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P34185

- TOP1_SYNE7

UniProt

P34185 - TOP1_SYNE7

Protein

DNA topoisomerase 1

Gene

topA

Organism
Synechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
Status
Reviewed - Annotation score: 4 out of 5- Protein inferred from homologyi
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    • History
      Entry version 102 (01 Oct 2014)
      Sequence version 2 (18 Apr 2006)
      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 bindingi95 – 951Magnesium 1; catalyticUniRule annotation
    Metal bindingi95 – 951Magnesium 2UniRule annotation
    Metal bindingi97 – 971Magnesium 2UniRule annotation
    Sitei151 – 1511Interaction with DNAUniRule annotation
    Sitei152 – 1521Interaction with DNAUniRule annotation
    Sitei155 – 1551Interaction with DNAUniRule annotation
    Sitei160 – 1601Interaction with DNAUniRule annotation
    Sitei167 – 1671Interaction with DNAUniRule annotation
    Active sitei320 – 3201O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
    Sitei322 – 3221Interaction with DNAUniRule annotation
    Sitei515 – 5151Interaction with DNAUniRule annotation

    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

    Enzyme and pathway databases

    BioCyciSYNEL:SYNPCC7942_1416-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:Synpcc7942_1416
    OrganismiSynechococcus elongatus (strain PCC 7942) (Anacystis nidulans R2)
    Taxonomic identifieri1140 [NCBI]
    Taxonomic lineageiBacteriaCyanobacteriaOscillatoriophycideaeChroococcalesSynechococcus
    ProteomesiUP000002717: Chromosome

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 883883DNA topoisomerase 1PRO_0000145167Add
    BLAST

    Interactioni

    Subunit structurei

    Monomer.

    Protein-protein interaction databases

    STRINGi1140.Synpcc7942_1416.

    Structurei

    3D structure databases

    ProteinModelPortaliP34185.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 126125ToprimUniRule annotationAdd
    BLAST

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni175 – 1806Interaction with DNAUniRule annotation

    Sequence similaritiesi

    Belongs to the type IA topoisomerase family.UniRule annotation
    Contains 1 Toprim domain.UniRule annotation

    Phylogenomic databases

    eggNOGiCOG1754.
    HOGENOMiHOG000004020.
    KOiK03168.
    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.
    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.
    [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.

    P34185-1 [UniParc]FASTAAdd to Basket

    « Hide

    MPKLVIVESP TKARTIRNYL PKDYRVEASM GHVRDLPQSA SDIPTELKGE    50
    KWSNLGVDVE NNFAPLYIVP KDKKKIVKTL KDALKDADEL ILATDEDREG 100
    ESISWHLLQL LQPRVPTKRM VFHEITQEAI QAALKNCRDV DQRLVHAQET 150
    RRILDRLVGY TLSPLLWKKI AWGLSAGRVQ SVAVRLLVQR ERARRAFRQG 200
    SYWDLKAQLT VEAGQFEAKL WTLAGQRLAT GNDFDESTGQ IIAGRQVCLL 250
    DQQEAEALRD RLQTQPWQVK SLEEKPTTRK PAPPFTTSTL QQESNRKLRL 300
    SARETMRVAQ SLYERGFITY MRTDSVHLSQ QAIEAARSCV EQMYGKNYLS 350
    PQPRQFTTKS KNAQEAHEAI RPAGNTFRLP QETGLSGAEF ALYDLIWKRT 400
    IASQMAEARQ TMLSVLLEVD NAEFRASGKR IDFPGFFRAY VEGSDDPDAA 450
    LEDREILLPA LKVGDRPTCQ ELAAIGHETQ PPARYTEASL VKMLENEGIG 500
    RPSTYASIIG TIVDRGYAQL VSNTLTPTFT AFAVTALLEQ HFPDLVDTSF 550
    SARMEQSLDD ISNGEVDWLP YLSQFYRGDR GLEEQVKLRE SEIDPAAART 600
    VALEGLPAKV RIGRFGAYLE AEADGEPIKA NLPKELTPAD LDVQRVETLL 650
    RQKTEGPDQL GTHPETDEPI YLLTGAYGPY VQLGAATEEK PKPKRASLPK 700
    GMSLETISLE QAVGLLSLPR TLGEHPETGR RIQAGLGRFG PYVVCDLGGG 750
    EKDYRSLKAD DDVLTIDLDR ALELLAQPKK SRGRGKEPIR EVGLHPDDQA 800
    PIQIFEGPYG LYLKHGKVNA SLPEDEKPET ISLETAVAAL AAKAGQAKAK 850
    GGRRSTGTPK SGETKARTTK TTKKTTTRRT TSR 883
    Length:883
    Mass (Da):98,296
    Last modified:April 18, 2006 - v2
    Checksum:iC90DAC6EE1202B9A
    GO

    Sequence cautioni

    The sequence CAA51086.1 differs from that shown. Reason: Frameshift at several positions.

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti101 – 1022ES → KV in CAA51086. (PubMed:7659748)Curated
    Sequence conflicti392 – 3921L → V in CAA51086. (PubMed:7659748)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X72391 Genomic DNA. Translation: CAA51086.1. Frameshift.
    CP000100 Genomic DNA. Translation: ABB57446.1.
    PIRiS32158.
    RefSeqiYP_400433.1. NC_007604.1.

    Genome annotation databases

    EnsemblBacteriaiABB57446; ABB57446; Synpcc7942_1416.
    GeneIDi3774129.
    KEGGisyf:Synpcc7942_1416.
    PATRICi23788179. VBISynElo51371_1616.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    X72391 Genomic DNA. Translation: CAA51086.1 . Frameshift.
    CP000100 Genomic DNA. Translation: ABB57446.1 .
    PIRi S32158.
    RefSeqi YP_400433.1. NC_007604.1.

    3D structure databases

    ProteinModelPortali P34185.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 1140.Synpcc7942_1416.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblBacteriai ABB57446 ; ABB57446 ; Synpcc7942_1416 .
    GeneIDi 3774129.
    KEGGi syf:Synpcc7942_1416.
    PATRICi 23788179. VBISynElo51371_1616.

    Phylogenomic databases

    eggNOGi COG1754.
    HOGENOMi HOG000004020.
    KOi K03168.
    OrthoDBi EOG6S7XQ9.

    Enzyme and pathway databases

    BioCyci SYNEL:SYNPCC7942_1416-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.
    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.
    [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. "The genomic region of rbcLS in Synechococcus sp. PCC 7942 contains genes involved in the ability to grow under low CO2 concentration and in chlorophyll biosynthesis."
      Ronen-Tarazi M., Lieman-Hurwitz J., Gabay C., Orus M.I., Kaplan A.
      Plant Physiol. 108:1461-1469(1995) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
    2. "Complete sequence of chromosome 1 of Synechococcus elongatus PCC 7942."
      US DOE Joint Genome Institute
      Copeland A., Lucas S., Lapidus A., Barry K., Detter J.C., Glavina T., Hammon N., Israni S., Pitluck S., Schmutz J., Larimer F., Land M., Kyrpides N., Lykidis A., Richardson P.
      Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: PCC 7942.

    Entry informationi

    Entry nameiTOP1_SYNE7
    AccessioniPrimary (citable) accession number: P34185
    Secondary accession number(s): Q31NC3
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: February 1, 1994
    Last sequence update: April 18, 2006
    Last modified: October 1, 2014
    This is version 102 of the entry and version 2 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