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O96651

- TOP3B_DROME

UniProt

O96651 - TOP3B_DROME

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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

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
Complete GO annotation...

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.

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 5-578.
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_dom.
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

        10         20         30         40         50
MKSVLMVAEK PSLAASLAGI LSNGRCTAKR GTGNGCSTHE WTGNFRNEGS
60 70 80 90 100
VHFRMTSVCG HVMSLDFNKK YNCWDKVDPI QLFGCATEKK ETNPKQNMRK
110 120 130 140 150
FLAHEARGCD YLVLWLDCDK EGENICFEVM DAVKHVINNV YSDQVTYRAH
160 170 180 190 200
FSAITEKDIK KAMETLGHPN ENEAKSVDAR QELDLRIGCA FTRFQTKFFQ
210 220 230 240 250
DRYGDLDSSL ISYGPCQTPT LGFCVKRHDD IQTFKPESFW HLQLLAGQPE
260 270 280 290 300
VTLEWARGRV FKKDIAIMLL NRVKEHKKAT VESVASKEAY KSKPQALNTV
310 320 330 340 350
ELMRICSSGL GIGPFQAMQI AERLYTQGYI SYPRTETNQY PTNFDLPAVL
360 370 380 390 400
HVLKPSADFG EEARSILGDI QTPRKGKDAG DHPPITPMKL GNRSDFDRDT
410 420 430 440 450
WRVYEFICRH FMGTVSRDLK YRVTTAKLSV GMETFSCTAS VLIDAGFTKV
460 470 480 490 500
MTWSAFGKDE PQPPFVQGTQ VAINDVRLIE SQTGPPDYLT ESELITLMEE
510 520 530 540 550
HGIGTDASIP VHINNICQRN YVHIENGRKL MPTTLGIVLV HGYQKIDPEL
560 570 580 590 600
VLPTMRTEVE RMLTLIAQGS ANFQDVLRHA IKIFKLKFMY FVKNIDSMDA
610 620 630 640 650
LFEVSFSPLA ESGKAHSRCG KCRRYMKYIQ TKPARLHCSH CDETYALPIG
660 670 680 690 700
NVKVYREFKC PLDDFDLLAF STGVKGRSYP FCPYCYNHPP FSDMPHLGGC
710 720 730 740 750
NTCTNANCPH SLNTLGISSC VECPTGVLVL DCTLAPTWKL GCNRCDVIIN
760 770 780 790 800
CFKGATKITV EEAKCQECGA QQVNVVYKSD KSKFKDGSEE KSGCIFCSAD
810 820 830 840 850
FSHLVEKHRA VASRPVRSGG GFRGGKAGRG GGGMGGAAFG SGGAVTAGGG
860 870
PNAGGGVRGS RVAKDKMGQL ASYFV
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_078504.4.
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_078504.4.
UniGenei Dm.2946.

3D structure databases

ProteinModelPortali O96651.
SMRi O96651. Positions 5-578.
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_dom.
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

« Hide 'large scale' publications
  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 29, 2014
This is version 117 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