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O96651

- TOP3B_DROME

UniProt

O96651 - TOP3B_DROME

Protein

DNA topoisomerase 3-beta

Gene

Top3beta

Organism
Drosophila melanogaster (Fruit fly)
Status
Reviewed - Annotation score: 4 out of 5- Experimental evidence at transcript leveli
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    • History
      Entry version 116 (01 Oct 2014)
      Sequence version 2 (01 Jun 2001)
      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. Weakly relaxes negative supercoils and displays a distinct preference for binding single-stranded DNA.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 sitei332 – 3321O-(5'-phospho-DNA)-tyrosine intermediateBy similarity

    GO - Molecular functioni

    1. DNA binding Source: UniProtKB-KW
    2. DNA topoisomerase activity Source: FlyBase
    3. DNA topoisomerase type I activity Source: UniProtKB-EC
    4. endodeoxyribonuclease activity Source: FlyBase

    GO - Biological processi

    1. DNA catabolic process, endonucleolytic Source: FlyBase
    2. DNA topological change Source: InterPro
    3. positive regulation of synapse assembly Source: FlyBase

    Keywords - Molecular functioni

    Isomerase, Topoisomerase

    Keywords - Ligandi

    DNA-binding

    Names & Taxonomyi

    Protein namesi
    Recommended name:
    DNA topoisomerase 3-beta (EC:5.99.1.2)
    Alternative name(s):
    DNA topoisomerase III beta
    Gene namesi
    Name:Top3beta
    Synonyms:TOP3
    ORF Names:CG3458
    OrganismiDrosophila melanogaster (Fruit fly)
    Taxonomic identifieri7227 [NCBI]
    Taxonomic lineageiEukaryotaMetazoaEcdysozoaArthropodaHexapodaInsectaPterygotaNeopteraEndopterygotaDipteraBrachyceraMuscomorphaEphydroideaDrosophilidaeDrosophilaSophophora
    ProteomesiUP000000803: Chromosome X

    Organism-specific databases

    FlyBaseiFBgn0026015. Top3beta.

    Subcellular locationi

    GO - Cellular componenti

    1. chromosome Source: InterPro

    PTM / Processingi

    Molecule processing

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Chaini1 – 875875DNA topoisomerase 3-betaPRO_0000145196Add
    BLAST

    Proteomic databases

    PaxDbiO96651.
    PRIDEiO96651.

    Expressioni

    Developmental stagei

    Expressed during the first 6 hours of embryonic development, levels decline during larval and pupal stages to increase again during adulthood.1 Publication

    Gene expression databases

    BgeeiO96651.

    Interactioni

    Protein-protein interaction databases

    BioGridi58054. 2 interactions.
    DIPiDIP-22155N.
    IntActiO96651. 1 interaction.

    Structurei

    3D structure databases

    ProteinModelPortaliO96651.
    SMRiO96651. Positions 1-606.
    ModBaseiSearch...
    MobiDBiSearch...

    Family & Domainsi

    Domains and Repeats

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Domaini3 – 153151ToprimPROSITE-ProRule annotationAdd
    BLAST

    Compositional bias

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Compositional biasi819 – 85941Gly-richAdd
    BLAST

    Sequence similaritiesi

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

    Phylogenomic databases

    eggNOGiCOG0550.
    GeneTreeiENSGT00530000063430.
    InParanoidiO96651.
    KOiK03165.
    OMAiPPFVQGT.
    OrthoDBiEOG7RBZ7N.
    PhylomeDBiO96651.

    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.

    O96651-1 [UniParc]FASTAAdd to Basket

    « Hide

    MKSVLMVAEK PSLAASLAGI LSNGRCTAKR GTGNGCSTHE WTGNFRNEGS    50
    VHFRMTSVCG HVMSLDFNKK YNCWDKVDPI QLFGCATEKK ETNPKQNMRK 100
    FLAHEARGCD YLVLWLDCDK EGENICFEVM DAVKHVINNV YSDQVTYRAH 150
    FSAITEKDIK KAMETLGHPN ENEAKSVDAR QELDLRIGCA FTRFQTKFFQ 200
    DRYGDLDSSL ISYGPCQTPT LGFCVKRHDD IQTFKPESFW HLQLLAGQPE 250
    VTLEWARGRV FKKDIAIMLL NRVKEHKKAT VESVASKEAY KSKPQALNTV 300
    ELMRICSSGL GIGPFQAMQI AERLYTQGYI SYPRTETNQY PTNFDLPAVL 350
    HVLKPSADFG EEARSILGDI QTPRKGKDAG DHPPITPMKL GNRSDFDRDT 400
    WRVYEFICRH FMGTVSRDLK YRVTTAKLSV GMETFSCTAS VLIDAGFTKV 450
    MTWSAFGKDE PQPPFVQGTQ VAINDVRLIE SQTGPPDYLT ESELITLMEE 500
    HGIGTDASIP VHINNICQRN YVHIENGRKL MPTTLGIVLV HGYQKIDPEL 550
    VLPTMRTEVE RMLTLIAQGS ANFQDVLRHA IKIFKLKFMY FVKNIDSMDA 600
    LFEVSFSPLA ESGKAHSRCG KCRRYMKYIQ TKPARLHCSH CDETYALPIG 650
    NVKVYREFKC PLDDFDLLAF STGVKGRSYP FCPYCYNHPP FSDMPHLGGC 700
    NTCTNANCPH SLNTLGISSC VECPTGVLVL DCTLAPTWKL GCNRCDVIIN 750
    CFKGATKITV EEAKCQECGA QQVNVVYKSD KSKFKDGSEE KSGCIFCSAD 800
    FSHLVEKHRA VASRPVRSGG GFRGGKAGRG GGGMGGAAFG SGGAVTAGGG 850
    PNAGGGVRGS RVAKDKMGQL ASYFV 875
    Length:875
    Mass (Da):96,973
    Last modified:June 1, 2001 - v2
    Checksum:i3A26520C10AB6057
    GO

    Experimental Info

    Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
    Sequence conflicti747 – 7471V → M in AAD13219. (PubMed:10636841)Curated

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF099909 mRNA. Translation: AAD13219.1.
    AE014298 Genomic DNA. Translation: AAF46144.1.
    BT016116 mRNA. Translation: AAV37001.1.
    RefSeqiNP_511059.2. NM_078504.3.
    UniGeneiDm.2946.

    Genome annotation databases

    EnsemblMetazoaiFBtr0070930; FBpp0070891; FBgn0026015.
    GeneIDi31565.
    KEGGidme:Dmel_CG3458.

    Cross-referencesi

    Sequence databases

    Select the link destinations:
    EMBL
    GenBank
    DDBJ
    Links Updated
    AF099909 mRNA. Translation: AAD13219.1 .
    AE014298 Genomic DNA. Translation: AAF46144.1 .
    BT016116 mRNA. Translation: AAV37001.1 .
    RefSeqi NP_511059.2. NM_078504.3.
    UniGenei Dm.2946.

    3D structure databases

    ProteinModelPortali O96651.
    SMRi O96651. Positions 1-606.
    ModBasei Search...
    MobiDBi Search...

    Protein-protein interaction databases

    BioGridi 58054. 2 interactions.
    DIPi DIP-22155N.
    IntActi O96651. 1 interaction.

    Proteomic databases

    PaxDbi O96651.
    PRIDEi O96651.

    Protocols and materials databases

    Structural Biology Knowledgebase Search...

    Genome annotation databases

    EnsemblMetazoai FBtr0070930 ; FBpp0070891 ; FBgn0026015 .
    GeneIDi 31565.
    KEGGi dme:Dmel_CG3458.

    Organism-specific databases

    CTDi 31565.
    FlyBasei FBgn0026015. Top3beta.

    Phylogenomic databases

    eggNOGi COG0550.
    GeneTreei ENSGT00530000063430.
    InParanoidi O96651.
    KOi K03165.
    OMAi PPFVQGT.
    OrthoDBi EOG7RBZ7N.
    PhylomeDBi O96651.

    Miscellaneous databases

    GenomeRNAii 31565.
    NextBioi 774220.
    PROi O96651.

    Gene expression databases

    Bgeei O96651.

    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. "Cloning and characterization of Drosophila topoisomerase IIIbeta. Relaxation of hypernegatively supercoiled DNA."
      Wilson T.M., Chen A.D., Hsieh T.-S.
      J. Biol. Chem. 275:1533-1540(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [MRNA], FUNCTION, DEVELOPMENTAL STAGE.
      Tissue: Embryo.
    2. "The genome sequence of Drosophila melanogaster."
      Adams M.D., Celniker S.E., Holt R.A., Evans C.A., Gocayne J.D., Amanatides P.G., Scherer S.E., Li P.W., Hoskins R.A., Galle R.F., George R.A., Lewis S.E., Richards S., Ashburner M., Henderson S.N., Sutton G.G., Wortman J.R., Yandell M.D.
      , Zhang Q., Chen L.X., Brandon R.C., Rogers Y.-H.C., Blazej R.G., Champe M., Pfeiffer B.D., Wan K.H., Doyle C., Baxter E.G., Helt G., Nelson C.R., Miklos G.L.G., Abril J.F., Agbayani A., An H.-J., Andrews-Pfannkoch C., Baldwin D., Ballew R.M., Basu A., Baxendale J., Bayraktaroglu L., Beasley E.M., Beeson K.Y., Benos P.V., Berman B.P., Bhandari D., Bolshakov S., Borkova D., Botchan M.R., Bouck J., Brokstein P., Brottier P., Burtis K.C., Busam D.A., Butler H., Cadieu E., Center A., Chandra I., Cherry J.M., Cawley S., Dahlke C., Davenport L.B., Davies P., de Pablos B., Delcher A., Deng Z., Mays A.D., Dew I., Dietz S.M., Dodson K., Doup L.E., Downes M., Dugan-Rocha S., Dunkov B.C., Dunn P., Durbin K.J., Evangelista C.C., Ferraz C., Ferriera S., Fleischmann W., Fosler C., Gabrielian A.E., Garg N.S., Gelbart W.M., Glasser K., Glodek A., Gong F., Gorrell J.H., Gu Z., Guan P., Harris M., Harris N.L., Harvey D.A., Heiman T.J., Hernandez J.R., Houck J., Hostin D., Houston K.A., Howland T.J., Wei M.-H., Ibegwam C., Jalali M., Kalush F., Karpen G.H., Ke Z., Kennison J.A., Ketchum K.A., Kimmel B.E., Kodira C.D., Kraft C.L., Kravitz S., Kulp D., Lai Z., Lasko P., Lei Y., Levitsky A.A., Li J.H., Li Z., Liang Y., Lin X., Liu X., Mattei B., McIntosh T.C., McLeod M.P., McPherson D., Merkulov G., Milshina N.V., Mobarry C., Morris J., Moshrefi A., Mount S.M., Moy M., Murphy B., Murphy L., Muzny D.M., Nelson D.L., Nelson D.R., Nelson K.A., Nixon K., Nusskern D.R., Pacleb J.M., Palazzolo M., Pittman G.S., Pan S., Pollard J., Puri V., Reese M.G., Reinert K., Remington K., Saunders R.D.C., Scheeler F., Shen H., Shue B.C., Siden-Kiamos I., Simpson M., Skupski M.P., Smith T.J., Spier E., Spradling A.C., Stapleton M., Strong R., Sun E., Svirskas R., Tector C., Turner R., Venter E., Wang A.H., Wang X., Wang Z.-Y., Wassarman D.A., Weinstock G.M., Weissenbach J., Williams S.M., Woodage T., Worley K.C., Wu D., Yang S., Yao Q.A., Ye J., Yeh R.-F., Zaveri J.S., Zhan M., Zhang G., Zhao Q., Zheng L., Zheng X.H., Zhong F.N., Zhong W., Zhou X., Zhu S.C., Zhu X., Smith H.O., Gibbs R.A., Myers E.W., Rubin G.M., Venter J.C.
      Science 287:2185-2195(2000) [PubMed] [Europe PMC] [Abstract]
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
      Strain: Berkeley.
    3. Cited for: GENOME REANNOTATION.
      Strain: Berkeley.
    4. Stapleton M., Carlson J.W., Chavez C., Frise E., George R.A., Pacleb J.M., Park S., Wan K.H., Yu C., Rubin G.M., Celniker S.E.
      Submitted (OCT-2004) to the EMBL/GenBank/DDBJ databases
      Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
      Strain: Berkeley.
      Tissue: Embryo.

    Entry informationi

    Entry nameiTOP3B_DROME
    AccessioniPrimary (citable) accession number: O96651
    Secondary accession number(s): Q5U0X6, Q9W416
    Entry historyi
    Integrated into UniProtKB/Swiss-Prot: May 30, 2000
    Last sequence update: June 1, 2001
    Last modified: October 1, 2014
    This is version 116 of the entry and version 2 of the sequence. [Complete history]
    Entry statusiReviewed (UniProtKB/Swiss-Prot)
    Annotation programDrosophila annotation project

    Miscellaneousi

    Keywords - Technical termi

    Complete proteome, Reference proteome

    Documents

    1. Drosophila
      Drosophila: entries, gene names and cross-references to FlyBase
    2. SIMILARITY comments
      Index of protein domains and families

    External Data

    Dasty 3