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Q9KQF5 (TOP3_VIBCH) Reviewed, UniProtKB/Swiss-Prot

Last modified February 19, 2014. Version 90. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (1) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
DNA topoisomerase 3

EC=5.99.1.2
Alternative name(s):
DNA topoisomerase III
Gene names
Name:topB
Ordered Locus Names:VC_2043
OrganismVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961) [Reference proteome] [HAMAP]
Taxonomic identifier243277 [NCBI]
Taxonomic lineageBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio

Protein attributes

Sequence length647 AA.
Sequence statusComplete.
Protein existenceInferred from homology

General annotation (Comments)

Function

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 By similarity. HAMAP-Rule MF_00953

Catalytic activity

ATP-independent breakage of single-stranded DNA, followed by passage and rejoining. HAMAP-Rule MF_00953

Cofactor

Magnesium. Binds two Mg2+ per subunit By similarity. HAMAP-Rule MF_00953

Sequence similarities

Belongs to the type IA topoisomerase family.

Contains 1 Toprim domain.

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 647647DNA topoisomerase 3 HAMAP-Rule MF_00953
PRO_0000145189

Regions

Domain2 – 135134Toprim
Region195 – 2006Interaction with DNA By similarity

Sites

Active site3321O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Metal binding81Magnesium 1; catalytic By similarity
Metal binding1041Magnesium 1; catalytic By similarity
Metal binding1041Magnesium 2 By similarity
Metal binding1061Magnesium 2 By similarity
Site621Interaction with DNA By similarity
Site1711Interaction with DNA By similarity
Site1791Interaction with DNA By similarity
Site3341Interaction with DNA By similarity

Sequences

Sequence LengthMass (Da)Tools
Q9KQF5 [UniParc].

Last modified October 1, 2000. Version 1.
Checksum: FD90899D8C4CF2C5

FASTA64772,711
        10         20         30         40         50         60 
MTRLFIAEKP SLARAIADAL PKPHKKEQGC IRCANGDIVT WCIGHLLEQV EPDAYDERYK 

        70         80         90        100        110        120 
KWNMADLPII PEQWQLRPRK SSSQQLTVVR KLLKEATQII HAGDPDREGQ LLVDEVIDYC 

       130        140        150        160        170        180 
KVPKSKKETV QRLLISDLNL SAVKRALQGL RSNREFIPLS VSALARSRAD WLYGMNMSRA 

       190        200        210        220        230        240 
YTLLGKKAGY QGVLSVGRVQ TPVLGLVVRR DEEIEHFIPH DYFTLDALIP YQNGTEYFDI 

       250        260        270        280        290        300 
RARWKPSEAC LPWQDEEGRV TNRKLVDNVA SRIANQPATV TESEQDQTKQ AAPLPYSLSA 

       310        320        330        340        350        360 
LQIDAAKRYN FSAQQVLDLC QSLYEKHKLI TYPRSDCRYL PKEHLAQAPD VVAAIANNAQ 

       370        380        390        400        410        420 
EMVTAVNDAD LSLRSKAWND SKVDAHHAII PTPKKASVNA LSGHEMKVYQ LIARQYLMQF 

       430        440        450        460        470        480 
YPAAIYAEAK LVFNIAGGIF IAKGRQLLSA GWKVLTGQQD EQEECVDKVP PLPVGIVLQC 

       490        500        510        520        530        540 
REGEIKQRQT EPPRHFTEAT LLQAMTGIAR FVADKELKKI LRETDGLGTE ATRAGILDTL 

       550        560        570        580        590        600 
FKRGLLQRDN KLIKSTPAGR GLIHALPSEA TYPDMTAHWE HQLQAIAEKG QAYQPFMQTL 

       610        620        630        640 
QGRLEQLIEQ VQVAPVPVSL QALPAVSKPA FKRTRRAPKS KARTYKA 

« Hide

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
AE003852 Genomic DNA. Translation: AAF95191.1.
PIRE82126.
RefSeqNP_231677.1. NC_002505.1.

3D structure databases

ProteinModelPortalQ9KQF5.
SMRQ9KQF5. Positions 3-616.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

STRING243277.VC2043.

Protocols and materials databases

DNASU2613424.
StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblBacteriaAAF95191; AAF95191; VC_2043.
GeneID2613424.
KEGGvch:VC2043.
PATRIC20083118. VBIVibCho83274_1951.

Phylogenomic databases

eggNOGCOG0550.
KOK03169.
OMAPITPMKA.
OrthoDBEOG60CWM6.
ProtClustDBPRK07726.

Enzyme and pathway databases

BioCycVCHO:VC2043-MONOMER.

Family and domain databases

Gene3D1.10.460.10. 2 hits.
2.70.20.10. 2 hits.
3.40.50.140. 1 hit.
HAMAPMF_00953. Topoisom_3_prok.
InterProIPR000380. 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.
IPR005738. TopoIII.
IPR006171. Toprim_domain.
[Graphical view]
PANTHERPTHR11390. PTHR11390. 1 hit.
PfamPF01131. Topoisom_bac. 1 hit.
PF01751. Toprim. 1 hit.
[Graphical view]
PRINTSPR00417. PRTPISMRASEI.
SMARTSM00437. TOP1Ac. 1 hit.
SM00436. TOP1Bc. 1 hit.
SM00493. TOPRIM. 1 hit.
[Graphical view]
SUPFAMSSF56712. SSF56712. 1 hit.
TIGRFAMsTIGR01056. topB. 1 hit.
PROSITEPS00396. TOPOISOMERASE_I_PROK. 1 hit.
PS50880. TOPRIM. 1 hit.
[Graphical view]
ProtoNetSearch...

Entry information

Entry nameTOP3_VIBCH
AccessionPrimary (citable) accession number: Q9KQF5
Entry history
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: October 1, 2000
Last modified: February 19, 2014
This is version 90 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programProkaryotic Protein Annotation Program

Relevant documents

SIMILARITY comments

Index of protein domains and families