SigL

• Description: sigma factor of the RNA polymerase, Sigma-54, Sigma L
  
  

Gene name	sigL
Synonyms
Essential	no
Product	RNA polymerase sigma-54 factor (sigma-L)
Function	utilization of arginin, acetoin and fructose, required for cold adaptation
Gene expression levels in SubtiExpress: sigL
Interactions involving this protein in SubtInteract: SigL
MW, pI	49,5 kDa, 7.79
Gene length, protein length	1308 bp, 436 amino acids
Immediate neighbours	yvfH, yvfG
Sequences	Protein DNA DNA_with_flanks
Genetic context This image was kindly provided by SubtiList
Expression at a glance   PubMed

Categories containing this gene/protein

transcription, sigma factors and their control

This gene is a member of the following regulons

CcpA regulon

The gene

Basic information

• Locus tag: BSU34200

Phenotypes of a mutant

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

Database entries

• BsubCyc: BSU34200

• DBTBS entry: [1]

• SubtiList entry: [2]

The protein

Basic information/ Evolution

• 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):

Transcription factors activating transcription at SigL-dependent promoters

AcoR, BkdR, LevR, RocR, YplP

Extended information on the protein

• Kinetic information:

• Domains:
  • 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:

• Cofactor(s):

• Effectors of protein activity:

• Interactions:
  • SigL-(RpoB-RpoC-RpoA) PubMed
  • SigL-AcoR, SigL-RocR, SigL-LevR, SigL-BkdR, SigL-YplP,

• Localization:

Database entries

• BsubCyc: BSU34200

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

• UniProt: P24219

• KEGG entry: [3]

Additional information

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

Transcription factors activating transcription at SigL-dependent promoters

Expression and regulation

• Operon: sigL (according to DBTBS)

• Expression browser: sigL PubMed

• Sigma factor:

• Regulation: repressed by glucose (CcpA) PubMed

• Regulatory mechanism: CcpA: transcription repression, transcriptional roadblock PubMed

• Additional information:

Biological materials

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

• Expression vector:

• lacZ fusion:

• GFP fusion:

• Antibody:

Labs working on this gene/protein

Michel Debarbouille, Pasteur Institute, Paris, France Homepage

References

Reviews

Nan Zhang, Martin Buck
A perspective on the enhancer dependent bacterial RNA polymerase.
Biomolecules: 2015, 5(2);1012-9
[PubMed:26010401] [WorldCat.org] [DOI] (I e)

Victoria Shingler
Signal sensory systems that impact σ⁵⁴ -dependent transcription.
FEMS Microbiol Rev: 2011, 35(3);425-40
[PubMed:21054445] [WorldCat.org] [DOI] (I p)

M Buck, M T Gallegos, D J Studholme, Y Guo, J D Gralla
The bacterial enhancer-dependent sigma(54) (sigma(N)) transcription factor.
J Bacteriol: 2000, 182(15);4129-36
[PubMed:10894718] [WorldCat.org] [DOI] (P p)

M J Merrick
In a class of its own--the RNA polymerase sigma factor sigma 54 (sigma N).
Mol Microbiol: 1993, 10(5);903-9
[PubMed:7934866] [WorldCat.org] [DOI] (P p)

Original publications

Yun Yang, Vidya C Darbari, Nan Zhang, Duo Lu, Robert Glyde, Yi-Ping Wang, Jared T Winkelman, Richard L Gourse, Katsuhiko S Murakami, Martin Buck, Xiaodong Zhang
TRANSCRIPTION. Structures of the RNA polymerase-σ54 reveal new and conserved regulatory strategies.
Science: 2015, 349(6250);882-5
[PubMed:26293966] [WorldCat.org] [DOI] (I p)

Amit Sharma, Robert N Leach, Christopher Gell, Nan Zhang, Patricia C Burrows, Dale A Shepherd, Sivaramesh Wigneshweraraj, David Alastair Smith, Xiaodong Zhang, Martin Buck, Peter G Stockley, Roman Tuma
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, 42(8);5177-90
[PubMed:24553251] [WorldCat.org] [DOI] (I p)

Bogumiła C Marciniak, Monika Pabijaniak, Anne de Jong, Robert Dűhring, Gerald Seidel, Wolfgang Hillen, Oscar P Kuipers
High- and low-affinity cre boxes for CcpA binding in Bacillus subtilis revealed by genome-wide analysis.
BMC Genomics: 2012, 13;401
[PubMed:22900538] [WorldCat.org] [DOI] (I e)

Frank Wiegeshoff, Carsten L Beckering, Michel Debarbouille, Mohamed A Marahiel
Sigma L is important for cold shock adaptation of Bacillus subtilis.
J Bacteriol: 2006, 188(8);3130-3
[PubMed:16585774] [WorldCat.org] [DOI] (P p)

Soo-Keun Choi, Milton H Saier
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, 187(19);6856-61
[PubMed:16166551] [WorldCat.org] [DOI] (P p)

N O Ali, J Bignon, G Rapoport, M Debarbouille
Regulation of the acetoin catabolic pathway is controlled by sigma L in Bacillus subtilis.
J Bacteriol: 2001, 183(8);2497-504
[PubMed:11274109] [WorldCat.org] [DOI] (P p)

M Débarbouillé, I Martin-Verstraete, F Kunst, G Rapoport
The Bacillus subtilis sigL gene encodes an equivalent of sigma 54 from gram-negative bacteria.
Proc Natl Acad Sci U S A: 1991, 88(20);9092-6
[PubMed:1924373] [WorldCat.org] [DOI] (P p)