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Categories containing this gene/protein

transcription, sigma factors and their control

This gene is a member of the following regulons

CcpA regulon

The SigL regulon

Transcription factors activating transcription at SigL-dependent promoters


  • Coordinates on the chromosome (coding sequence): 3,512,498 -> 3,513,808
  • Phenotypes of a mutant

  • The mutant is cold-sensitive and unable to use arginine as a single carbon source. PubMed
  • The protein

    Catalyzed reaction/ biological activity

  • Binding to promoters of the -12, -24 type
  • Protein family

  • sigma-54 factor family (according to Swiss-Prot) sigma-54 factor family
  • Paralogous protein(s)

    Kinetic information


  • DNA binding domain (H-T-H motif) (324–343)
  • pron box domain (413–421)
  • 3 x Compositional bias domain (6–21),(32–53),(112–136)
  • Modification


    Effectors of protein activity


  • 5BYH (E. coli RNA polymerase containing Sigma-54) PubMed
  • Localization


  • SigL-(RpoB-RpoC-RpoA) PubMed
  • SigL-AcoR, SigL-RocR, SigL-LevR, SigL-BkdR, SigL-YplP,
  • Additional information

  • Transcription initiation by SigL-containing RNA polymerase requires the activity of ATP-hydrolyzing transcription activators.
  • Expression and Regulation


  • sigL (according to DBTBS)
  • Sigma factor


  • repressed by glucose (CcpA) PubMed
  • Regulatory mechanism

  • CcpA: transcription repression, transcriptional roadblock PubMed
  • Additional information

    Biological materials


  • GP146 ( sigL::spc), available in Jörg Stülke's lab PubMed
  • GP2302 ( sigL::tet), available in Jörg Stülke's lab
  • 1A914 ( sigL::kan), PubMed, available at BGSC
  • Expression vector

    lacZ fusion

    GFP fusion

    two-hybrid system

    FLAG-tag construct


    Labs working on this gene/protein

  • Michel Debarbouille, Pasteur Institute, Paris, France Homepage
  • References


    Zhang N, Buck M

    A perspective on the enhancer dependent bacterial RNA polymerase

    Biomolecules. 2015 May 21;5(2):1012-9. doi: 10.3390/biom5021012. Review. PubMed PMID: 26010401; PubMed Central PMCID: PMC4496707.
    Joly N, Zhang N, Buck M, Zhang X

    Coupling AAA protein function to regulated gene expression

    Biochim Biophys Acta. 2012 Jan;1823(1):108-16. doi: 10.1016/j.bbamcr.2011.08.012. Epub 2011 Aug 31. Review. PubMed PMID: 21906631.
    Shingler V

    Signal sensory systems that impact σ⁵⁴ -dependent transcription

    FEMS Microbiol Rev. 2011 May;35(3):425-40. doi: 10.1111/j.1574-6976.2010.00255.x. Epub 2010 Nov 5. Review. PubMed PMID: 21054445.
    Buck M, Gallegos MT, Studholme DJ, Guo Y, Gralla JD

    The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor

    J Bacteriol. 2000 Aug;182(15):4129-36. Review. PubMed PMID: 10894718; PubMed Central PMCID: PMC101881.
    Merrick MJ

    In a class of its own--the RNA polymerase sigma factor sigma 54 (sigma N)

    Mol Microbiol. 1993 Dec;10(5):903-9. Review. PubMed PMID: 7934866.

    Original publications

    Yang Y, Darbari VC, Zhang N, Lu D, Glyde R, Wang YP, Winkelman JT, Gourse RL, Murakami KS, Buck M, Zhang X


    Structures of the RNA polymerase-σ54 reveal new and conserved regulatory strategies. Science. 2015 Aug 21;349(6250):882-5. doi: 10.1126/science.aab1478. PubMed PMID: 26293966; PubMed Central PMCID: PMC4681505.
    Sharma A, Leach RN, Gell C, Zhang N, Burrows PC, Shepherd DA, Wigneshweraraj S, Smith DA, Zhang X, Buck M, Stockley PG, Tuma R

    Domain movements of the enhancer-dependent sigma factor drive DNA delivery into the RNA polymerase active site: insights from single molecule studies

    Nucleic Acids Res. 2014 Apr;42(8):5177-90. doi: 10.1093/nar/gku146. Epub 2014 Feb 19. PubMed PMID: 24553251; PubMed Central PMCID: PMC4005640.
    Marciniak BC, Pabijaniak M, de Jong A, Dűhring R, Seidel G, Hillen W, Kuipers OP

    High- and low-affinity cre boxes for CcpA binding in Bacillus subtilis revealed by genome-wide analysis

    BMC Genomics. 2012 Aug 17;13:401. doi: 10.1186/1471-2164-13-401. PubMed PMID: 22900538; PubMed Central PMCID: PMC3463425.
    Wiegeshoff F, Beckering CL, Debarbouille M, Marahiel MA

    Sigma L is important for cold shock adaptation of Bacillus subtilis

    J Bacteriol. 2006 Apr;188(8):3130-3. PubMed PMID: 16585774; PubMed Central PMCID: PMC1446980.
    Choi SK, Saier MH Jr

    Regulation of sigL expression by the catabolite control protein CcpA involves a roadblock mechanism in Bacillus subtilis: potential connection between carbon and nitrogen metabolism

    J Bacteriol. 2005 Oct;187(19):6856-61. PubMed PMID: 16166551; PubMed Central PMCID: PMC1251575.
    Ali NO, Bignon J, Rapoport G, Debarbouille M

    Regulation of the acetoin catabolic pathway is controlled by sigma L in Bacillus subtilis

    J Bacteriol. 2001 Apr;183(8):2497-504. PubMed PMID: 11274109; PubMed Central PMCID: PMC95166.
    Débarbouillé M, Martin-Verstraete I, Kunst F, Rapoport G

    The Bacillus subtilis sigL gene encodes an equivalent of sigma 54 from gram-negative bacteria

    Proc Natl Acad Sci U S A. 1991 Oct 15;88(20):9092-6. PubMed PMID: 1924373; PubMed Central PMCID: PMC52658.
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