCPECGGDI ALKRSKKGSF YGCNNYPKCN FLSNHKPINK 700
    RCEKCHYLMS ERIYRKKKAH ECIKCKERVF LEEDNG 736
    Length:736
    Mass (Da):83,196
    Last modified:November 1, 1997 - v1
    Checksum:i357CE39735F48475
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD07184.1.
    PIRiD64534.
    RefSeqiNP_206916.1. NC_000915.1.
    YP_006934039.1. NC_018939.1.

    Genome annotation databases

    EnsemblBacteriaiAAD07184; AAD07184; HP_0116.
    GeneIDi13869295.
    898836.
    KEGGiheo:C694_00575.
    hpy:HP0116.
    PATRICi20591447. VBIHelPyl33062_0123.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AE000511 Genomic DNA. Translation: AAD07184.1 .
    PIRi D64534.
    RefSeqi NP_206916.1. NC_000915.1.
    YP_006934039.1. NC_018939.1.

    3D structure databases

    ProteinModelPortali P55991.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    DIPi DIP-3057N.
    IntActi P55991. 16 interactions.
    MINTi MINT-182749.
    STRINGi 85962.HP0116.

    Proteomic databases

    PRIDEi P55991.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAD07184 ; AAD07184 ; HP_0116 .
    GeneIDi 13869295.
    898836.
    KEGGi heo:C694_00575.
    hpy:HP0116.
    PATRICi 20591447. VBIHelPyl33062_0123.

    Phylogenomic databases

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

    Enzyme and pathway databases

    BioCyci HPY:HP0116-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: ATCC 700392 / 26695.

    Entry informationi

    Entry nameiTOP1_HELPY
    AccessioniPrimary (citable) accession number: P55991
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: November 1, 1997
    Last sequence update: November 1, 1997
    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. Helicobacter pylori
      Helicobacter pylori (strain 26695): entries and gene names
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3