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Q9X3X7

- TOP1_ZYMMO

UniProt

Q9X3X7 - TOP1_ZYMMO

Protein

DNA topoisomerase 1

Gene

topA

Organism
Zymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
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 3 (23 Mar 2010)
      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
    Sitei140 – 1401Interaction with DNAUniRule annotation
    Sitei141 – 1411Interaction with DNAUniRule annotation
    Sitei144 – 1441Interaction with DNAUniRule annotation
    Sitei156 – 1561Interaction with DNAUniRule annotation
    Active sitei293 – 2931O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei295 – 2951Interaction with DNAUniRule annotation
    Sitei488 – 4881Interaction with DNAUniRule annotation

    Regions

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Zinc fingeri592 – 61928C4-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:ZMO1193
    OrganismiZymomonas mobilis subsp. mobilis (strain ATCC 31821 / ZM4 / CP4)
    Taxonomic identifieri264203 [NCBI]
    Taxonomic lineageiBacteriaProteobacteriaAlphaproteobacteriaSphingomonadalesSphingomonadaceaeZymomonas
    ProteomesiUP000001173: Chromosome

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 12121212DNA topoisomerase 1PRO_0000145175Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.UniRule annotation

    Protein-protein interaction databases

    STRINGi264203.ZMO1193.

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini1 – 114114ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni164 – 1696Interaction with DNAUniRule annotation

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi1109 – 120799Lys-richAdd
    BLAST

    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 fingeri592 – 61928C4-typeAdd
    BLAST

    Keywords - Domaini

    Zinc-finger

    Phylogenomic databases

    eggNOGiCOG1754.
    HOGENOMiHOG000004020.
    KOiK03168.

    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.
    IPR025589. Toprim_C_rpt.
    IPR006171. Toprim_domain.
    [Graphical view]
    PANTHERiPTHR11390. PTHR11390. 1 hit.
    PfamiPF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    PF13368. Toprim_C_rpt. 3 hits.
    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.

    Q9X3X7-1 [UniParc]FASTAAdd to Basket

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    MKLVVVESPA KAKTIEKYLG SGYQVLASYG HIRDLPSKDG SVNPDNGFSM     50
    VWQNYPDKAH RLKAIEDAVK ESDSLILATD PDREGEAISW HILELLKTKK 100
    LLPDDVERVT FNAITKAAVT DAMAHPRQLD NDLINAYLAR RALDYLVGFT 150
    LSPILWRKLP GAKSAGRVQS VALRLVVDRE QEIEGFKPQE YWSVEADMEA 200
    DSIGFTSRLI QWRGQKLEKL SIADKTQAEA AQSDVESGHF TVSNVETKPV 250
    SRNPQPPFTT STLQQEAARK LGFAASHTMR LAQSLYEEGL ITYMRTDGVQ 300
    MDESAIAAAR KTITQRYDGG YVPDKPRQYQ VKAKNAQEAH EAIRPTDFSR 350
    DKAASGDHAR LYELIWKRAL ASQMASAKLE RTTVDLTDGT GQNVLRVTGQ 400
    VVLFSGFLTL YEESADDNAN DRDGKEGRAR LPLLRAGDAP LKKEVRADQH 450
    FTQPPPRYSE ASLVKKMEDL GIGRPSTYAS VIQVLKDRAY VTLERNRFIP 500
    SEAGRLLTAF LERFFERYVS YDFTAGLEDS LDEISGGRAD WQKVLDAFWH 550
    DFKPKTAEVM EQQPSAITAE LDKFLEPWLF PDKGDGHDPR ECPSCHTGRL 600
    ALKGGRFGAF IACSNYPECK YTRGFGQGED GVDDNEPVLL GYMPENSDDD 650
    GYMAFSDQGD ILPANTASAS ETGVTDGGIA ANAAFSGKGN SASHTDRDDL 700
    PFDPDEPASS TGNVASSQSR MTGDETASSG NSRDSSAHGV STTAGIDAES 750
    QAGISNQALA GKNNAGRTAV SDNKGNNSSS TIAAARKGGS TDDNATVSDP 800
    DGDIGSGASS SGQDADNRLL SHRNGDIDSR AIPADHKDSS SDQNASHALS 850
    PDRNSDDASV SNSDKKIDSK AVSTGHDVGN AITSDNSPSD NVAHLASTPS 900
    SATSSVKVAL ETENNDTAAS KADEQAKEEE ESRKARAVTR RTGRFGPYIQ 950
    LGEGKNAKRV SVPRDVNPRE VDFSLASRLL ALPREIGLHP ESGKMIIAGT 1000
    GRYGPYLNCD GKYARLSSTE ELLDIDIDRA VVKLAEAAQN KGRTGATLSR 1050
    EPLKVFGDSP VTEKPVQLMN GRYGPYVTDG ETNASLPKDT TPESLTFEEA 1100
    LALLEARAKM PKKKKTKKAA AKKPAAKKTT TKKAAPKKAT TKTATPKSAT 1150
    TDNATSEDGD ATPAKSPAKK AVAKKTTAKK PASKSATKKA PSSKTTAAKK 1200
    TSKATPKDEV AE 1212
    Length:1,212
    Mass (Da):130,689
    Last modified:March 23, 2010 - v3
    Checksum:i498231607911400F
    GO

    Sequence cautioni

    The sequence AAD21553.1 differs from that shown. Reason: Erroneous initiation.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti171 – 1722VA → AR in AAD21553. 1 PublicationCurated
    Sequence conflicti445 – 4451V → F in AAD21553. 1 PublicationCurated
    Sequence conflicti481 – 4811V → F in AAD21553. 1 PublicationCurated
    Sequence conflicti1017 – 10171S → F in AAD21553. 1 PublicationCurated
    Sequence conflicti1174 – 11741K → I in AAD21553. 1 PublicationCurated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF088896 Genomic DNA. Translation: AAD21553.1. Different initiation.
    AE008692 Genomic DNA. Translation: AAV89817.2.
    RefSeqiYP_162928.2. NC_006526.2.

    Genome annotation databases

    EnsemblBacteriaiAAV89817; AAV89817; ZMO1193.
    GeneIDi3189286.
    KEGGizmo:ZMO1193.
    PATRICi32567678. VBIZymMob102260_1130.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF088896 Genomic DNA. Translation: AAD21553.1 . Different initiation.
    AE008692 Genomic DNA. Translation: AAV89817.2 .
    RefSeqi YP_162928.2. NC_006526.2.

    3D structure databases

    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 264203.ZMO1193.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai AAV89817 ; AAV89817 ; ZMO1193 .
    GeneIDi 3189286.
    KEGGi zmo:ZMO1193.
    PATRICi 32567678. VBIZymMob102260_1130.

    Phylogenomic databases

    eggNOGi COG1754.
    HOGENOMi HOG000004020.
    KOi K03168.

    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.
    IPR025589. Toprim_C_rpt.
    IPR006171. Toprim_domain.
    [Graphical view ]
    PANTHERi PTHR11390. PTHR11390. 1 hit.
    Pfami PF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    PF13368. Toprim_C_rpt. 3 hits.
    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. Lee H.J., Kang H.S.
      Submitted (AUG-1998) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
      Strain: ATCC 31821 / ZM4 / CP4.
    2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 31821 / ZM4 / CP4.

    Entry informationi

    Entry nameiTOP1_ZYMMO
    AccessioniPrimary (citable) accession number: Q9X3X7
    Secondary accession number(s): Q5NN93
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: June 20, 2001
    Last sequence update: March 23, 2010
    Last modified: October 1, 2014
    This is version 100 of the entry and version 3 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