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Q5HPU2

- TOP1_STAEQ

UniProt

Q5HPU2 - TOP1_STAEQ

Protein

DNA topoisomerase 1

Gene

topA

Organism
Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 77 (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. Binds two Mg2+ per subunit.UniRule annotation

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Metal bindingi9 – 91Magnesium 1; catalyticUniRule annotation
    Sitei33 – 331Interaction 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
    Sitei148 – 1481Interaction with DNAUniRule annotation
    Sitei155 – 1551Interaction with DNAUniRule annotation
    Active sitei298 – 2981O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei300 – 3001Interaction with DNAUniRule annotation
    Sitei488 – 4881Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri577 – 60327C4-type 1Add
    BLAST
    Zinc fingeri617 – 64529C4-type 2Add
    BLAST
    Zinc fingeri658 – 68124C4-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

    BioCyciSEPI176279:GJJB-842-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:SERP0816
    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 – 689689DNA topoisomerase 1PRO_0000285945Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi176279.SERP0816.

    Structurei

    3D structure databases

    ProteinModelPortaliQ5HPU2.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini3 – 113111ToprimUniRule 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 fingeri577 – 60327C4-type 1Add
    BLAST
    Zinc fingeri617 – 64529C4-type 2Add
    BLAST
    Zinc fingeri658 – 68124C4-type 3Add
    BLAST

    Keywords - Domaini

    Repeat, Zinc-finger

    Phylogenomic databases

    eggNOGiCOG0551.
    HOGENOMiHOG000004018.
    KOiK03168.
    OMAiVVECDKC.
    OrthoDBiEOG6S7XQ9.

    Family and domain databases

    Gene3Di1.10.460.10. 3 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. 2 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.

    Q5HPU2-1 [UniParc]FASTAAdd to Basket

    « Hide

    MADNLVIVES PAKAKTIEKY LGKRYKVIAS MGHVRDLPRS QMGVDTEDNY    50
    EPKYITIRGK GPVVKDLKKH AKKAKKIFLA SDPDREGEAI AWHLSKILEL 100
    EDSKENRVVF NEITKDAVKD SFKHPRGIEM DLVDAQQARR ILDRLVGYNI 150
    SPVLWKKVKK GLSAGRVQSV ALRLVIDREN EIRNFKPEEY WSIEGEFRYK 200
    KSKFTAKFLH YKNKPYKLNN KDDVQRITEA LNGDQFEITN VNRKEKTRYP 250
    AHPFTTSTLQ QEAARKLNFK ARKTMMLAQQ LYEGIDLKRQ GTVGLITYMR 300
    TDSTRISTSA KSEAQQYIND KYGEQYVSQR KSSGKQGDQD AHEAIRPTST 350
    MRTPDDMKAF LTRDQHRLYK LIWERFVASQ MAPAILDTVA LDVTQNDIKF 400
    RANGQTIKFK GFMTLYVEAK DDKENDKENK LPQLDKGDKV TATKIEPAQH 450
    FTQPPPRYTE ARLVKTLEEL KIGRPSTYAP TIDTIQKRNY VKLESKRFIP 500
    TELGEIVYEQ VKEYFPEIID VEFTVNMETL LDKIAEGDMN WRKVIGDFYN 550
    SFKQDVERAE SEMEKIEIKD EPAGEDCEVC GSPMVIKMGR YGKFMACSNF 600
    PDCRNTKAIV KTIGVTCPKC NEGDVVERKS KKNRIFYGCS RYPECDFISW 650
    DKPVGRDCPK CHHYLVNKKK GKSSQVVCSN CDYEEEVQK 689
    Length:689
    Mass (Da):79,519
    Last modified:February 15, 2005 - v1
    Checksum:i4F520E2D44D29A07
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000029 Genomic DNA. Translation: AAW54162.1.
    RefSeqiYP_188398.1. NC_002976.3.

    Genome annotation databases

    EnsemblBacteriaiAAW54162; AAW54162; SERP0816.
    GeneIDi3242835.
    KEGGiser:SERP0816.
    PATRICi19612507. VBIStaEpi130894_0796.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    CP000029 Genomic DNA. Translation: AAW54162.1 .
    RefSeqi YP_188398.1. NC_002976.3.

    3D structure databases

    ProteinModelPortali Q5HPU2.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 176279.SERP0816.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAW54162 ; AAW54162 ; SERP0816 .
    GeneIDi 3242835.
    KEGGi ser:SERP0816.
    PATRICi 19612507. VBIStaEpi130894_0796.

    Phylogenomic databases

    eggNOGi COG0551.
    HOGENOMi HOG000004018.
    KOi K03168.
    OMAi VVECDKC.
    OrthoDBi EOG6S7XQ9.

    Enzyme and pathway databases

    BioCyci SEPI176279:GJJB-842-MONOMER.

    Family and domain databases

    Gene3Di 1.10.460.10. 3 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. 2 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. "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 nameiTOP1_STAEQ
    AccessioniPrimary (citable) accession number: Q5HPU2
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 1, 2007
    Last sequence update: February 15, 2005
    Last modified: October 1, 2014
    This is version 77 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