Difference between revisions of "CdaA"

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|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''ybbP''
+
|''cdaA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ybbQ ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ybbP, ybbQ ''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
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|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of c-di-AMP
 
|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of c-di-AMP
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU01750 ybbP]
+
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU01750 cdaA]
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/CdaA CdaA]
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/murein/index.html Murein recycling]'''
 
|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/murein/index.html Murein recycling]'''
Line 22: Line 24:
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 819 bp, 273 aa  
 
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 819 bp, 273 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ybbM]]'', ''[[ybbR]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ybbM]]'', ''[[cdaR]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB11951&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB11951&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
Line 55: Line 57:
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
−
* inactivation of ''[[ybbP]]'' results in severe beta-lactam sensitivity {{PubMed|22211522}}
+
* inactivation of ''[[cdaA]]'' results in severe beta-lactam sensitivity {{PubMed|22211522}}
  
 
=== Database entries ===
 
=== Database entries ===
Line 73: Line 75:
 
* '''Protein family:'''
 
* '''Protein family:'''
  
−
* '''Paralogous protein(s):''' [[YojJ]]
+
* '''Paralogous protein(s):''' [[CdaS]]
  
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
Line 86: Line 88:
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
 +
** the interaction with [[CdaR]] stimulates the diadenylate cyclase activity of [[CdaA]] {{PubMed|23192352}}
  
 
* '''[[SubtInteract|Interactions]]:'''
 
* '''[[SubtInteract|Interactions]]:'''
 +
** [[CdaA]]-[[CdaR]], to stimulate [[CdaA]] activity {{PubMed|23192352}}
  
 
* '''[[Localization]]:'''
 
* '''[[Localization]]:'''
Line 108: Line 112:
 
* '''Operon:''' ''[[cdaA]]-[[cdaR]]-[[glmM]]-[[glmS]]'' {{PubMed|23192352}}  
 
* '''Operon:''' ''[[cdaA]]-[[cdaR]]-[[glmM]]-[[glmS]]'' {{PubMed|23192352}}  
  
−
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ybbP_196213_197034_1 ybbP] {{PubMed|22383849}}
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ybbP_196213_197034_1 cdaA] {{PubMed|22383849}}
  
 
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|22211522}}  
 
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|22211522}}  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  the ''[[ybbP]]-[[ybbR]]'' part of the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]
+
* '''Additional information:'''  the ''[[cdaA]]-[[cdaR]]'' part of the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]
  
 
=Biological materials =
 
=Biological materials =
  
 
* '''Mutant:'''
 
* '''Mutant:'''
−
** GP997 (''[[ybbP]]''::''cat''), available in [[Jörg Stülke]]'s lab
+
** GP997 (''[[cdaA]]''::''cat''), available in [[Jörg Stülke]]'s lab
−
** GP985 (''[[ybbP]]''-''[[ybbR]]''::''cat''), available in [[Jörg Stülke]]'s lab
+
** GP985 (''[[cdaA]]''-''[[cdaR]]''::''cat''), available in [[Jörg Stülke]]'s lab
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
−
** expression of native ''ybbP'' in ''B. subtilis'': pGP1960 (in [[pBQ200]]), available in [[Jörg Stülke]]'s lab
+
** expression of native ''cdaA'' in ''B. subtilis'': pGP1960 (in [[pBQ200]]), available in [[Jörg Stülke]]'s lab
−
** expression of ''ybbP''-Strep in ''B. subtilis'' suitable for [[SPINE]]: pGP1986 (in [[pGP382]]), available in [[Jörg Stülke]]'s lab
+
** expression of ''cdaA''-Strep in ''B. subtilis'' suitable for [[SPINE]]: pGP1986 (in [[pGP382]]), available in [[Jörg Stülke]]'s lab
 
          
 
          
 
* '''lacZ fusion:''' GP1339 (cat) based on [[pAC6]], available in [[Jörg Stülke]]'s lab
 
* '''lacZ fusion:''' GP1339 (cat) based on [[pAC6]], available in [[Jörg Stülke]]'s lab
Line 135: Line 139:
  
 
* '''FLAG-tag construct:'''
 
* '''FLAG-tag construct:'''
−
** GP1331 (''[[ybbP]]''-3xFLAG ''ermC'', based on [[pGP1087]]), available in [[Jörg Stülke]]'s lab
+
** GP1331 (''[[cdaA]]''-3xFLAG ''ermC'', based on [[pGP1087]]), available in [[Jörg Stülke]]'s lab
  
 
* '''Antibody:'''
 
* '''Antibody:'''

Revision as of 11:45, 30 November 2012

  • Description: diadenylate cyclase, synthesis of c-di-AMP in vegetative cells

Gene name cdaA
Synonyms ybbP, ybbQ
Essential no
Product diadenylate cyclase
Function synthesis of c-di-AMP
Gene expression levels in SubtiExpress: cdaA
Interactions involving this protein in SubtInteract: CdaA
Metabolic function and regulation of this protein in SubtiPathways:
Murein recycling
MW, pI 30 kDa, 8.074
Gene length, protein length 819 bp, 273 aa
Immediate neighbours ybbM, cdaR
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
YbbP context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YbbP expression.png















Categories containing this gene/protein

membrane proteins, metabolism of signalling nucleotides

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU01750

Phenotypes of a mutant

  • inactivation of cdaA results in severe beta-lactam sensitivity PubMed

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s): CdaS

Extended information on the protein

  • Kinetic information:
  • Domains: contains a DAC domain potentially involved in the synthesis of c-di-AMP PubMed
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
    • the interaction with CdaR stimulates the diadenylate cyclase activity of CdaA PubMed

Database entries

  • Structure:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
  • Regulatory mechanism:
  • Additional information: the cdaA-cdaR part of the mRNA is very stable (half-life > 15 min) PubMed

Biological materials

  • Expression vector:
  • GFP fusion:
  • two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Jörg Stülke's lab. Respective plasmid: pGP1990.
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

Reviews

Ute Römling
Great times for small molecules: c-di-AMP, a second messenger candidate in Bacteria and Archaea.
Sci Signal: 2008, 1(33);pe39
[PubMed:18714086] [WorldCat.org] [DOI] (I e)

Original publications

Additional publications: PubMed

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)

Yaara Oppenheimer-Shaanan, Ezequiel Wexselblatt, Jehoshua Katzhendler, Eylon Yavin, Sigal Ben-Yehuda
c-di-AMP reports DNA integrity during sporulation in Bacillus subtilis.
EMBO Rep: 2011, 12(6);594-601
[PubMed:21566650] [WorldCat.org] [DOI] (I 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)

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