CdaR

• Description: effector protein controlling CdaA diadenylate cyclase activity
  
  

Gene name	cdaR
Synonyms	ybbR
Essential	no
Product	effector protein controlling CdaA diadenylate cyclase activity
Function	regulation of c-di-AMP synthesis
Gene expression levels in SubtiExpress: cdaR
Interactions involving this protein in SubtInteract: CdaR
Metabolic function and regulation of this protein in SubtiPathways: cdaR
MW, pI	52 kDa, 4.719
Gene length, protein length	1449 bp, 483 aa
Immediate neighbours	cdaA, glmM
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

metabolism of signalling nucleotides

The gene

Basic information

• Locus tag: BSU01760

Database entries

• BsubCyc: BSU01760

• DBTBS entry: no entry

• SubtiList entry: [1]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity:
  • stimulates CdaA activity upon protein-protein interaction PubMed

• Protein family:

• Paralogous protein(s):

Extended information on the protein

• Kinetic information:

• Domains:

• Modification:

• Cofactors:

• Effectors of protein activity:

• Interactions:
  • CdaA-CdaR, to stimulate CdaA activity PubMed

• Localization:
  • cell membrane, oriented towards the outside PubMed

Database entries

• BsubCyc: BSU01760

• Structure:

• UniProt: O34659

• KEGG entry: [2]

• E.C. number:

Expression and regulation

• Operon: cdaA-cdaR-glmM-glmS PubMed

• Expression browser: cdaR PubMed

• Sigma factor: SigA PubMed

• Regulation:

• Regulatory mechanism:

• Additional information: the cdaA-cdaR part of the mRNA is very stable (half-life > 15 min) PubMed
  • number of protein molecules per cell (minimal medium with glucose and ammonium): 60 PubMed
  • number of protein molecules per cell (complex medium with amino acids, without glucose): 138 PubMed

Biological materials

• Mutant:
  • GP999 (cdaR::cat), available in Jörg Stülke's lab
  • GP985 (cdaA-cdaR::cat), available in Jörg Stülke's lab

• Expression vector:
  • IPTG inducible expression of Strep-cdaR in E. coli: pGP2565 (in pGP172), available in Jörg Stülke's lab
  • IPTG inducible expression of His-cdaR in E. coli: pGP2557 (in pET19b), available in Jörg Stülke's lab

• lacZ fusion:

• GFP fusion:

• two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jörg Stülke's lab. Respective plasmids: pGP1989 and pGP1992.

• Strep-tag construct:
  • GP1330 (aphA3, based on pGP1460), available in Jörg Stülke's lab
  • GP1380 lacA::cdaR-Strep aphA3 glmM-3xFLAG ermC (based on pGP1460 and pGP1087), available in Jörg Stülke's lab

• Antibody: available in Jörg Stülke's lab

References

Reviews

Fabian M Commichau, Achim Dickmanns, Jan Gundlach, Ralf Ficner, Jörg Stülke
A jack of all trades: the multiple roles of the unique essential second messenger cyclic di-AMP.
Mol Microbiol: 2015, 97(2);189-204
[PubMed:25869574] [WorldCat.org] [DOI] (I p)

Original publications

Jan Gundlach, Felix M P Mehne, Christina Herzberg, Jan Kampf, Oliver Valerius, Volkhard Kaever, Jörg Stülke
An Essential Poison: Synthesis and Degradation of Cyclic Di-AMP in Bacillus subtilis.
J Bacteriol: 2015, 197(20);3265-74
[PubMed:26240071] [WorldCat.org] [DOI] (I p)

Felix M P Mehne, Katrin Gunka, Hinnerk Eilers, Christina Herzberg, Volkhard Kaever, Jörg Stülke
Cyclic di-AMP homeostasis in bacillus subtilis: both lack and high level accumulation of the nucleotide are detrimental for cell growth.
J Biol Chem: 2013, 288(3);2004-17
[PubMed:23192352] [WorldCat.org] [DOI] (I p)

Yun Luo, John D Helmann
Analysis of the role of Bacillus subtilis σ(M) in β-lactam resistance reveals an essential role for c-di-AMP in peptidoglycan homeostasis.
Mol Microbiol: 2012, 83(3);623-39
[PubMed:22211522] [WorldCat.org] [DOI] (I p)

Adam W Barb, John R Cort, Jayaraman Seetharaman, Scott Lew, Hsiau-Wei Lee, Thomas Acton, Rong Xiao, Michael A Kennedy, Liang Tong, Gaetano T Montelione, James H Prestegard
Structures of domains I and IV from YbbR are representative of a widely distributed protein family.
Protein Sci: 2011, 20(2);396-405
[PubMed:21154411] [WorldCat.org] [DOI] (I p)

Jun Yin, Paul D Straight, Shaun M McLoughlin, Zhe Zhou, Alison J Lin, David E Golan, Neil L Kelleher, Roberto Kolter, Christopher T Walsh
Genetically encoded short peptide tag for versatile protein labeling by Sfp phosphopantetheinyl transferase.
Proc Natl Acad Sci U S A: 2005, 102(44);15815-20
[PubMed:16236721] [WorldCat.org] [DOI] (P p)

G Hambraeus, C von Wachenfeldt, L Hederstedt
Genome-wide survey of mRNA half-lives in Bacillus subtilis identifies extremely stable mRNAs.
Mol Genet Genomics: 2003, 269(5);706-14
[PubMed:12884008] [WorldCat.org] [DOI] (P p)