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Q5HLZ4

- TOP3_STAEQ

UniProt

Q5HLZ4 - TOP3_STAEQ

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Protein

DNA topoisomerase 3

Gene

topB

Organism
Staphylococcus epidermidis (strain ATCC 35984 / RP62A)
Status
Reviewed - 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

Magnesium.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Magnesium; catalyticUniRule annotation
Sitei60 – 601Interaction with DNAUniRule annotation
Metal bindingi104 – 1041Magnesium; catalyticUniRule annotation
Sitei167 – 1671Interaction with DNAUniRule annotation
Sitei175 – 1751Interaction with DNAUniRule annotation
Active sitei305 – 3051O-(5'-phospho-DNA)-tyrosine intermediateUniRule annotation
Sitei307 – 3071Interaction with DNAUniRule annotation

GO - Molecular functioni

  1. DNA binding Source: UniProtKB-KW
  2. DNA topoisomerase type I activity Source: UniProtKB-HAMAP
  3. magnesium ion binding Source: UniProtKB-HAMAP

GO - Biological processi

  1. DNA topological change Source: UniProtKB-HAMAP
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciSEPI176279:GJJB-1914-MONOMER.

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:SERP1836
OrganismiStaphylococcus epidermidis (strain ATCC 35984 / RP62A)
Taxonomic identifieri176279 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcus
ProteomesiUP000000531: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 711711DNA topoisomerase 3PRO_0000286376Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi176279.SERP1836.

Structurei

3D structure databases

ProteinModelPortaliQ5HLZ4.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 135134ToprimUniRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni186 – 1916Interaction with DNAUniRule annotation

Compositional bias

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Compositional biasi560 – 710151Lys-richAdd
BLAST

Sequence similaritiesi

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

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000086847.
KOiK03169.
OMAiTKHDEYF.
OrthoDBiEOG60CWM6.

Family and domain databases

Gene3Di1.10.290.10. 1 hit.
1.10.460.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPiMF_00953. Topoisom_3_prok.
InterProiIPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR005738. TopoIII.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERiPTHR11390. PTHR11390. 1 hit.
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.

Q5HLZ4-1 [UniParc]FASTAAdd to Basket

« Hide

        10         20         30         40         50
MKSLILAEKP SVGRDIANAL NLQQKSNGYI EGKQYIVTWA LGHLVTNATP
60 70 80 90 100
EQYNPSYKEW NLEDLPIIPK KMKTVVISKT NRQFKIVKSL ILDKNVKEII
110 120 130 140 150
IATDAGREGE LVARLILDKV GNKKPIKRLW ISSVTKKAIQ EGFKQLKNGN
160 170 180 190 200
AYQNLYEAAL ARSEADWIVG INATRALTTK YDAQLSLGRV QTPTIQIVKS
210 220 230 240 250
RQDEINYFKP EKYYTLSINV DGYDLNLKQQ KRYKDKKELE LIEHKIKHQE
260 270 280 290 300
GKILEVKGKN KKSYAQPLFN LTDLQQEAYK HYKMGPKETL NTLQHLYERH
310 320 330 340 350
KLVTYPRTDS NYLTDDMVDT IQERLRAILA TDYKSHVRDL ISESFSSKMH
360 370 380 390 400
IFNNQKVSDH HAIIPTEVRP SIEQLSQREF KIYMLIAERF LENLMNPYLY
410 420 430 440 450
EVLTIHAQLK DYNFVLKEII PKQLGYKALK DQTSSHTLTH SFKEGQLFKV
460 470 480 490 500
HRIEIHEHET KAPEYFNEGS LLKAMENPQN HIDLNDKKYA KTLKHSGGIG
510 520 530 540 550
TVATRADIIE KLFNMNALES RDGKIKVTSK GKQILELSPS ELTSPILTAQ
560 570 580 590 600
WEEKLMLIEK GKYNSQKFIQ EMKNFTFKVV NKIKSSEQKY KHDNLTTTEC
610 620 630 640 650
PTCGKFMIKV KTKNGQMLVC QDPKCKTKKN IQRKTNARCP YCKKKMTLFG
660 670 680 690 700
KGKEAVYRCV CGHTETQSQM DKRMRDKTNG KVSRKEMKKY INKKEEIDNN
710
PFKDALKNLK L
Length:711
Mass (Da):82,393
Last modified:February 15, 2005 - v1
Checksum:i13AB643F53065FB9
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000029 Genomic DNA. Translation: AAW55174.1.
RefSeqiYP_189399.1. NC_002976.3.

Genome annotation databases

EnsemblBacteriaiAAW55174; AAW55174; SERP1836.
GeneIDi3241273.
KEGGiser:SERP1836.
PATRICi19614606. VBIStaEpi130894_1792.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
CP000029 Genomic DNA. Translation: AAW55174.1 .
RefSeqi YP_189399.1. NC_002976.3.

3D structure databases

ProteinModelPortali Q5HLZ4.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 176279.SERP1836.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAW55174 ; AAW55174 ; SERP1836 .
GeneIDi 3241273.
KEGGi ser:SERP1836.
PATRICi 19614606. VBIStaEpi130894_1792.

Phylogenomic databases

eggNOGi COG0551.
HOGENOMi HOG000086847.
KOi K03169.
OMAi TKHDEYF.
OrthoDBi EOG60CWM6.

Enzyme and pathway databases

BioCyci SEPI176279:GJJB-1914-MONOMER.

Family and domain databases

Gene3Di 1.10.290.10. 1 hit.
1.10.460.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPi MF_00953. Topoisom_3_prok.
InterProi IPR000380. Topo_IA.
IPR003601. Topo_IA_2.
IPR023406. Topo_IA_AS.
IPR013497. Topo_IA_cen.
IPR013824. Topo_IA_cen_sub1.
IPR013826. Topo_IA_cen_sub3.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd_dom.
IPR005738. TopoIII.
IPR006171. Toprim_domain.
[Graphical view ]
PANTHERi PTHR11390. PTHR11390. 1 hit.
Pfami PF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view ]
PRINTSi PR00417. PRTPISMRASEI.
SMARTi SM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view ]
SUPFAMi SSF56712. SSF56712. 1 hit.
TIGRFAMsi TIGR01056. topB. 1 hit.
PROSITEi PS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view ]
ProtoNeti Search...

Publicationsi

  1. "Insights on evolution of virulence and resistance from the complete genome analysis of an early methicillin-resistant Staphylococcus aureus strain and a biofilm-producing methicillin-resistant Staphylococcus epidermidis strain."
    Gill S.R., Fouts D.E., Archer G.L., Mongodin E.F., DeBoy R.T., Ravel J., Paulsen I.T., Kolonay J.F., Brinkac L.M., Beanan M.J., Dodson R.J., Daugherty S.C., Madupu R., Angiuoli S.V., Durkin A.S., Haft D.H., Vamathevan J.J., Khouri H.
    , Utterback T.R., Lee C., Dimitrov G., Jiang L., Qin H., Weidman J., Tran K., Kang K.H., Hance I.R., Nelson K.E., Fraser C.M.
    J. Bacteriol. 187:2426-2438(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 35984 / RP62A.

Entry informationi

Entry nameiTOP3_STAEQ
AccessioniPrimary (citable) accession number: Q5HLZ4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: February 15, 2005
Last modified: October 29, 2014
This is version 71 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

External Data

Dasty 3