Difference between revisions of "OhrR"

From SubtiWiki
Jump to: navigation, search
(→‎References)
(→‎References)
 
(28 intermediate revisions by 5 users not shown)
Line 10: Line 10:
 
|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   
Line 20: Line 24:
 
|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/>
 +
 +
= [[Categories]] containing this gene/protein =
 +
{{SubtiWiki category|[[transcription factors and their control]]}},
 +
{{SubtiWiki category|[[resistance against oxidative and electrophile stress]]}}
  
−
<br/><br/><br/>
+
= This gene is a member of the following [[regulons]] =
  
 +
=The [[OhrR regulon]]:=
 +
* ''[[ohrA]]''
 
=The gene=
 
=The gene=
  
Line 40: 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 54: Line 71:
 
* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
  
−
* '''Protein family:'''
+
* '''Protein family:''' [[MarR family]]
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 62: Line 79:
 
* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
−
* '''Domains:'''  
+
* '''[[Domains]]:'''  
  
−
* '''Modification:'''
+
* '''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:'''
+
* '''[[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)
  
 
* '''UniProt:''' [http://www.uniprot.org/uniprot/O34777 O34777]
 
* '''UniProt:''' [http://www.uniprot.org/uniprot/O34777 O34777]
Line 88: Line 111:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''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]]:'''  
+
* '''[[Sigma factor]]:''' [[SigA]]
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
Line 96: Line 121:
 
* '''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 =
Line 121: Line 147:
 
=References=
 
=References=
 
==Reviews==
 
==Reviews==
−
<pubmed>19575568 </pubmed>
+
<pubmed>22797754 20626317 19575568 20094649  25852656</pubmed>
 
==Original Publications==
 
==Original Publications==
−
<pubmed>16209951,18487332,17660290,17502599,12486061,11418552,18586944,11983871,18363800,19129220</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

Original Publications

Retrieved from "http://subtiwiki-test.uni-goettingen.de/wiki//index.php?title=OhrR&oldid=207672"