Difference between revisions of "YdaO"

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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
 
* '''Modification:'''
 
* '''Modification:'''
  
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
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* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ydaO_486432_488255_1 ydaO] {{PubMed|22383849}}
 
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ydaO_486432_488255_1 ydaO] {{PubMed|22383849}}
  
* '''Sigma factor:'''  
+
* '''[[Sigma factor]]:'''  
  
* '''Regulation:'''  
+
* '''Regulation:'''   
** induced if the energy charge is low ([[ydaO riboswitch]]) {{PubMed|23086297}}
 
  
 
* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
** expression is controlled via termination antitermination by the [[ydaO riboswitch]] {{PubMed|23086297,20511502}}  
+
** expression is controlled via termination antitermination by the [[ydaO riboswitch]], expression is switched off upon binding od c-di-AMP {{PubMed|24141192,20511502}}  
  
 
* '''Additional information:'''
 
* '''Additional information:'''
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=References=
 
=References=
  
<pubmed>15096624,20511502, 23086297 </pubmed>
+
<pubmed>15096624,20511502, 23086297 24141192</pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 17:08, 14 December 2013

  • Description: putative transporter

Gene name ydaO
Synonyms
Essential no
Product unknown
Function unknown
Gene expression levels in SubtiExpress: ydaO
MW, pI 66 kDa, 9.929
Gene length, protein length 1821 bp, 607 aa
Immediate neighbours ydaN, mutT
Sequences Protein DNA DNA_with_flanks
Genetic context
YdaO context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YdaO expression.png















Categories containing this gene/protein

membrane proteins, proteins of unknown function

This gene is a member of the following regulons

YdaO riboswitch

The gene

Basic information

  • Locus tag: BSU04320

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

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

Extended information on the protein

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

Database entries

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

Additional information

Expression and regulation

  • Operon:
  • Regulation:
  • Regulatory mechanism:
    • expression is controlled via termination antitermination by the ydaO riboswitch, expression is switched off upon binding od c-di-AMP PubMed
  • Additional information:

Biological materials

  • Expression vector:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Your additional remarks

References

James W Nelson, Narasimhan Sudarsan, Kazuhiro Furukawa, Zasha Weinberg, Joy X Wang, Ronald R Breaker
Riboswitches in eubacteria sense the second messenger c-di-AMP.
Nat Chem Biol: 2013, 9(12);834-9
[PubMed:24141192] [WorldCat.org] [DOI] (I p)

Peter Y Watson, Martha J Fedor
The ydaO motif is an ATP-sensing riboswitch in Bacillus subtilis.
Nat Chem Biol: 2012, 8(12);963-5
[PubMed:23086297] [WorldCat.org] [DOI] (I p)

Kirsten F Block, Ming C Hammond, Ronald R Breaker
Evidence for widespread gene control function by the ydaO riboswitch candidate.
J Bacteriol: 2010, 192(15);3983-9
[PubMed:20511502] [WorldCat.org] [DOI] (I p)

Jeffrey E Barrick, Keith A Corbino, Wade C Winkler, Ali Nahvi, Maumita Mandal, Jennifer Collins, Mark Lee, Adam Roth, Narasimhan Sudarsan, Inbal Jona, J Kenneth Wickiser, Ronald R Breaker
New RNA motifs suggest an expanded scope for riboswitches in bacterial genetic control.
Proc Natl Acad Sci U S A: 2004, 101(17);6421-6
[PubMed:15096624] [WorldCat.org] [DOI] (P p)