Difference between revisions of "OhrR"

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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor (MarR family)  
+
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor ([[MarR family]])  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of ''[[ohrA]]'' expression <br/>in response to organic peroxides
 
|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of ''[[ohrA]]'' expression <br/>in response to organic peroxides
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://subtiwiki.uni-goettingen.de/apps/expression/ ''Subti''Express]''': [http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13150 ohrR]
 +
|-
 +
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://subtiwiki.uni-goettingen.de/interact/ ''Subt''Interact]''': [http://subtiwiki.uni-goettingen.de/interact/index.php?protein=OhrR OhrR]
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16 kDa, 6.364   
 
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16 kDa, 6.364   
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|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ohrA]]'', ''[[ohrB]]''
 
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ohrA]]'', ''[[ohrB]]''
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB13172&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13150 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13150 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13150 DNA_with_flanks]
 
|-
 
|-
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykmA_context.gif]]
 
|colspan="2" | '''Genetic context''' <br/> [[Image:ykmA_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 +
|-
 +
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ohrR_1381434_1381877_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ohrR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13150]]
 
|-
 
|-
 
|}
 
|}
  
 
__TOC__
 
__TOC__
−
 
+
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 +
<br/><br/><br/><br/>
 
<br/><br/><br/>
 
<br/><br/><br/>
  
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= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
  
−
 
+
=The [[OhrR regulon]]:=
 +
* ''[[ohrA]]''
 
=The gene=
 
=The gene=
  
Line 47: Line 56:
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13150&redirect=T BSU13150]
  
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykmA.html]
 
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ykmA.html]
Line 53: Line 63:
  
 
=== Additional information===
 
=== Additional information===
−
 
−
 
  
  
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:'''
+
* '''Protein family:''' [[MarR family]]
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
−
* '''Modification:''' senses organic peroxides, released from DNA upon oxidation of an active site cysteine
+
* '''Modification:'''  
 +
** senses organic peroxides and NaOCl, released from DNA upon oxidation of an active site cysteine
 +
** S-bacillithiolated by NaOCl and CHP stress on Cys-15, this results in release from the'' [[ohrA]]'' promoter {{PubMed|21749987}}
  
−
* '''Cofactor(s):'''
+
* '''[[Cofactors]]:'''
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
  
−
* '''Interactions:''' forms dimers
+
* '''[[SubtInteract|Interactions]]:'''
 +
** forms dimers
 +
** [[BrxA]]-[[OhrR]], to de-bacillithiolate S-bacillithiolated [[OhrR]] {{PubMed|24313874}}
 +
** [[BrxB]]-[[OhrR]], to de-bacillithiolate S-bacillithiolated [[OhrR]] {{PubMed|24313874}}
  
−
* '''Localization:''' cytoplasm (according to Swiss-Prot)
+
* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
  
 
=== Database entries ===
 
=== Database entries ===
 +
* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU13150&redirect=T BSU13150]
  
 
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1Z91 1Z91] (reduced form),  [http://www.rcsb.org/pdb/explore.do?structureId=1Z9C 1Z9C] (complex with ''[[ohrA]]'' promoter)
 
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1Z91 1Z91] (reduced form),  [http://www.rcsb.org/pdb/explore.do?structureId=1Z9C 1Z9C] (complex with ''[[ohrA]]'' promoter)
Line 98: Line 112:
  
 
* '''Operon:''' ''ohrR'' {{PubMed|9696771}}
 
* '''Operon:''' ''ohrR'' {{PubMed|9696771}}
 +
 +
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ohrR_1381434_1381877_-1 ohrR] {{PubMed|22383849}}
  
 
* '''[[Sigma factor]]:''' [[SigA]]  
 
* '''[[Sigma factor]]:''' [[SigA]]  
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* '''Regulatory mechanism:'''  
 
* '''Regulatory mechanism:'''  
  
−
* '''Additional information:'''  
+
* '''Additional information:'''
 +
** number of protein molecules per cell (minimal medium with glucose and ammonium): 133 {{PubMed|24696501}}
  
 
=Biological materials =
 
=Biological materials =
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=References=
 
=References=
 
==Reviews==
 
==Reviews==
−
<pubmed>19575568 20094649 20626317 </pubmed>
+
<pubmed>22797754 20626317 19575568 20094649 25852656</pubmed>
−
 
 
 
==Original Publications==
 
==Original Publications==
−
<pubmed>16209951,18487332,17660290,17502599,12486061,11418552,18586944,11983871,18363800,19129220 9696771 </pubmed>
+
<pubmed>21749987,16209951,18487332,17660290,17502599,12486061,11418552,18586944,11983871,18363800,19129220 9696771 21749987 22797754 24313874 </pubmed>
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Latest revision as of 11:02, 10 April 2015

  • Description: transcription repressor of the ohrA gene

Gene name ohrR
Synonyms ykmA
Essential no
Product transcription repressor (MarR family)
Function regulation of ohrA expression
in response to organic peroxides
Gene expression levels in SubtiExpress: ohrR
Interactions involving this protein in SubtInteract: OhrR
MW, pI 16 kDa, 6.364
Gene length, protein length 441 bp, 147 aa
Immediate neighbours ohrA, ohrB
Sequences Protein DNA DNA_with_flanks
Genetic context
YkmA context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
OhrR expression.png
















Categories containing this gene/protein

transcription factors and their control, resistance against oxidative and electrophile stress

This gene is a member of the following regulons

The OhrR regulon:

The gene

Basic information

  • Locus tag: BSU13150

Phenotypes of a mutant

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

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

Extended information on the protein

  • Kinetic information:
  • Modification:
    • senses organic peroxides and NaOCl, released from DNA upon oxidation of an active site cysteine
    • S-bacillithiolated by NaOCl and CHP stress on Cys-15, this results in release from the ohrA promoter PubMed
  • Effectors of protein activity:

Database entries

  • Structure: 1Z91 (reduced form), 1Z9C (complex with ohrA promoter)
  • KEGG entry: [3]
  • 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): 133 PubMed

Biological materials

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

Labs working on this gene/protein

John Helmann, Cornell University, USA Homepage

Richard Brennan, Houston, Texas, USA Homepage

Your additional remarks

References

Reviews

Vu Van Loi, Martina Rossius, Haike Antelmann
Redox regulation by reversible protein S-thiolation in bacteria.
Front Microbiol: 2015, 6;187
[PubMed:25852656] [WorldCat.org] [DOI] (P e)

James M Dubbs, Skorn Mongkolsuk
Peroxide-sensing transcriptional regulators in bacteria.
J Bacteriol: 2012, 194(20);5495-503
[PubMed:22797754] [WorldCat.org] [DOI] (I p)

Haike Antelmann, John D Helmann
Thiol-based redox switches and gene regulation.
Antioxid Redox Signal: 2011, 14(6);1049-63
[PubMed:20626317] [WorldCat.org] [DOI] (I p)

Victor Duarte, Jean-Marc Latour
PerR vs OhrR: selective peroxide sensing in Bacillus subtilis.
Mol Biosyst: 2010, 6(2);316-23
[PubMed:20094649] [WorldCat.org] [DOI] (I p)

Peter Zuber
Management of oxidative stress in Bacillus.
Annu Rev Microbiol: 2009, 63;575-97
[PubMed:19575568] [WorldCat.org] [DOI] (I p)

Original Publications

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