topB

168

DNA topoisomerase III, decatenase

locus: BSU_04260

Molecular weight: 81.29 kDa

pI: 9.88

Protein length: 727 aa

Gene length: 2184 bp

function: control of DNA recombination, maintenance of genomic stability

product: DNA topoisomerase III

essential: no

synonyms: topB

List of homologs in different organisms, belongs to COG0551 (Galperin et al., 2021)

Gene

Coordinates: 476,558  478,741

Phenotypes of a mutant

• in E. coli, deletion results in a mutator phenotype [pubmed|2016043,1321123]

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The protein

Catalyzed reaction/ biological activity

• ATP-independent breakage of single-stranded DNA, followed by passage and rejoining (according to UniProt)
• binds to abasic and RNA base DNA lesions [pubmed|37250769]

Protein family

• Type IA topoisomerase family (together with [protein|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB])(according to UniProt)

[wiki|Domains]

• N-terminal [wiki|TOPRIM domain] (aa 3-136) [Pubmed|9722641]

Structure

• [PDB|1D6M] (from ''E. coli'', 33% identity) [Pubmed|10574789]
• [AF|P96583]

Effectors of protein activity

• [protein|search|RecQ ]controls [protein|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|Topo III] (de)catenation activity [pubmed|11497238,10360177]

Paralogous protein(s)

• [protein|41199C76DF8CA804B7B8878D61228B9542A96AE4|topA]

Expression and Regulation

Operons

• genes: [gene|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB]

  description

  • [pubmed|22383849]

• genes: [gene|AC2618C53DA020F2CD5192AEE462D15E8EE0F57F|lrpC]-[gene|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB]

  description

  • [pubmed|22383849]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA]: sigma factor, [pubmed|10913073], in [regulon|protein:360F48D576DE950DF79C1A2677B7A35A8D8CC30C|sigA regulon]

Biological materials

Mutant

• MGNA-C111 (topB::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/2109 NBRP B. subtilis, Japan]
• GP1864 (Δ''topB''::''ermC'') (available in [wiki|Jörg Stülke]'s lab)
• GP1896 (Δ''topB''::''cat'') (available in [wiki|Jörg Stülke]'s lab)
• JH642 and its derivatives: natural deletion of the 18 kb [gene|467E9CF20B545A976614968E7DD5497F9390D344|ydzA]-[gene|353DADE8E57A0F1895CCEB62701F9273EEB5EB45|mntH] region encompassing the genes [gene|467E9CF20B545A976614968E7DD5497F9390D344|ydzA]-[gene|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB]-[gene|69DEE29383E40F49890CC8314DFBF56D70D35113|ydaJ]-[gene|70ED3CE683F3A3F785480F40986CABE7729C17C7|ydaK]-[gene|28D80C5497AE29A24AD6B9A1A713A2B3915F2CED|ydaL]-[gene|961538BEDD27C24FC073AFB7AB3268E3D46783CC|ydaM]-[gene|ADE0122D8FFF2F78B6D21031B7D02A323A13ED63|ydaN]-[gene|5968E6D4D7378C69EC3E1E05B285069123AA1FD3|kimA]-[gene|6085BDAD40F719555EA4EEA7BBAD74103BD03D0F|mutT]-[gene|2883FC60CD69948D5C43BDDFEFBE7A1CA7C743C7|ydaP]-[gene|87834D5C47064BEFF26F086A8202C311F28F9D38|ydzK]-[gene|search|mntH ][pubmed|18670626]
• BKE04260 (Δ[gene|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB]::erm  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKE04260 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGCTTGATCACTTCTCTT,  downstream forward: _UP4_TAATAAAAAAACCTGTGCCT
• BKK04260 (Δ[gene|7D5327BD1DD5FD5F90B2C849589923AA3D8B20EF|topB]::kan  trpC2) available at [http://bgsc.org/getdetail.php?bgscid=BKK04260 BGSC],  [Pubmed|28189581], upstream reverse: _UP1_CATGCTTGATCACTTCTCTT,  downstream forward: _UP4_TAATAAAAAAACCTGTGCCT

References

Reviews

• 11497238,6305585,16936698,29177730,33480441

Original Publications

• 17114254,16600296,9722641,10574789,10360177,25232096,2016043,1321123,25232096,23514156,22923519,12167668,30222737,30478267,30957856,37250769