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Protein

DNA topoisomerase 3

Gene

topB

Organism
Staphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229)
Status
Reviewed-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 annotation

Cofactori

Mg2+UniRule annotation

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Metal bindingi8Magnesium; catalyticUniRule annotation1
Metal bindingi104Magnesium; catalyticUniRule annotation1
Active sitei305O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation1

GO - Molecular functioni

GO - Biological processi

Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

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:SSP0659
OrganismiStaphylococcus saprophyticus subsp. saprophyticus (strain ATCC 15305 / DSM 20229)
Taxonomic identifieri342451 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000006371 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002863791 – 712DNA topoisomerase 3Add BLAST712

Interactioni

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei60Interaction with DNAUniRule annotation1
Sitei167Interaction with DNAUniRule annotation1
Sitei175Interaction with DNAUniRule annotation1
Sitei307Interaction with DNAUniRule annotation1

Protein-protein interaction databases

STRINGi342451.SSP0659.

Structurei

3D structure databases

ProteinModelPortaliQ49ZH2.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

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

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni186 – 191Interaction with DNAUniRule annotation6

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation
Contains 1 Toprim domain.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C9U. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000086847.
KOiK03169.
OMAiTKHDEYF.
OrthoDBiPOG091H028X.

Family and domain databases

CDDicd00186. TOP1Ac. 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.
InterProiIPR000380. 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.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
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.
TIGRFAMsiTIGR01056. topB. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q49ZH2-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MKSLIIAEKP SVGRDIANTL NINEKRNGYF ENNKYIVTWA LGHLVTNATP
60 70 80 90 100
EQYDASYKEW KLNDLPIIPN KMKTIVISKT RKQFSTVQSL INNNKVKDII
110 120 130 140 150
IATDAGREGE LVARLILDKA HNKKPTKRLW ISSVTNKAIK EGFNKLQDGR
160 170 180 190 200
KFNNLYHAAL ARSEADWIVG INATRALTTK YDAQLSLGRV QTPTIQLVQM
210 220 230 240 250
RQNEINHFKP QTYYTMKLNA AGLTFHCTKP QSHPDKTVLE SIKKAIDGQS
260 270 280 290 300
GHIASISKTH KKAYPQQLYN LTDLQQDAYK RFHLGPKETL NTLQTLYERH
310 320 330 340 350
KLVTYPRTDS NYLTDDMVDT LKDRLKAIMA TSLKDMAKAQ MSQTFSSKQR
360 370 380 390 400
FVNNNKVSDH HAIIPTEVRP DINQLSQRES KIYMMIAQRY LENLMPPHEY
410 420 430 440 450
EAIAIELKVG QHTFTFKDKV TTKLGFKAIY ENKESINTQI DQLQKGTKLN
460 470 480 490 500
VTKILIEEHE TTAPPYFNEG SLLKAMESPQ KFFDLSDKKH DKTLKDTGGI
510 520 530 540 550
GTVATRADII EKLFNMNAIE ARDGKIKVTS KGKQILELAP QKLTSPLLTA
560 570 580 590 600
EWEEKLLLIE QGKYNASQFI SEMKAFTNQV VNEIKESEQN YKHDNLTTTE
610 620 630 640 650
CPTCGKFMIK VKTKNGQMLV CQDPQCKTKK NVQRKTNARC PNCHKKMTLF
660 670 680 690 700
GRGKDAVYRC VCGHTETQAQ MDKRHKNKKS DKVNKKDLKK YMNNDEGIEN
710
NPFQDALKGL KF
Length:712
Mass (Da):81,398
Last modified:September 13, 2005 - v1
Checksum:iECC25B17796FAF11
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008934 Genomic DNA. Translation: BAE17804.1.
RefSeqiWP_011302595.1. NC_007350.1.

Genome annotation databases

EnsemblBacteriaiBAE17804; BAE17804; SSP0659.
GeneIDi3615958.
KEGGissp:SSP0659.
PATRICi19622802. VBIStaSap90642_0661.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AP008934 Genomic DNA. Translation: BAE17804.1.
RefSeqiWP_011302595.1. NC_007350.1.

3D structure databases

ProteinModelPortaliQ49ZH2.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi342451.SSP0659.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaiBAE17804; BAE17804; SSP0659.
GeneIDi3615958.
KEGGissp:SSP0659.
PATRICi19622802. VBIStaSap90642_0661.

Phylogenomic databases

eggNOGiENOG4105C9U. Bacteria.
COG0550. LUCA.
COG0551. LUCA.
HOGENOMiHOG000086847.
KOiK03169.
OMAiTKHDEYF.
OrthoDBiPOG091H028X.

Family and domain databases

CDDicd00186. TOP1Ac. 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.
InterProiIPR000380. 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.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 2 hits.
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.
TIGRFAMsiTIGR01056. topB. 1 hit.
PROSITEiPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiTOP3_STAS1
AccessioniPrimary (citable) accession number: Q49ZH2
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: September 13, 2005
Last modified: November 2, 2016
This is version 79 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families

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.