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Q9KQF5

- TOP3_VIBCH

UniProt

Q9KQF5 - TOP3_VIBCH

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Protein
DNA topoisomerase 3
Gene
topB, VC_2043
Organism
Vibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
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 By similarity.UniRule annotation

Catalytic activityi

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

Cofactori

Magnesium. Binds two Mg2+ per subunit By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi8 – 81Magnesium 1; catalytic By similarity
Sitei62 – 621Interaction with DNA By similarity
Metal bindingi104 – 1041Magnesium 1; catalytic By similarity
Metal bindingi104 – 1041Magnesium 2 By similarity
Metal bindingi106 – 1061Magnesium 2 By similarity
Sitei171 – 1711Interaction with DNA By similarity
Sitei179 – 1791Interaction with DNA By similarity
Active sitei332 – 3321O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Sitei334 – 3341Interaction with DNA By similarity

GO - Molecular functioni

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

GO - Biological processi

  1. DNA topological change Source: TIGR
Complete GO annotation...

Keywords - Molecular functioni

Isomerase, Topoisomerase

Keywords - Ligandi

DNA-binding, Magnesium, Metal-binding

Enzyme and pathway databases

BioCyciVCHO:VC2043-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
DNA topoisomerase 3 (EC:5.99.1.2)
Alternative name(s):
DNA topoisomerase III
Gene namesi
Name:topB
Ordered Locus Names:VC_2043
OrganismiVibrio cholerae serotype O1 (strain ATCC 39315 / El Tor Inaba N16961)
Taxonomic identifieri243277 [NCBI]
Taxonomic lineageiBacteriaProteobacteriaGammaproteobacteriaVibrionalesVibrionaceaeVibrio
ProteomesiUP000000584: Chromosome 1

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 647647DNA topoisomerase 3UniRule annotation
PRO_0000145189Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi243277.VC2043.

Structurei

3D structure databases

ProteinModelPortaliQ9KQF5.
SMRiQ9KQF5. Positions 3-616.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini2 – 135134Toprim
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni195 – 2006Interaction with DNA By similarity

Sequence similaritiesi

Contains 1 Toprim domain.

Phylogenomic databases

eggNOGiCOG0550.
KOiK03169.
OMAiSIAVGPY.
OrthoDBiEOG60CWM6.

Family and domain databases

Gene3Di1.10.460.10. 2 hits.
2.70.20.10. 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.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
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.

Q9KQF5-1 [UniParc]FASTAAdd to Basket

« Hide

MTRLFIAEKP SLARAIADAL PKPHKKEQGC IRCANGDIVT WCIGHLLEQV    50
EPDAYDERYK KWNMADLPII PEQWQLRPRK SSSQQLTVVR KLLKEATQII 100
HAGDPDREGQ LLVDEVIDYC KVPKSKKETV QRLLISDLNL SAVKRALQGL 150
RSNREFIPLS VSALARSRAD WLYGMNMSRA YTLLGKKAGY QGVLSVGRVQ 200
TPVLGLVVRR DEEIEHFIPH DYFTLDALIP YQNGTEYFDI RARWKPSEAC 250
LPWQDEEGRV TNRKLVDNVA SRIANQPATV TESEQDQTKQ AAPLPYSLSA 300
LQIDAAKRYN FSAQQVLDLC QSLYEKHKLI TYPRSDCRYL PKEHLAQAPD 350
VVAAIANNAQ EMVTAVNDAD LSLRSKAWND SKVDAHHAII PTPKKASVNA 400
LSGHEMKVYQ LIARQYLMQF YPAAIYAEAK LVFNIAGGIF IAKGRQLLSA 450
GWKVLTGQQD EQEECVDKVP PLPVGIVLQC REGEIKQRQT EPPRHFTEAT 500
LLQAMTGIAR FVADKELKKI LRETDGLGTE ATRAGILDTL FKRGLLQRDN 550
KLIKSTPAGR GLIHALPSEA TYPDMTAHWE HQLQAIAEKG QAYQPFMQTL 600
QGRLEQLIEQ VQVAPVPVSL QALPAVSKPA FKRTRRAPKS KARTYKA 647
Length:647
Mass (Da):72,711
Last modified:October 1, 2000 - v1
Checksum:iFD90899D8C4CF2C5
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE003852 Genomic DNA. Translation: AAF95191.1.
PIRiE82126.
RefSeqiNP_231677.1. NC_002505.1.

Genome annotation databases

EnsemblBacteriaiAAF95191; AAF95191; VC_2043.
GeneIDi2613424.
KEGGivch:VC2043.
PATRICi20083118. VBIVibCho83274_1951.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AE003852 Genomic DNA. Translation: AAF95191.1 .
PIRi E82126.
RefSeqi NP_231677.1. NC_002505.1.

3D structure databases

ProteinModelPortali Q9KQF5.
SMRi Q9KQF5. Positions 3-616.
ModBasei Search...
MobiDBi Search...

Protein-protein interaction databases

STRINGi 243277.VC2043.

Protocols and materials databases

DNASUi 2613424.
Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai AAF95191 ; AAF95191 ; VC_2043 .
GeneIDi 2613424.
KEGGi vch:VC2043.
PATRICi 20083118. VBIVibCho83274_1951.

Phylogenomic databases

eggNOGi COG0550.
KOi K03169.
OMAi SIAVGPY.
OrthoDBi EOG60CWM6.

Enzyme and pathway databases

BioCyci VCHO:VC2043-MONOMER.

Family and domain databases

Gene3Di 1.10.460.10. 2 hits.
2.70.20.10. 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.
IPR013825. Topo_IA_cen_sub2.
IPR023405. Topo_IA_core_domain.
IPR003602. Topo_IA_DNA-bd.
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. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 39315 / El Tor Inaba N16961.

Entry informationi

Entry nameiTOP3_VIBCH
AccessioniPrimary (citable) accession number: Q9KQF5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: December 1, 2000
Last sequence update: October 1, 2000
Last modified: September 3, 2014
This is version 93 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

Similar proteinsi