Difference between revisions of "DarA"

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* '''Description:''' unknown <br/><br/>
+
* '''Description:''' c-di-AMP-binding PII-like protein<br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
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|style="background:#ABCDEF;" align="center"| '''Essential''' ||  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' ||  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || unknown
+
|style="background:#ABCDEF;" align="center"| '''Product''' || c-di-AMP-binding PII-like protein
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
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* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
 +
** binds c-di-AMP {{PubMed|25433025}}
  
 
* '''[[SubtInteract|Interactions]]:'''
 
* '''[[SubtInteract|Interactions]]:'''
** forms homo-trimers (see [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05])
+
** forms homo-trimers {{PubMed|25433025}}
  
 
* '''[[Localization]]:'''
 
* '''[[Localization]]:'''
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* '''Structure:'''
 
* '''Structure:'''
** [http://www.pdb.org/pdb/explore/explore.do?structureId=4RLE 4RLE] (the ''B. subtilis'' protein in complex with c-di-AMP)
+
** [http://www.pdb.org/pdb/explore/explore.do?structureId=4RLE 4RLE] (the ''B. subtilis'' protein in complex with c-di-AMP) {{PubMed|25433025}}
 
** [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05] (the apoprotein from ''Pediococcus pentosaceus'', 50% identity)
 
** [http://www.pdb.org/pdb/explore/explore.do?structureId=3m05 3M05] (the apoprotein from ''Pediococcus pentosaceus'', 50% identity)
  
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=Biological materials =
 
=Biological materials =
 
* '''Mutant:'''
 
* '''Mutant:'''
** GP1712 (''[[darA]]''::''cat''), available in [[Jörg Stülke]]'s lab
+
** GP1712 (''[[darA]]''::''cat''), available in [[Jörg Stülke]]'s lab {{PubMed|25433025}}
 
** GP1713 (''[[darA]]-[[yaaR]]''::''cat''), available in [[Jörg Stülke]]'s lab
 
** GP1713 (''[[darA]]-[[yaaR]]''::''cat''), available in [[Jörg Stülke]]'s lab
  
 
* '''Expression vector:'''
 
* '''Expression vector:'''
**pGP2601: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]], available in [[Jörg Stülke]]'s lab
+
**pGP2601: IPTG inducible expression, purification in ''E. coli'' with N-terminal His-tag, in [[pWH844]], available in [[Jörg Stülke]]'s lab {{PubMed|25433025}}
 
**pGP2624: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab
 
**pGP2624: IPTG inducible expression, purification in ''E. coli'' with N-terminal Strep-tag, in [[pGP172]], available in [[Jörg Stülke]]'s lab
 
**pGP2603: expression of ''yaaQ''-Strep by [[pGP382]] in ''B. subtilis'' suitable for [[SPINE]], available in [[Jörg Stülke]]'s lab
 
**pGP2603: expression of ''yaaQ''-Strep by [[pGP382]] in ''B. subtilis'' suitable for [[SPINE]], available in [[Jörg Stülke]]'s lab
Line 142: Line 143:
  
 
=References=
 
=References=
<pubmed> 22383849</pubmed>
+
<pubmed> 22383849 25433025 </pubmed>
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 10:28, 30 November 2014

  • Description: c-di-AMP-binding PII-like protein

Gene name darA
Synonyms yaaQ
Essential
Product c-di-AMP-binding PII-like protein
Function unknown
Gene expression levels in SubtiExpress: darA
MW, pI 11 kDa, 6.088
Gene length, protein length 327 bp, 109 aa
Immediate neighbours tmk, yaaR
Sequences Protein DNA DNA_with_flanks
Genetic context
YaaQ context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YaaQ expression.png















Categories containing this gene/protein

proteins of unknown function

This gene is a member of the following regulons

The gene

Basic information

  • Locus tag: BSU00290

Phenotypes of a mutant

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):

Extended information on the protein

  • Kinetic information:
  • Modification:
  • Effectors of protein activity:

Database entries

  • Structure:
    • 4RLE (the B. subtilis protein in complex with c-di-AMP) PubMed
    • 3M05 (the apoprotein from Pediococcus pentosaceus, 50% identity)
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
  • Regulatory mechanism:
  • Additional information:
    • number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 1030 PubMed
    • number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 922 PubMed
    • number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 894 PubMed

Biological materials

  • Expression vector:
    • pGP2601: IPTG inducible expression, purification in E. coli with N-terminal His-tag, in pWH844, available in Jörg Stülke's lab PubMed
    • pGP2624: IPTG inducible expression, purification in E. coli with N-terminal Strep-tag, in pGP172, available in Jörg Stülke's lab
    • pGP2603: expression of yaaQ-Strep by pGP382 in B. subtilis suitable for SPINE, 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

Labs working on this gene/protein

Your additional remarks

References

Jan Gundlach, Achim Dickmanns, Kathrin Schröder-Tittmann, Piotr Neumann, Jan Kaesler, Jan Kampf, Christina Herzberg, Elke Hammer, Frank Schwede, Volkhard Kaever, Kai Tittmann, Jörg Stülke, Ralf Ficner
Identification, characterization, and structure analysis of the cyclic di-AMP-binding PII-like signal transduction protein DarA.
J Biol Chem: 2015, 290(5);3069-80
[PubMed:25433025] [WorldCat.org] [DOI] (I p)

Pierre Nicolas, Ulrike Mäder, Etienne Dervyn, Tatiana Rochat, Aurélie Leduc, Nathalie Pigeonneau, Elena Bidnenko, Elodie Marchadier, Mark Hoebeke, Stéphane Aymerich, Dörte Becher, Paola Bisicchia, Eric Botella, Olivier Delumeau, Geoff Doherty, Emma L Denham, Mark J Fogg, Vincent Fromion, Anne Goelzer, Annette Hansen, Elisabeth Härtig, Colin R Harwood, Georg Homuth, Hanne Jarmer, Matthieu Jules, Edda Klipp, Ludovic Le Chat, François Lecointe, Peter Lewis, Wolfram Liebermeister, Anika March, Ruben A T Mars, Priyanka Nannapaneni, David Noone, Susanne Pohl, Bernd Rinn, Frank Rügheimer, Praveen K Sappa, Franck Samson, Marc Schaffer, Benno Schwikowski, Leif Steil, Jörg Stülke, Thomas Wiegert, Kevin M Devine, Anthony J Wilkinson, Jan Maarten van Dijl, Michael Hecker, Uwe Völker, Philippe Bessières, Philippe Noirot
Condition-dependent transcriptome reveals high-level regulatory architecture in Bacillus subtilis.
Science: 2012, 335(6072);1103-6
[PubMed:22383849] [WorldCat.org] [DOI] (I p)