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Protein

DNA topoisomerase 3

Gene

topB

Organism
Shewanella baltica (strain OS223)
Status
Unreviewed-Annotation score: Annotation score: 3 out of 5-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

Catalytic activityi

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

Cofactori

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

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi7Magnesium 1; catalyticUniRule annotation1
Metal bindingi103Magnesium 1; catalyticUniRule annotation1
Metal bindingi103Magnesium 2UniRule annotation1
Metal bindingi105Magnesium 2UniRule annotation1
Active sitei328O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Keywordsi

Molecular functionDNA-bindingUniRule annotationSAAS annotation, Isomerase, TopoisomeraseUniRule annotationSAAS 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 annotation
Ordered Locus Names:Sbal223_1623Imported
OrganismiShewanella baltica (strain OS223)Imported
Taxonomic identifieri407976 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaAlteromonadalesShewanellaceaeShewanella
Proteomesi
  • UP000002507 Componenti: Chromosome

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei61Interaction with DNAUniRule annotation1
Sitei170Interaction with DNAUniRule annotation1
Sitei178Interaction with DNAUniRule annotation1
Sitei330Interaction with DNAUniRule annotation1

Structurei

3D structure databases

ProteinModelPortaliB8EEC3.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini1 – 134ToprimInterPro annotationAdd BLAST134

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni194 – 199Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotationSAAS annotation

Phylogenomic databases

HOGENOMiHOG000086848.
KOiK03169.
OMAiTALWESN.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
cd03362. TOPRIM_TopoIA_TopoIII. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
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.
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.

B8EEC3-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MILYIAEKPS LGRAIADVLP KPHKKGDGFI EAANGDCVSW CVGHLLEQAE
60 70 80 90 100
PDAYNPEFKS WKFEHLPIVP DKWQLKPKAA TRSQLTVLKR LVKQANTLVN
110 120 130 140 150
AGDPDREGQL LVDEVIAYLG VTGDKLHQTQ RLLISDLNPQ AVKRALTQLR
160 170 180 190 200
SNREFIPLST SALARSRADW LYGMNMTRAY TIQGKKVGYQ GVLSVGRVQT
210 220 230 240 250
PLLGLVVRRD EEIANFQSKP FYEVLAHLAT EKQEAFSAKW QPSEACQPYM
260 270 280 290 300
DEEGRVLARG LAQNVVSRIS DKPALVTQLV AKDKKQNPPL PYSLSALQID
310 320 330 340 350
AAKRFGMSAK DVLDTCQSLY ERHKLITYPR SDSRYLPVEQ HSLAPSVLKA
360 370 380 390 400
ISGGAAELLQ GADAPDPRLK SKAWDDKKVD AHHAIVPTEK TANLSSLSQR
410 420 430 440 450
ERQLYLHVAR QYLAQFYPAY CYSETTVQVT IEGGLFNTKA RQDKSLGWKQ
460 470 480 490 500
LFARQEPNGS KASGNKSTEE SAGKDDEEND EFIGQLPPLK LGQALHCTRG
510 520 530 540 550
ELLEKNTQPP KAFTDATLLG AMTGISRYVT DPEIRKILKE TDGLGTEATR
560 570 580 590 600
AGIIELLFKR GFLQRLGKSI VSTDVGKGLI NSLPASATTP DMTALWEASL
610 620 630 640 650
NGICHKETSY QAFMQPLLGT LSTLIQNAGA QLPTALNGLK GQVYRKTAGN
660 670 680 690 700
KSGYRKSPYR KASSSTKRTG TASTAKTSTT TSSSAKKSSA SSGTRSRTRK

VAAEV
Length:705
Mass (Da):77,382
Last modified:March 3, 2009 - v1
Checksum:iD75C2564FBA8CA7D
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001252 Genomic DNA. Translation: ACK46128.1.
RefSeqiWP_012587335.1. NC_011663.1.

Genome annotation databases

EnsemblBacteriaiACK46128; ACK46128; Sbal223_1623.
KEGGisbp:Sbal223_1623.
PATRICi23479394. VBISheBal125792_1673.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
CP001252 Genomic DNA. Translation: ACK46128.1.
RefSeqiWP_012587335.1. NC_011663.1.

3D structure databases

ProteinModelPortaliB8EEC3.
ModBaseiSearch...
MobiDBiSearch...

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiACK46128; ACK46128; Sbal223_1623.
KEGGisbp:Sbal223_1623.
PATRICi23479394. VBISheBal125792_1673.

Phylogenomic databases

HOGENOMiHOG000086848.
KOiK03169.
OMAiTALWESN.

Family and domain databases

CDDicd00186. TOP1Ac. 1 hit.
cd03362. TOPRIM_TopoIA_TopoIII. 1 hit.
Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
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.
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.
ProtoNetiSearch...

Entry informationi

Entry nameiB8EEC3_SHEB2
AccessioniPrimary (citable) accession number: B8EEC3
Entry historyiIntegrated into UniProtKB/TrEMBL: March 3, 2009
Last sequence update: March 3, 2009
Last modified: February 15, 2017
This is version 73 of the entry and version 1 of the sequence. See complete history.
Entry statusiUnreviewed (UniProtKB/TrEMBL)

Miscellaneousi

Caution

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

Keywords - Technical termi

Complete proteomeImported

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 one 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.