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Protein

DNA topoisomerase 3

Gene

top3

Organism
Schizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein 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).By similarity

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 sitei330 – 3301O-(5'-phospho-DNA)-tyrosine intermediateBy similarity

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: UniProtKB-EC

GO - Biological processi

  1. DNA metabolic process Source: PomBase
  2. DNA topological change Source: InterPro
  3. maintenance of rDNA Source: PomBase
  4. mitotic DNA replication Source: PomBase
  5. mitotic sister chromatid segregation Source: PomBase
  6. nucleolus organization Source: PomBase
  7. postreplication repair Source: PomBase
  8. resolution of meiotic recombination intermediates Source: PomBase
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 3 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase III
Gene namesi
Name:top3
ORF Names:SPBC16G5.12c
OrganismiSchizosaccharomyces pombe (strain 972 / ATCC 24843) (Fission yeast)
Taxonomic identifieri284812 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaTaphrinomycotinaSchizosaccharomycetesSchizosaccharomycetalesSchizosaccharomycetaceaeSchizosaccharomyces
ProteomesiUP000002485: Chromosome II

Organism-specific databases

PomBaseiSPBC16G5.12c.

Subcellular locationi

GO - Cellular componenti

  1. mitochondrion Source: PomBase
  2. nucleus Source: PomBase
  3. RecQ helicase-Topo III complex Source: PomBase
  4. site of double-strand break Source: PomBase
Complete GO annotation...

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 622622DNA topoisomerase 3PRO_0000145197Add
BLAST

Proteomic databases

MaxQBiO60126.

Interactioni

Subunit structurei

Interacts with hus2.1 Publication

Protein-protein interaction databases

BioGridi276427. 12 interactions.
MINTiMINT-4677412.
STRINGi4896.SPBC16G5.12c-1.

Structurei

3D structure databases

ProteinModelPortaliO60126.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 148147ToprimPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0550.
HOGENOMiHOG000184377.
InParanoidiO60126.
KOiK03165.
OMAiDKIILAC.
OrthoDBiEOG7Q8CWW.
PhylomeDBiO60126.

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.

O60126-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MRVLCVAEKN SIAKSVASIL GGGHVRRRDT RSKYVKNYDF SFNFGGNVGS
60 70 80 90 100
SDVTMTSVSG HLTEASFPSE YSSWSSVPQD VLFDAQIITS VSKNAEVLAD
110 120 130 140 150
NIKKEARNAQ YLYIWTDCDR EGEHIGVEIS NVARASNPSI QVIRADFNNL
160 170 180 190 200
ERSHIISAAK RPRDVSKNAA DAVDARIELD FRLGAIFTRL QTIQLQKSFD
210 220 230 240 250
ILQNKIISYG PCQFPTLGFV VDRWQRVEDF VPETYWHLRF VDKRQGKTIQ
260 270 280 290 300
FNWERAKVFD RLTTMIILEN CLECKTAKVV NITQKPKTKY KPLPLSTVEL
310 320 330 340 350
TKLGPKHLRI SAKKTLELAE NLYTNGFVSY PRTETDQFDS SMNLHAIIQK
360 370 380 390 400
LTGAQEWDSY AEGLLAGDYR PPRKGKHNDR AHPPIHPVQM VHRSALPSQD
410 420 430 440 450
HWKVYELITR RFLACCSDNA KGAETLVQVK MEEELFSKKG LLVTEKNYLE
460 470 480 490 500
VYPYEKWESS DQLPEYRLHE EFQPHILDMM DSSTSSPSYI TEPELIALMD
510 520 530 540 550
ANGIGTDATM AEHIEKVQER EYVIKRKKRG QGVTEFVPSS LGVALAKGYD
560 570 580 590 600
EIGLEWSLTK PFLRKEMEVQ LKNIENGQLN RNVLVHMILT QFRDVFHLTK
610 620
QRFDCLKNSC RVYLMSHNEP QT
Length:622
Mass (Da):71,169
Last modified:May 1, 1999 - v2
Checksum:iEF291B1717EB58C0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF126287 mRNA. Translation: AAD22485.2.
CU329671 Genomic DNA. Translation: CAA19038.1.
PIRiT39604.
RefSeqiNP_596761.1. NM_001023781.2.

Genome annotation databases

EnsemblFungiiSPBC16G5.12c.1; SPBC16G5.12c.1:pep; SPBC16G5.12c.
GeneIDi2539881.
KEGGispo:SPBC16G5.12c.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF126287 mRNA. Translation: AAD22485.2.
CU329671 Genomic DNA. Translation: CAA19038.1.
PIRiT39604.
RefSeqiNP_596761.1. NM_001023781.2.

3D structure databases

ProteinModelPortaliO60126.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi276427. 12 interactions.
MINTiMINT-4677412.
STRINGi4896.SPBC16G5.12c-1.

Proteomic databases

MaxQBiO60126.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiSPBC16G5.12c.1; SPBC16G5.12c.1:pep; SPBC16G5.12c.
GeneIDi2539881.
KEGGispo:SPBC16G5.12c.

Organism-specific databases

PomBaseiSPBC16G5.12c.

Phylogenomic databases

eggNOGiCOG0550.
HOGENOMiHOG000184377.
InParanoidiO60126.
KOiK03165.
OMAiDKIILAC.
OrthoDBiEOG7Q8CWW.
PhylomeDBiO60126.

Miscellaneous databases

NextBioi20801026.
PROiO60126.

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]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The top3+ gene is essential in Schizosaccharomyces pombe and the lethality associated with its loss is caused by Rad12 helicase activity."
    Maftahi M., Han C.S., Langston L.D., Hope J.C., Zigouras N., Freyer G.A.
    Nucleic Acids Res. 27:4715-4724(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: 972 / ATCC 24843.
  2. "The genome sequence of Schizosaccharomyces pombe."
    Wood V., Gwilliam R., Rajandream M.A., Lyne M.H., Lyne R., Stewart A., Sgouros J.G., Peat N., Hayles J., Baker S.G., Basham D., Bowman S., Brooks K., Brown D., Brown S., Chillingworth T., Churcher C.M., Collins M.
    , Connor R., Cronin A., Davis P., Feltwell T., Fraser A., Gentles S., Goble A., Hamlin N., Harris D.E., Hidalgo J., Hodgson G., Holroyd S., Hornsby T., Howarth S., Huckle E.J., Hunt S., Jagels K., James K.D., Jones L., Jones M., Leather S., McDonald S., McLean J., Mooney P., Moule S., Mungall K.L., Murphy L.D., Niblett D., Odell C., Oliver K., O'Neil S., Pearson D., Quail M.A., Rabbinowitsch E., Rutherford K.M., Rutter S., Saunders D., Seeger K., Sharp S., Skelton J., Simmonds M.N., Squares R., Squares S., Stevens K., Taylor K., Taylor R.G., Tivey A., Walsh S.V., Warren T., Whitehead S., Woodward J.R., Volckaert G., Aert R., Robben J., Grymonprez B., Weltjens I., Vanstreels E., Rieger M., Schaefer M., Mueller-Auer S., Gabel C., Fuchs M., Duesterhoeft A., Fritzc C., Holzer E., Moestl D., Hilbert H., Borzym K., Langer I., Beck A., Lehrach H., Reinhardt R., Pohl T.M., Eger P., Zimmermann W., Wedler H., Wambutt R., Purnelle B., Goffeau A., Cadieu E., Dreano S., Gloux S., Lelaure V., Mottier S., Galibert F., Aves S.J., Xiang Z., Hunt C., Moore K., Hurst S.M., Lucas M., Rochet M., Gaillardin C., Tallada V.A., Garzon A., Thode G., Daga R.R., Cruzado L., Jimenez J., Sanchez M., del Rey F., Benito J., Dominguez A., Revuelta J.L., Moreno S., Armstrong J., Forsburg S.L., Cerutti L., Lowe T., McCombie W.R., Paulsen I., Potashkin J., Shpakovski G.V., Ussery D., Barrell B.G., Nurse P.
    Nature 415:871-880(2002) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: 972 / ATCC 24843.
  3. "Role for the fission yeast RecQ helicase in DNA repair in G2."
    Laursen L.V., Ampatzidou E., Andersen A.H., Murray J.M.
    Mol. Cell. Biol. 23:3692-3705(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH HUS2.

Entry informationi

Entry nameiTOP3_SCHPO
AccessioniPrimary (citable) accession number: O60126
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: May 1, 1999
Last modified: February 4, 2015
This is version 116 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Schizosaccharomyces pombe
    Schizosaccharomyces pombe: entries and gene names
  2. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into Uniref entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.