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Protein

DNA topoisomerase 3

Gene

topB

Organism
Staphylococcus epidermidis (strain ATCC 12228)
Status
Reviewed-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

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

Keywordsi

Molecular functionDNA-binding, Isomerase, Topoisomerase
LigandMagnesium, Metal-binding

Enzyme and pathway databases

BioCyciSEPI176280:G1G05-1887-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:SE_1828
OrganismiStaphylococcus epidermidis (strain ATCC 12228)
Taxonomic identifieri176280 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesStaphylococcaceaeStaphylococcus
Proteomesi
  • UP000001411 Componenti: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002863771 – 711DNA topoisomerase 3Add BLAST711

Proteomic databases

PRIDEiQ8CRF7

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

STRINGi176280.SE1828

Structurei

3D structure databases

ProteinModelPortaliQ8CRF7
SMRiQ8CRF7
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

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi560 – 710Lys-richAdd BLAST151

Sequence similaritiesi

Belongs to the type IA topoisomerase family.UniRule annotation

Phylogenomic databases

eggNOGiENOG4105C9U Bacteria
COG0550 LUCA
COG0551 LUCA
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.

Q8CRF7-1 [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 RYKMGPKETL 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 NCKKKMTLFG
660 670 680 690 700
KGKEAVYRCV CGHTETQSQM DKRMRDKTNG KVSRKEMKKY INKKEEIDNN
710
PFKDALKNLK L
Length:711
Mass (Da):82,363
Last modified:March 1, 2003 - v1
Checksum:i310843E31D80365C
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AE015929 Genomic DNA Translation: AAO05469.1
RefSeqiNP_765383.1, NC_004461.1
WP_001829767.1, NC_004461.1

Genome annotation databases

EnsemblBacteriaiAAO05469; AAO05469; SE_1828
GeneIDi1057342
KEGGisep:SE1828
PATRICifig|176280.10.peg.1784

Similar proteinsi

Entry informationi

Entry nameiTOP3_STAES
AccessioniPrimary (citable) accession number: Q8CRF7
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: March 1, 2003
Last modified: May 23, 2018
This is version 98 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome

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