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Q6IM78

- TOP1M_RAT

UniProt

Q6IM78 - TOP1M_RAT

Protein

DNA topoisomerase I, mitochondrial

Gene

Top1mt

Organism
Rattus norvegicus (Rat)
Status
Reviewed - Annotation score: 3 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 78 (01 Oct 2014)
      Sequence version 1 (05 Jul 2004)
      Previous versions | rss
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    Functioni

    Releases the supercoiling and torsional tension of DNA introduced during duplication of mitochondrial DNA 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-(3'-phosphotyrosyl)-enzyme intermediate and the expulsion of a 5'-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 5'-OH attacks the covalent intermediate to expel the active-site tyrosine and restore the DNA phosphodiester backbone By similarity.By similarity

    Catalytic activityi

    ATP-independent breakage of single-stranded DNA, followed by passage and rejoining.

    Cofactori

    Divalent metal ions (calcium or magnesium).By similarity

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sitei145 – 1451Interaction with DNABy similarity
    Sitei193 – 1931Interaction with DNABy similarity
    Sitei241 – 2411Interaction with DNABy similarity
    Sitei272 – 2721Interaction with DNABy similarity
    Sitei330 – 3301Interaction with DNABy similarity
    Sitei361 – 3611Interaction with DNABy similarity
    Sitei403 – 4031Interaction with DNABy similarity
    Sitei461 – 4611Interaction with DNABy similarity
    Sitei479 – 4791Interaction with DNABy similarity
    Active sitei551 – 5511O-(3'-phospho-DNA)-tyrosine intermediateBy similarity

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. DNA topoisomerase type I activity Source: RefGenome
    3. DNA topoisomerase type II (ATP-hydrolyzing) activity Source: InterPro

    GO - Biological processi

    1. DNA replication Source: RefGenome
    2. DNA topological change Source: RefGenome

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase I, mitochondrial (EC:5.99.1.2)
    Short name:
    TOP1mt
    Gene namesi
    Name:Top1mt
    OrganismiRattus norvegicus (Rat)
    Taxonomic identifieri10116 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
    ProteomesiUP000002494: Chromosome 7

    Organism-specific databases

    RGDi1303177. Top1mt.

    Subcellular locationi

    Mitochondrion By similarity

    GO - Cellular componenti

    1. chromosome Source: InterPro
    2. mitochondrial nucleoid Source: RefGenome

    Keywords - Cellular componenti

    Mitochondrion

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Transit peptidei1 – 4343MitochondrionBy similarityAdd
    BLAST
    Chaini44 – 593550DNA topoisomerase I, mitochondrialPRO_0000384395Add
    BLAST

    Proteomic databases

    PaxDbiQ6IM78.
    PRIDEiQ6IM78.

    Expressioni

    Gene expression databases

    GenevestigatoriQ6IM78.

    Interactioni

    Protein-protein interaction databases

    STRINGi10116.ENSRNOP00000009965.

    Structurei

    3D structure databases

    ProteinModelPortaliQ6IM78.
    SMRiQ6IM78. Positions 38-593.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Region

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Regioni254 – 2552Interaction with DNABy similarity
    Regioni317 – 3226Interaction with DNABy similarity
    Regioni414 – 4163Interaction with DNABy similarity

    Sequence similaritiesi

    Belongs to the type IB topoisomerase family.Curated

    Keywords - Domaini

    Transit peptide

    Phylogenomic databases

    eggNOGiCOG3569.
    GeneTreeiENSGT00390000016347.
    HOGENOMiHOG000105469.
    InParanoidiQ6IM78.
    KOiK03163.
    OMAiVINCSRD.
    OrthoDBiEOG7CVPX5.
    PhylomeDBiQ6IM78.
    TreeFamiTF105281.

    Family and domain databases

    Gene3Di1.10.10.41. 1 hit.
    1.10.132.10. 1 hit.
    2.170.11.10. 2 hits.
    3.90.15.10. 1 hit.
    InterProiIPR011010. DNA_brk_join_enz.
    IPR013034. DNA_topo_domain1.
    IPR001631. TopoI.
    IPR025834. TopoI_C_dom.
    IPR014711. TopoI_cat_a-hlx-sub_euk.
    IPR014727. TopoI_cat_a/b-sub_euk.
    IPR013500. TopoI_cat_euk.
    IPR008336. TopoI_DNA-bd_euk.
    IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
    IPR013499. TopoI_euk.
    [Graphical view]
    PfamiPF14370. Topo_C_assoc. 1 hit.
    PF01028. Topoisom_I. 1 hit.
    PF02919. Topoisom_I_N. 1 hit.
    [Graphical view]
    PRINTSiPR00416. EUTPISMRASEI.
    SMARTiSM00435. TOPEUc. 1 hit.
    [Graphical view]
    SUPFAMiSSF56349. SSF56349. 2 hits.
    SSF56741. SSF56741. 1 hit.

    Sequencei

    Sequence statusi: Complete.

    Sequence processingi: The displayed sequence is further processed into a mature form.

    Q6IM78-1 [UniParc]FASTAAdd to Basket

    « Hide

    MLLLWLRALC RRFQHVPRRV PSRQVSRGSK ASRAGWGETS KSSVKWKQLE    50
    HKGPCFAPAY EPLPDGVRFF YDGKPVRLSL AAEEVATFYG KMLHLECTTK 100
    EVFRRNFFSD WQKEMTAEER KLITHLDKCD FSEIHRHFME RAEARRTLPR 150
    EQKQKLKEEA EKLQQEFGYC ILDGHREKIG NFKTEPPGLF RGRGDHPKMG 200
    MLKRRVMPED VVINCSRDSK IPEPPAGHQW KEVRSDNTVM WLAAWVENIQ 250
    NSFKYIILNP SSKPKGEMDW QKYEVARRLK GVVDKIRAQY QADWKSPEMK 300
    KRQLAVALYF IDKLALRTGN EKEEGETADT VGCCSLRVEH VRLHTPADGQ 350
    EHVVELDFLG KDSIRYKNHV TVEKLVFQNL QHFMEDKDPR DDLFDALTTS 400
    SLNKHLQDLM EGLTAKVFRT YNASITLQEQ LRVLTRAEDS LTCKVLAYNR 450
    ANRAVAVLCN HQRAIPKTFE ESMQTLQKKI ETKKAQVAEA QVELQKAETD 500
    LRMRGDSKSK SFLQKQQRLL KLEEQLARLC TKATDKEENK QVALGTAKLN 550
    YLDPRISIAW CKRFGVPVEK IYNKTQRERF AWAFNQAGED FEF 593
    Length:593
    Mass (Da):69,011
    Last modified:July 5, 2004 - v1
    Checksum:i6B691D668970BD9E
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BK001786 mRNA. Translation: DAA02296.1.
    RefSeqiNP_001002798.1. NM_001002798.1.
    UniGeneiRn.31307.

    Genome annotation databases

    EnsembliENSRNOT00000009965; ENSRNOP00000009965; ENSRNOG00000007500.
    GeneIDi300029.
    KEGGirno:300029.
    UCSCiRGD:1303177. rat.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    BK001786 mRNA. Translation: DAA02296.1 .
    RefSeqi NP_001002798.1. NM_001002798.1.
    UniGenei Rn.31307.

    3D structure databases

    ProteinModelPortali Q6IM78.
    SMRi Q6IM78. Positions 38-593.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    STRINGi 10116.ENSRNOP00000009965.

    Proteomic databases

    PaxDbi Q6IM78.
    PRIDEi Q6IM78.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    Ensembli ENSRNOT00000009965 ; ENSRNOP00000009965 ; ENSRNOG00000007500 .
    GeneIDi 300029.
    KEGGi rno:300029.
    UCSCi RGD:1303177. rat.

    Organism-specific databases

    CTDi 116447.
    RGDi 1303177. Top1mt.

    Phylogenomic databases

    eggNOGi COG3569.
    GeneTreei ENSGT00390000016347.
    HOGENOMi HOG000105469.
    InParanoidi Q6IM78.
    KOi K03163.
    OMAi VINCSRD.
    OrthoDBi EOG7CVPX5.
    PhylomeDBi Q6IM78.
    TreeFami TF105281.

    Miscellaneous databases

    NextBioi 646149.
    PROi Q6IM78.

    Gene expression databases

    Genevestigatori Q6IM78.

    Family and domain databases

    Gene3Di 1.10.10.41. 1 hit.
    1.10.132.10. 1 hit.
    2.170.11.10. 2 hits.
    3.90.15.10. 1 hit.
    InterProi IPR011010. DNA_brk_join_enz.
    IPR013034. DNA_topo_domain1.
    IPR001631. TopoI.
    IPR025834. TopoI_C_dom.
    IPR014711. TopoI_cat_a-hlx-sub_euk.
    IPR014727. TopoI_cat_a/b-sub_euk.
    IPR013500. TopoI_cat_euk.
    IPR008336. TopoI_DNA-bd_euk.
    IPR013030. TopoI_DNA-bd_mixed-a/b_euk.
    IPR013499. TopoI_euk.
    [Graphical view ]
    Pfami PF14370. Topo_C_assoc. 1 hit.
    PF01028. Topoisom_I. 1 hit.
    PF02919. Topoisom_I_N. 1 hit.
    [Graphical view ]
    PRINTSi PR00416. EUTPISMRASEI.
    SMARTi SM00435. TOPEUc. 1 hit.
    [Graphical view ]
    SUPFAMi SSF56349. SSF56349. 2 hits.
    SSF56741. SSF56741. 1 hit.
    ProtoNeti Search...

    Publicationsi

    1. "Thirteen-exon-motif signature for vertebrate nuclear and mitochondrial type IB topoisomerases."
      Zhang H., Meng L.-H., Zimonjic D.B., Popescu N.C., Pommier Y.
      Nucleic Acids Res. 32:2087-2092(2004) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA].

    Entry informationi

    Entry nameiTOP1M_RAT
    AccessioniPrimary (citable) accession number: Q6IM78
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: September 22, 2009
    Last sequence update: July 5, 2004
    Last modified: October 1, 2014
    This is version 78 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programChordata 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