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Protein

DNA topoisomerase 3

Gene

topB

Organism
Vibrio cholerae serotype O1 (strain M66-2)
Status
Unreviewed-Annotation score: -Protein inferred from homologyi

Functioni

Releases the supercoiling and torsional tension of DNA, which is 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 then 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.UniRule annotation

Caution

Lacks conserved residue(s) required for the propagation of feature annotation.UniRule annotation

Catalytic activityi

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

Cofactori

Mg2+UniRule annotationNote: Binds two Mg2+ per subunit.UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi8Magnesium 1; catalyticUniRule annotation1
Metal bindingi104Magnesium 1; catalyticUniRule annotation1
Metal bindingi104Magnesium 2UniRule annotation1
Metal bindingi106Magnesium 2UniRule annotation1
Active sitei332O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-bindingUniRule annotation, Isomerase, TopoisomeraseUniRule annotation
LigandMagnesiumUniRule annotation, Metal-bindingUniRule annotation

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 3UniRule annotation (EC:5.99.1.2UniRule annotation)
Alternative name(s):
DNA topoisomerase IIIUniRule annotation
Gene namesi
Name:topBUniRule annotationImported
Ordered Locus Names:VCM66_1967Imported
OrganismiVibrio cholerae serotype O1 (strain M66-2)Imported
Taxonomic identifieri579112 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
Proteomesi
  • UP000001217 Componenti: Chromosome I

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei62Interaction with DNAUniRule annotation1
Sitei171Interaction with DNAUniRule annotation1
Sitei179Interaction with DNAUniRule annotation1
Sitei334Interaction with DNAUniRule annotation1

Structurei

3D structure databases

ProteinModelPortaliC3LNZ4
SMRiC3LNZ4
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini2 – 135ToprimInterPro annotationAdd BLAST134

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni195 – 200Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Phylogenomic databases

HOGENOMiHOG000086848
KOiK03169
OMAiTYPRVDT

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
HAMAPiMF_00953 Topoisom_3_prok, 1 hit
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
IPR005738 TopoIII
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
TIGRFAMsiTIGR01056 topB, 1 hit
PROSITEiView protein in PROSITE
PS00396 TOPOISOMERASE_I_PROK, 1 hit
PS50880 TOPRIM, 1 hit

Sequencei

Sequence statusi: Complete.

C3LNZ4-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MTRLFIAEKP SLARAIADAL PKPHKKEQGC IRCANGDIVT WCIGHLLEQV
60 70 80 90 100
EPDAYDERYK KWNMADLPII PEQWQLRPRK SSSQQLTVVR KLLKEATQII
110 120 130 140 150
HAGDPDREGQ LLVDEVIDYC KVPKSKKETV QRLLISDLNL SAVKRALQGL
160 170 180 190 200
RSNREFIPLS VSALARSRAD WLYGMNMSRA YTLLGKKAGY QGVLSVGRVQ
210 220 230 240 250
TPVLGLVVRR DEEIEHFIPH DYFTLDALIP YQNGTEYFDI RARWKPSEAC
260 270 280 290 300
LPWQDEEGRV TNRKLVDNVA SRIANQPATV TESEQDQTKQ AAPLPYSLSA
310 320 330 340 350
LQIDAAKRYN FSAQQVLDLC QSLYEKHKLI TYPRSDCRYL PKEHLAQAPD
360 370 380 390 400
VVAAIANNAQ EMVTAVNDAD LSLRSKAWND SKVDAHHAII PTPKKASVNA
410 420 430 440 450
LSGHEMKVYQ LIARQYLMQF YPAAIYAEAK LVFNIAGGIF IAKGRQLLSA
460 470 480 490 500
GWKVLTGQQD EQEECVDKVP PLPVGIVLQC REGEIKQRQT EPPRHFTEAT
510 520 530 540 550
LLQAMTGIAR FVADKELKKI LRETDGLGTE ATRAGILDTL FKRGLLQRDN
560 570 580 590 600
KLIKSTPAGR GLIHALPSEA TYPDMTAHWE HQLQAIAEKG QAYQPFMQTL
610 620 630 640
QGRLEQLIEQ VQVAPVPVSL QALPAVSKPA FKRTRRAPKS KARTYKA
Length:647
Mass (Da):72,711
Last modified:June 16, 2009 - v1
Checksum:iFD90899D8C4CF2C5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001233 Genomic DNA Translation: ACP06270.1
RefSeqiWP_000197425.1, NC_012578.1

Genome annotation databases

EnsemblBacteriaiACP06270; ACP06270; VCM66_1967
KEGGivcm:VCM66_1967

Similar proteinsi

Entry informationi

Entry nameiC3LNZ4_VIBCM
AccessioniPrimary (citable) accession number: C3LNZ4
Entry historyiIntegrated into UniProtKB/TrEMBL: June 16, 2009
Last sequence update: June 16, 2009
Last modified: February 28, 2018
This is version 72 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Keywords - Technical termi

Complete proteomeImported
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Main funding by: National Institutes of Health