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P13099

- TOP3_YEAST

UniProt

P13099 - TOP3_YEAST

Protein

DNA topoisomerase 3

Gene

TOP3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed - Annotation score: 5 out of 5- Experimental evidence at protein leveli
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    • History
      Entry version 136 (01 Oct 2014)
      Sequence version 1 (01 Jan 1990)
      Previous versions | rss
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    Functioni

    Releases the supercoiling and torsional tension of DNA 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 than 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 By similarity. Essential for proper chromosome segregation in both meiosis and mitosis. Weakly relaxes negative supercoils and displays a distinct preference for binding single-stranded DNA. The TOP3-SGS1 protein complex may function as a eukaryotic reverse gyrase introducing positive supercoils into extrachromosomal ribosomal DNA rings.By similarity1 Publication

    Catalytic activityi

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

    Sites

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Active sitei356 – 3561O-(5'-phospho-DNA)-tyrosine intermediateBy similarity

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. DNA topoisomerase activity Source: SGD
    3. DNA topoisomerase type I activity Source: SGD
    4. protein binding Source: IntAct

    GO - Biological processi

    1. DNA topological change Source: SGD
    2. mitotic sister chromatid cohesion Source: SGD
    3. reciprocal meiotic recombination Source: SGD
    4. regulation of DNA recombination Source: SGD
    5. telomere maintenance via telomerase Source: SGD

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding

    Enzyme and pathway databases

    BioCyciYEAST:G3O-32345-MONOMER.

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 3 (EC:5.99.1.2)
    Alternative name(s):
    DNA topoisomerase III
    Gene namesi
    Name:TOP3
    Synonyms:EDR1
    Ordered Locus Names:YLR234W
    ORF Names:L8083.3
    OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
    Taxonomic identifieri559292 [NCBI]
    Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
    ProteomesiUP000002311: Chromosome XII

    Organism-specific databases

    CYGDiYLR234w.
    SGDiS000004224. TOP3.

    Subcellular locationi

    GO - Cellular componenti

    1. nucleus Source: SGD
    2. RecQ helicase-Topo III complex Source: SGD

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 656656DNA topoisomerase 3PRO_0000145198Add
    BLAST

    Proteomic databases

    MaxQBiP13099.
    PaxDbiP13099.
    PeptideAtlasiP13099.

    Expressioni

    Gene expression databases

    GenevestigatoriP13099.

    Interactioni

    Subunit structurei

    Forms a complex with SGS1 and RMI1. Interacts with SGS1.2 Publications

    Binary interactionsi

    WithEntry#Exp.IntActNotes
    SGS1P351873EBI-19365,EBI-17059

    Protein-protein interaction databases

    BioGridi31503. 106 interactions.
    DIPiDIP-2912N.
    IntActiP13099. 3 interactions.
    MINTiMINT-442624.
    STRINGi4932.YLR234W.

    Structurei

    3D structure databases

    ProteinModelPortaliP13099.
    SMRiP13099. Positions 2-633.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini2 – 156155ToprimPROSITE-ProRule annotationAdd
    BLAST

    Sequence similaritiesi

    Belongs to the type IA topoisomerase family.Curated
    Contains 1 Toprim domain.PROSITE-ProRule annotation

    Phylogenomic databases

    eggNOGiCOG0550.
    GeneTreeiENSGT00530000063430.
    HOGENOMiHOG000184377.
    KOiK03165.
    OMAiARFSNTE.
    OrthoDBiEOG7Q8CWW.

    Family and domain databases

    Gene3Di1.10.290.10. 1 hit.
    1.10.460.10. 2 hits.
    3.40.50.140. 1 hit.
    InterProiIPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013826. Topo_IA_cen_sub3.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR006171. Toprim_domain.
    [Graphical view]
    PANTHERiPTHR11390. PTHR11390. 1 hit.
    PfamiPF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 1 hit.
    [Graphical view]
    PRINTSiPR00417. PRTPISMRASEI.
    SMARTiSM00437. TOP1Ac. 1 hit.
    SM00436. TOP1Bc. 1 hit.
    SM00493. TOPRIM. 1 hit.
    [Graphical view]
    SUPFAMiSSF56712. SSF56712. 1 hit.
    PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view]

    Sequencei

    Sequence statusi: Complete.

    P13099-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKVLCVAEKN SIAKAVSQIL GGGRSTSRDS GYMYVKNYDF MFSGFPFARN    50
    GANCEVTMTS VAGHLTGIDF SHDSHGWGKC AIQELFDAPL NEIMNNNQKK 100
    IASNIKREAR NADYLMIWTD CDREGEYIGW EIWQEAKRGN RLIQNDQVYR 150
    AVFSHLERQH ILNAARNPSR LDMKSVHAVG TRIEIDLRAG VTFTRLLTET 200
    LRNKLRNQAT MTKDGAKHRG GNKNDSQVVS YGTCQFPTLG FVVDRFERIR 250
    NFVPEEFWYI QLVVENKDNG GTTTFQWDRG HLFDRLSVLT FYETCIETAG 300
    NVAQVVDLKS KPTTKYRPLP LTTVELQKNC ARYLRLNAKQ SLDAAEKLYQ 350
    KGFISYPRTE TDTFPHAMDL KSLVEKQAQL DQLAAGGRTA WASYAASLLQ 400
    PENTSNNNKF KFPRSGSHDD KAHPPIHPIV SLGPEANVSP VERRVYEYVA 450
    RHFLACCSED AKGQSMTLVL DWAVERFSAS GLVVLERNFL DVYPWARWET 500
    TKQLPRLEMN ALVDIAKAEM KAGTTAPPKP MTESELILLM DTNGIGTDAT 550
    IAEHIDKIQV RNYVRSEKVG KETYLQPTTL GVSLVHGFEA IGLEDSFAKP 600
    FQRREMEQDL KKICEGHASK TDVVKDIVEK YRKYWHKTNA CKNTLLQVYD 650
    RVKASM 656
    Length:656
    Mass (Da):74,371
    Last modified:January 1, 1990 - v1
    Checksum:i51DF78936A88B4F4
    GO

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M24939 Genomic DNA. Translation: AAA35161.1.
    U19027 Genomic DNA. Translation: AAB67406.1.
    BK006945 Genomic DNA. Translation: DAA09550.1.
    PIRiA33169. ISBYT3.
    RefSeqiNP_013335.1. NM_001182121.1.

    Genome annotation databases

    EnsemblFungiiYLR234W; YLR234W; YLR234W.
    GeneIDi850935.
    KEGGisce:YLR234W.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    M24939 Genomic DNA. Translation: AAA35161.1 .
    U19027 Genomic DNA. Translation: AAB67406.1 .
    BK006945 Genomic DNA. Translation: DAA09550.1 .
    PIRi A33169. ISBYT3.
    RefSeqi NP_013335.1. NM_001182121.1.

    3D structure databases

    ProteinModelPortali P13099.
    SMRi P13099. Positions 2-633.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 31503. 106 interactions.
    DIPi DIP-2912N.
    IntActi P13099. 3 interactions.
    MINTi MINT-442624.
    STRINGi 4932.YLR234W.

    Proteomic databases

    MaxQBi P13099.
    PaxDbi P13099.
    PeptideAtlasi P13099.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblFungii YLR234W ; YLR234W ; YLR234W .
    GeneIDi 850935.
    KEGGi sce:YLR234W.

    Organism-specific databases

    CYGDi YLR234w.
    SGDi S000004224. TOP3.

    Phylogenomic databases

    eggNOGi COG0550.
    GeneTreei ENSGT00530000063430.
    HOGENOMi HOG000184377.
    KOi K03165.
    OMAi ARFSNTE.
    OrthoDBi EOG7Q8CWW.

    Enzyme and pathway databases

    BioCyci YEAST:G3O-32345-MONOMER.

    Miscellaneous databases

    NextBioi 967378.
    PROi P13099.

    Gene expression databases

    Genevestigatori P13099.

    Family and domain databases

    Gene3Di 1.10.290.10. 1 hit.
    1.10.460.10. 2 hits.
    3.40.50.140. 1 hit.
    InterProi IPR000380. Topo_IA.
    IPR003601. Topo_IA_2.
    IPR023406. Topo_IA_AS.
    IPR013497. Topo_IA_cen.
    IPR013824. Topo_IA_cen_sub1.
    IPR013826. Topo_IA_cen_sub3.
    IPR023405. Topo_IA_core_domain.
    IPR003602. Topo_IA_DNA-bd.
    IPR006171. Toprim_domain.
    [Graphical view ]
    PANTHERi PTHR11390. PTHR11390. 1 hit.
    Pfami PF01131. Topoisom_bac. 1 hit.
    PF01751. Toprim. 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. 1 hit.
    PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
    PS50880. TOPRIM. 1 hit.
    [Graphical view ]
    ProtoNeti Search...

    Publicationsi

    1. "A hyper-recombination mutation in S. cerevisiae identifies a novel eukaryotic topoisomerase."
      Wallis J.W., Chrebet G., Brodsky G., Rolfe M., Rothstein R.
      Cell 58:409-419(1989) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
    2. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
      Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
      , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
      Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: ATCC 204508 / S288c.
    3. Cited for: GENOME REANNOTATION.
      Strain: ATCC 204508 / S288c.
    4. "An essential yeast protein, CBF5p, binds in vitro to centromeres and microtubules."
      Jiang W., Middleton K., Yoon H.-J., Fouquet C., Carbon J.
      Mol. Cell. Biol. 13:4884-4893(1993) [PubMed] [Europe PMC] [Abstract]
      Cited for: PROTEIN SEQUENCE OF 578-592; 605-615; 794-805 AND 1038-1046.
    5. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
    6. "RMI1/NCE4, a suppressor of genome instability, encodes a member of the RecQ helicase/Topo III complex."
      Chang M., Bellaoui M., Zhang C., Desai R., Morozov P., Delgado-Cruzata L., Rothstein R., Freyer G.A., Boone C., Brown G.W.
      EMBO J. 24:2024-2033(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBUNIT.
    7. "Yeast Rmi1/Nce4 controls genome stability as a subunit of the Sgs1-Top3 complex."
      Mullen J.R., Nallaseth F.S., Lan Y.Q., Slagle C.E., Brill S.J.
      Mol. Cell. Biol. 25:4476-4487(2005) [PubMed] [Europe PMC] [Abstract]
      Cited for: SUBUNIT.

    Entry informationi

    Entry nameiTOP3_YEAST
    AccessioniPrimary (citable) accession number: P13099
    Secondary accession number(s): D6VYN4
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: January 1, 1990
    Last sequence update: January 1, 1990
    Last modified: October 1, 2014
    This is version 136 of the entry and version 1 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programFungal Protein Annotation Program

    Miscellaneousi

    Miscellaneous

    Present with 468 molecules/cell in log phase SD medium.1 Publication

    Keywords - Technical termi

    Complete proteome, Direct protein sequencing, Reference proteome

    Documents

    1. SIMILARITY comments
      Index of protein domains and families
    2. Yeast
      Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
    3. Yeast chromosome XII
      Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

    External Data

    Dasty 3