smc [2019-06-25 09:58:47]

part of the [SW|condensin] complex, chromosomal origin condensation and segregation SMC protein

locus: BSU15940

pI: 5.27

mw: 135.29 kDa

protein length: 1186 aa

gene length: 3561 bp

function: segregation of replication origins

product: chromosome condensation and segregation SMC protein

essential: yes

synonyms: ylqA

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.1|Genetics] → [category|SW 3.1.3|DNA condensation/ segregation]
• [category|SW 6|Groups of genes] → [category|SW 6.1|Essential genes]

Gene

Coordinates: 1,666,560 1,670,120

Phenotypes of a mutant

• essential [Pubmed|12682299]
• terminal phenotype of a CRISPRi knockdown mutant is moderate lysis [Pubmed|27238023]
• ''[gene|0136394A52759CEEDD8DE074ED74033C6FFB8435|smc]'' mutants are not viable on complex medim that allow rapid growth, but they are viable under conditions of slow growth [Pubmed|24440399,24440393]
• ''[gene|0136394A52759CEEDD8DE074ED74033C6FFB8435|smc]'' lethality on complex medim can be suppressed by inactivation of ''[gene|0C76CAE27ACEBC0FF6B864B9F8C7D3C41C8D2A24|tmcAL]'' and ''[gene|EA155B3BEB9EAC97114058E23B6D8CDF8823A602|tsaC]'' (constitutive [SW|stringent response]) [Pubmed|26539825]

The protein

Catalyzed reaction/ biological activity

• ATPase activity, cycles of ATP hydrolysis are used by the [SW|condensin] complex to extrude DNA loops [pubmed|30100265]

Protein family

• SMC family (according to Swiss-Prot)

Effectors of protein activity

• ATP-induced DNA-binding results in a more open conformation of the [protein|0136394A52759CEEDD8DE074ED74033C6FFB8435|Smc] dimer, and thus of the [SW|condensin] complex [Pubmed|25557547]

Structure

• [PDB|3ZGX] (complex between the head domain of [protein|0136394A52759CEEDD8DE074ED74033C6FFB8435|Smc] (aa 1 - 219 and 983 - 1186) and the N-terminal winged-helix domain of [protein|8DD968C97FDC0E81293887E2FCB7EE1A9416A333|ScpA]) [Pubmed|23353789]

[SW|Localization]

• nucleoid (heterogeneous) [Pubmed|16479537]
• the [SW|condensin] ([protein|0136394A52759CEEDD8DE074ED74033C6FFB8435|Smc])₂-[protein|8DD968C97FDC0E81293887E2FCB7EE1A9416A333|ScpA]-[protein|9137D162E6331E2B127472BCF5F49A9AE46266F3|ScpB] complex is loaded by [protein|EF4BD49FCD49EE97908973581478951C8FA196C0|ParB] to ''parS'' centromeric sites adjacent to the replication origin, travels then from the origin to the terminus at rates >50 kb per minute [Pubmed|28154080,24440393,23475963]

Expression and Regulation

Operons

• genes: [gene|BAB297D18F94FFA67B8D12A684AB4D1BCDFB4981|rnc]-[gene|0136394A52759CEEDD8DE074ED74033C6FFB8435|smc]-[gene|D519765BF5261E48512CE86245BD7B733F188D4A|ftsY]
  description: [Pubmed|11021934]

  sigma factors

  • [protein|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA]: sigma factor, [Pubmed|11021934], in [regulon|360F48D576DE950DF79C1A2677B7A35A8D8CC30C|SigA regulon]

  regulatory mechanism

  • [regulon|stringent response|stringent response]: negative regulation, in [regulon|stringent response|stringent response]

  regulation

  • expressed during vegetative growth and during sporulation in the mother cell ([protein|search|SigK], [protein|search|GerE]) [Pubmed|11021934]

Biological materials

Mutant

• MGNA-B148 (smc::erm), available at the [https://shigen.nig.ac.jp/bsub/resource/strainGeneDisrupted/detail/1147 NBRP B. subtilis, Japan]
• 1A822 ( ''smc''::pMUTIN ''trpC2'' Em), [Pubmed|12682299], available at [http://bgsc.org/getdetail.php?bgscid=1A822 the Bacillus Genetic Stock Center]
• BEC15940 (''smc''::''erm trpC2''), a CRISPRi knockdown mutant, [Pubmed|27238023], is available at the [http://bgsc.org Bacillus Genetic Stock Center]

References

Reviews

• 19308706,22934648,22047950,22933559,24118085,25460803,26706151,29182912,27075410

Original publications

• 27238023,9791128,12100548,17416649,19450516,12421306,11395470,19450517,19450516,15009890,16479537,21630458,23353789,25071173,22385855,25951515,26253537,24440399,24440393,23475963,25557547,25664627,26295962,26539825,26725510,26904953,28154080,28286005,28689660,30100265,30192981