slrA [2017-10-08 15:17:30]

anti-repressor, antagonist of [gene|F6C4634BF871D9A01E27014FFED7527C54BF560D|epsA]→[gene|52A47B49B1FB955EE7E3C316B57A2B4134F78480|epsO] and [gene|8C13E1EF5437DD8F9906643DEDCBB18DABE3B9E3|tapA]-[gene|09B082BF39703F0D9A5980E643175DBD59F5B228|sipW]-[gene|BF97457E986656E4A9FE7A858F5BDF1759850D5C|tasA] operons

locus: BSU38229

pI: 9.00

mw: 6.00 kDa

protein length: 52 aa

gene length: 156 bp

function: control of biofilm formation

product: antagonist of [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR] and [protein|920F91E748EE079FF864011D9052B073567C41E4|SlrR]

essential: no

synonyms

Genomic Context

categories

• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.2|Transcription factors and their control] → [category|SW 3.4.2.7|Control of transcription factor (other than two-component system)]
• [category|SW 3|Information processing] → [category|SW 3.4|Regulation of gene expression] → [category|SW 3.4.6|Transition state regulators]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.2|Biofilm formation] → [category|SW 4.1.2.4|Regulation]
• [category|SW 4|Lifestyles] → [category|SW 4.1|Exponential and early post-exponential lifestyles] → [category|SW 4.1.4|Swarming]

Gene

Coordinates: 3,923,319 → 3,923,477

The protein

Catalyzed reaction/ biological activity

• binding of [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR] resulting in induction of [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR]-repressed genes and operons [Pubmed|19788541]

Paralogous protein(s)

• [protein|24D6A7DDCB25B99FBB670E9203F826596916B35C|SinI]

Effectors of protein activity

• [protein|920F91E748EE079FF864011D9052B073567C41E4|SlrR] inhibits activity of [protein|C17C296F3EB2E106C380E3B5D784F3FA63F4C9B7|SlrA] (i. e. binding to [protein|5A6FBAE6553343092862CB79E150F934978C32A9|SinR]) [Pubmed|19788541]

Expression and Regulation

Operons

• genes: [gene|C17C296F3EB2E106C380E3B5D784F3FA63F4C9B7|slrA]
  description: [pubmed|22383849]

  regulatory mechanism

  • [protein|C3D87DAA8DB124D50D2C2B2D424C9608C0DE067F|YwcC]: repression, [Pubmed|18647168,19788541], in [regulon|C3D87DAA8DB124D50D2C2B2D424C9608C0DE067F|YwcC regulon]

  additional information

  • increased expression in a [gene|64C6D783FF3F41C81B216F798A1DC8071345B1ED|pnpA] mutant [Pubmed|26857544]
  • half-life of the mRNA: 0.56 min, this increases to 1.06 in a [gene|64C6D783FF3F41C81B216F798A1DC8071345B1ED|pnpA] mutant [Pubmed|26857544]
  • RNA degradation by [protein|64C6D783FF3F41C81B216F798A1DC8071345B1ED|PnpA] is proceeds from the 3' end of the mRNA through the [protein|7CD46C64BE69EDADF58B634DC50C3F61BFFEC5B5|Rho]-dependent terminator [Pubmed|26857544]
  • transcription termination depends on [protein|7CD46C64BE69EDADF58B634DC50C3F61BFFEC5B5|Rho] [Pubmed|26857544]

Biological materials

Mutant

• BKE38229 (Δ[gene|C17C296F3EB2E106C380E3B5D784F3FA63F4C9B7|slrA]::erm trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKE38229 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAGTAACCTCCAATTGTA, downstream forward: _UP4_TAGTCCGAACAGGCGGATCT
• BKK38229 (Δ[gene|C17C296F3EB2E106C380E3B5D784F3FA63F4C9B7|slrA]::kan trpC2) available at [http://www.bgsc.org/getdetail.php?bgscid=BKK38229 BGSC], [Pubmed|28189581], upstream reverse: _UP1_CATAGTAACCTCCAATTGTA, downstream forward: _UP4_TAGTCCGAACAGGCGGATCT

two-hybrid system

• B. pertussis adenylate cyclase-based bacterial two hybrid system ([SW|BACTH]), available in [SW|Stülke] lab

References

• 18647168,19788541,23430750,26857544