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Q5WAX6

- TOP3_BACSK

UniProt

Q5WAX6 - TOP3_BACSK

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Protein
DNA topoisomerase 3
Gene
topB, ABC3953
Organism
Bacillus clausii (strain KSM-K16)
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 By similarity.UniRule annotation

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Metal bindingi9 – 91Magnesium; catalytic By similarity
Sitei61 – 611Interaction with DNA By similarity
Metal bindingi105 – 1051Magnesium; catalytic By similarity
Sitei168 – 1681Interaction with DNA By similarity
Sitei176 – 1761Interaction with DNA By similarity
Active sitei311 – 3111O-(5'-phospho-DNA)-tyrosine intermediate By similarity
Sitei313 – 3131Interaction with DNA By similarity

GO - Molecular functioni

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

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

BioCyciBCLA66692:GHMP-4033-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:ABC3953
OrganismiBacillus clausii (strain KSM-K16)
Taxonomic identifieri66692 [NCBI]
Taxonomic lineageiBacteriaFirmicutesBacilliBacillalesBacillaceaeBacillus
ProteomesiUP000001168: Chromosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 729729DNA topoisomerase 3UniRule annotation
PRO_0000286365Add
BLAST

Interactioni

Protein-protein interaction databases

STRINGi66692.ABC3953.

Structurei

3D structure databases

ProteinModelPortaliQ5WAX6.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini3 – 136134Toprim
Add
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni187 – 1926Interaction with DNA By similarity

Sequence similaritiesi

Contains 1 Toprim domain.

Phylogenomic databases

eggNOGiCOG0551.
HOGENOMiHOG000086847.
KOiK03169.
OMAiTKHDEYF.
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.

Q5WAX6-1 [UniParc]FASTAAdd to Basket

« Hide

MKKKAVLAEK PSVARDIARV LGCNQKGNGY LEGNGYIITW ALGHLVTHAD    50
PEHYGKQYKT WKLEELPMLP KRLELVVIKQ TAKQFHAVKH VLNRQDVGEV 100
VIATDAGREG ELVARWILEK AHVKKPVKRL WISSVTDKAI KDGFKQLKDG 150
KRYETLYAAA AARAEADWYV GINGTRALTT KHNAQLSCGR VQTPTLAILA 200
DREEAIRKFV PKPYHTISVE TKDGVTFRWA DRRSKEERIF DDKRAKTLQE 250
KLQQSAIVID SVNAKTKRTP PPPLYDLTEL QREANKRFGY SAKETLAALQ 300
RLYEQHKAVT YPRTDSRYLS SDLVETLKER LHAVDVQPFR KMVANAKKQG 350
LANAKRQMVN DAKVSDHHAL IPTEQPQSAS AMSDKEAKLY HLIVRRFLAN 400
FFPPSESELT SVEATANGEL LRAKGERLVS AGWRGQETGE EDEALARLLP 450
AMSKGDKKAV KWVGMTQGKT SPPPRFNEGT LLAAMEKPAQ HMEAKDETIK 500
KTLAQAGGIG TVATRADIIE KLFSSFYIEK KGKDLYITSK GKQLLELVPA 550
ELKSPALTAE WEQRLEKIVQ GKEQKQMFIA EMKEYAKAVV AQVKADTATF 600
RHDNKTGEKC PECGKFLLEV NGKKGKMRVC QDRECGYRKN IAMTTNARCP 650
KCKKKLELRG EGEGQVFACV CGHREKKAQF EQRRKQNKHK NVSKREVQSY 700
MKKQNKQDQF ANSALADQLA KLGLKGDDS 729
Length:729
Mass (Da):82,115
Last modified:November 23, 2004 - v1
Checksum:i538DCA474A448178
GO

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006627 Genomic DNA. Translation: BAD66484.1.
RefSeqiYP_177445.1. NC_006582.1.

Genome annotation databases

EnsemblBacteriaiBAD66484; BAD66484; ABC3953.
GeneIDi3203429.
KEGGibcl:ABC3953.
PATRICi18927718. VBIBacCla58185_4207.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBL
GenBank
DDBJ
Links Updated
AP006627 Genomic DNA. Translation: BAD66484.1 .
RefSeqi YP_177445.1. NC_006582.1.

3D structure databases

ProteinModelPortali Q5WAX6.
ModBasei Search...

Protein-protein interaction databases

STRINGi 66692.ABC3953.

Protocols and materials databases

Structural Biology Knowledgebase Search...

Genome annotation databases

EnsemblBacteriai BAD66484 ; BAD66484 ; ABC3953 .
GeneIDi 3203429.
KEGGi bcl:ABC3953.
PATRICi 18927718. VBIBacCla58185_4207.

Phylogenomic databases

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

Enzyme and pathway databases

BioCyci BCLA66692:GHMP-4033-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. "The complete genome sequence of the alkaliphilic Bacillus clausii KSM-K16."
    Takaki Y., Kageyama Y., Shimamura S., Suzuki H., Nishi S., Hatada Y., Kawai S., Ito S., Horikoshi K.
    Submitted (OCT-2003) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: KSM-K16.

Entry informationi

Entry nameiTOP3_BACSK
AccessioniPrimary (citable) accession number: Q5WAX6
Entry historyi
Integrated into UniProtKB/Swiss-Prot: May 1, 2007
Last sequence update: November 23, 2004
Last modified: September 3, 2014
This is version 68 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

Documents

  1. SIMILARITY comments
    Index of protein domains and families

External Data

Dasty 3

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