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Protein

DNA topoisomerase 3

Gene

top-3

Organism
Caenorhabditis elegans
Status
Reviewed-Annotation score: -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).By similarity

Catalytic activityi

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei334O-(5'-phospho-DNA)-tyrosine intermediateBy similarity1

GO - Molecular functioni

  • DNA binding Source: UniProtKB-KW
  • DNA topoisomerase type I activity Source: WormBase
  • zinc ion binding Source: InterPro

GO - Biological processi

  • DNA topological change Source: WormBase

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase

Enzyme and pathway databases

BRENDAi5.99.1.2 1045

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 3 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase III
Gene namesi
Name:top-3
ORF Names:Y56A3A.27
OrganismiCaenorhabditis elegans
Taxonomic identifieri6239 [NCBI]
Taxonomic lineageiEukaryotaMetazoaEcdysozoaNematodaChromadoreaRhabditidaRhabditoideaRhabditidaePeloderinaeCaenorhabditis
Proteomesi
  • UP000001940 Componenti: Chromosome III

Organism-specific databases

WormBaseiY56A3A.27 ; CE28138 ; WBGene00006596 ; top-3

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome 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_00001451941 – 759DNA topoisomerase 3Add BLAST759

Proteomic databases

EPDiO61660
PaxDbiO61660
PeptideAtlasiO61660
PRIDEiO61660

Expressioni

Gene expression databases

BgeeiWBGene00006596

Interactioni

Protein-protein interaction databases

STRINGi6239.Y56A3A.27.2

Structurei

3D structure databases

ProteinModelPortaliO61660
SMRiO61660
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini3 – 147ToprimPROSITE-ProRule annotationAdd BLAST145

Sequence similaritiesi

Belongs to the type IA topoisomerase family.Curated

Phylogenomic databases

eggNOGiKOG1956 Eukaryota
COG0550 LUCA
GeneTreeiENSGT00530000063430
HOGENOMiHOG000184377
InParanoidiO61660
KOiK03165
OMAiFKAIQAF
OrthoDBiEOG091G03BD
PhylomeDBiO61660

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
IPR010666 Znf_GRF
PANTHERiPTHR11390 PTHR11390, 1 hit
PfamiView protein in Pfam
PF01131 Topoisom_bac, 1 hit
PF01751 Toprim, 1 hit
PF06839 zf-GRF, 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.

O61660-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKRALFVAEK NDVAKGVAAI LSNGTANRRE GRSKFNKIYT LNTELFGQQT
60 70 80 90 100
AISVTSVSGH MMNFQFHENM SNWQTASMVE LFRAPVRHVV TPEMKLIEQT
110 120 130 140 150
LREQAQRHDI LVVWTDCDRE GEAIGAEIVK VCRDSNRRLD IFRARFSEIT
160 170 180 190 200
KAAITRAARN LIRLDEKTVA AVDCRSELDL RIGSAFTRLQ TLHLRNRFRD
210 220 230 240 250
LLGQNDTSQV ISYGSCQFPT LGFVTDRYKM IENFVSEPFW KLIVEHTRES
260 270 280 290 300
HKVEFLWDRN RLFDRDTVDI LHDECKETKE AHVEKVAKKP KSKWRPQALD
310 320 330 340 350
TVELEKLGIS KLRMSAKQTM QVAEKLYSKG FISYPRTETN KFPAGLNLTP
360 370 380 390 400
LVQQQTQSNI WGDFANEVLQ NGVNPRNGRK SDEAHPPIHP LKFTEKHQLQ
410 420 430 440 450
GDDWKVYELV VRHFLACVSQ DAQGEETMVN LTVGTEKFHA SGLRIRDMGY
460 470 480 490 500
LKVYVYEKWG NRLLPTYTEG ERFTDFELKI GDGKTQAPDF LTEADLISLM
510 520 530 540 550
DKYGIGTDAT HAEHIEKIKT REYIGVRPDG KLIPSFLGLA LVDGYDDMGF
560 570 580 590 600
AMSKPDLRAN LEIGLKEICD GRRQKQEVLD EQIGKYRAIF VESERKIGVL
610 620 630 640 650
SQSLQRYLDK NNQAGGGPGG PGGGGGPPRG PGGGGGGGPT GPPAPPKPPA
660 670 680 690 700
KPRGRPPRKS ISPAVKNGHD DPENDTIVTL SEVFGSMSNP KPARKPRAPR
710 720 730 740 750
KSAAPKEQEE EEEVFCQCPE PMRAVTKVVQ KEGPNKGKKF YTCSLPYTSS

EKCNFFKWA
Length:759
Mass (Da):85,438
Last modified:August 1, 1998 - v1
Checksum:i3D862412D72946BD
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF057032 mRNA Translation: AAC13567.1
AL132860 Genomic DNA Translation: CAB60518.2
PIRiT43031
RefSeqiNP_499558.1, NM_067157.4
UniGeneiCel.19512

Genome annotation databases

EnsemblMetazoaiY56A3A.27; Y56A3A.27; WBGene00006596
GeneIDi176631
KEGGicel:CELE_Y56A3A.27
UCSCiY56A3A.27.1 c. elegans

Similar proteinsi

Entry informationi

Entry nameiTOP3_CAEEL
AccessioniPrimary (citable) accession number: O61660
Secondary accession number(s): Q9U223
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 30, 2000
Last sequence update: August 1, 1998
Last modified: May 23, 2018
This is version 121 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programCaenorhabditis annotation project

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

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

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