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Protein

DNA topoisomerase 3

Gene

TOP3

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -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). 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

Miscellaneous

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

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei356O-(5'-phospho-DNA)-tyrosine intermediateBy similarity1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • DNA topoisomerase activity Source: SGD
  • DNA topoisomerase type I activity Source: SGD

GO - Biological processi

  • DNA topological change Source: SGD
  • mitotic sister chromatid cohesion Source: SGD
  • reciprocal meiotic recombination Source: SGD
  • regulation of DNA recombination Source: SGD
  • telomere maintenance via telomerase Source: SGD

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase

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
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR234W
SGDiS000004224 TOP3

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cell wall Cytoskeleton Vacuole Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001451981 – 656DNA topoisomerase 3Add BLAST656

Proteomic databases

MaxQBiP13099
PaxDbiP13099
PRIDEiP13099

Interactioni

Subunit structurei

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

Binary interactionsi

Show more details

Protein-protein interaction databases

BioGridi31503, 221 interactors
ComplexPortaliCPX-1071 RecQ helicase-Topo III complex
DIPiDIP-2912N
IntActiP13099, 5 interactors
MINTiP13099
STRINGi4932.YLR234W

Structurei

3D structure databases

ProteinModelPortaliP13099
SMRiP13099
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 156ToprimPROSITE-ProRule annotationAdd BLAST155

Sequence similaritiesi

Belongs to the type IA topoisomerase family.Curated

Phylogenomic databases

GeneTreeiENSGT00530000063430
HOGENOMiHOG000184377
InParanoidiP13099
KOiK03165
OMAiTYPRVDT
OrthoDBiEOG092C0ZT0

Family and domain databases

CDDicd00186 TOP1Ac, 1 hit
cd03362 TOPRIM_TopoIA_TopoIII, 1 hit
Gene3Di1.10.290.10, 1 hit
1.10.460.10, 2 hits
2.70.20.10, 2 hits
InterProiView protein in InterPro
IPR000380 Topo_IA
IPR003601 Topo_IA_2
IPR023406 Topo_IA_AS
IPR013497 Topo_IA_cen
IPR013824 Topo_IA_cen_sub1
IPR013825 Topo_IA_cen_sub2
IPR013826 Topo_IA_cen_sub3
IPR023405 Topo_IA_core_domain
IPR003602 Topo_IA_DNA-bd_dom
IPR006171 TOPRIM_domain
IPR034144 TOPRIM_TopoIII
PANTHERiPTHR11390 PTHR11390, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PRINTSiPR00417 PRTPISMRASEI
SMARTiView protein in SMART
SM00437 TOP1Ac, 1 hit
SM00436 TOP1Bc, 1 hit
SM00493 TOPRIM, 1 hit
SUPFAMiSSF56712 SSF56712, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

P13099-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKVLCVAEKN SIAKAVSQIL GGGRSTSRDS GYMYVKNYDF MFSGFPFARN
60 70 80 90 100
GANCEVTMTS VAGHLTGIDF SHDSHGWGKC AIQELFDAPL NEIMNNNQKK
110 120 130 140 150
IASNIKREAR NADYLMIWTD CDREGEYIGW EIWQEAKRGN RLIQNDQVYR
160 170 180 190 200
AVFSHLERQH ILNAARNPSR LDMKSVHAVG TRIEIDLRAG VTFTRLLTET
210 220 230 240 250
LRNKLRNQAT MTKDGAKHRG GNKNDSQVVS YGTCQFPTLG FVVDRFERIR
260 270 280 290 300
NFVPEEFWYI QLVVENKDNG GTTTFQWDRG HLFDRLSVLT FYETCIETAG
310 320 330 340 350
NVAQVVDLKS KPTTKYRPLP LTTVELQKNC ARYLRLNAKQ SLDAAEKLYQ
360 370 380 390 400
KGFISYPRTE TDTFPHAMDL KSLVEKQAQL DQLAAGGRTA WASYAASLLQ
410 420 430 440 450
PENTSNNNKF KFPRSGSHDD KAHPPIHPIV SLGPEANVSP VERRVYEYVA
460 470 480 490 500
RHFLACCSED AKGQSMTLVL DWAVERFSAS GLVVLERNFL DVYPWARWET
510 520 530 540 550
TKQLPRLEMN ALVDIAKAEM KAGTTAPPKP MTESELILLM DTNGIGTDAT
560 570 580 590 600
IAEHIDKIQV RNYVRSEKVG KETYLQPTTL GVSLVHGFEA IGLEDSFAKP
610 620 630 640 650
FQRREMEQDL KKICEGHASK TDVVKDIVEK YRKYWHKTNA CKNTLLQVYD

RVKASM
Length:656
Mass (Da):74,371
Last modified:January 1, 1990 - v1
Checksum:i51DF78936A88B4F4
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
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

Similar proteinsi

Entry informationi

Entry nameiTOP3_YEAST
AccessioniPrimary (citable) accession number: P13099
Secondary accession number(s): D6VYN4
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 1, 1990
Last sequence update: January 1, 1990
Last modified: June 20, 2018
This is version 168 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Direct protein sequencing, Reference proteome

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