PerR - Revision history

Jstuelk: /* Original Publications */

2015-08-12T11:10:46Z

‎Original Publications

Jstuelk: /* Reviews */

2015-07-24T11:08:17Z

‎Reviews

Jstuelk: /* Original Publications */

2014-12-11T11:41:42Z

‎Original Publications

Jstuelk at 12:23, 19 September 2014

2014-09-19T12:23:31Z

134.76.38.147 at 13:15, 2 April 2014

2014-04-02T13:15:12Z

134.76.70.252 at 10:23, 7 January 2014

2014-01-07T10:23:10Z

Jstuelk: /* Original Publications */

2013-08-13T12:37:34Z

‎Original Publications

134.76.70.252 at 12:49, 16 May 2013

2013-05-16T12:49:45Z

134.76.70.252 at 09:45, 14 May 2013

2013-05-14T09:45:40Z

134.76.70.252 at 12:24, 13 May 2013

2013-05-13T12:24:17Z

← Older revision		Revision as of 11:10, 12 August 2015
Line 1:		Line 1:
−	* '''Description:''' transcriptional repressor of the peroxide regulon, sensor of the intracellular Fe/Mn ratio <br/><br/>	+	{{#bank: PerR}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''perR''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ygaG ''~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional repressor ([[Fur family]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of the response to peroxide~~
−	\|-
−	\|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=BSU08730 perR]
−	\|-
−	\|colspan="2" style="background:#FAF8CC;" align="center"\| '''Metabolic function and regulation of this protein in [[SubtiPathways\|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=perR perR]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 16 kDa, 5.888~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 435 bp, 145 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ygaF]]'', ''[[ygzB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08730 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:perR_context.gif]]~~
−	~~<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=perR_944487_944924_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:perR_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08730]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<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]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[PerR regulon]]}}~~
−	~~=The [[PerR regulon]]=~~
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU08730
−
−	~~===Phenotypes of a mutant ===~~
−	* resistant to hydrogen peroxide, accumulates a porphyrin-like compound, and grows very slowly (due to heme sequestration by [[KatA]]) {{PubMed\|22194458}}
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08730&redirect=T BSU08730]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/perR.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12227]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' [[Fur family]]
−
−	* '''Paralogous protein(s):''' [[Zur]], [[Fur]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−	** selective metal catalyzed oxidation of two histidine residues of the regulatory site results in induction (loss of DNA-binding activity) [http://www.ncbi.nlm.nih.gov/sites/entrez/19508285 PubMed]
−
−	* '''Cofactor(s):''' contains an Fe(2+) at the regulatory site and Zn(2+) {{PubMed\|22797754}}
−
−	* '''Effectors of protein activity:'''
−	** responds to the presence of hydrogen peroxide
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08730&redirect=T BSU08730]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2RGV 2RGV] [http://www.rcsb.org/pdb/explore.do?structureId=3F8N 3F8N]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P71086 P71086]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU08730]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''perR'' {{PubMed\|12029044}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=perR_944487_944924_1 perR] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|12029044}}
−
−	* '''Regulation:'''
−	** negative autoregulation {{PubMed\|12029044}}
−	** induced in the presence of hydrogen peroxide ([[PerR]]) {{PubMed\|12029044}}
−
−	* '''Regulatory mechanism:'''
−	** [[PerR]]: transcription repression {{PubMed\|12029044}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' HB0509 (spc), available in [[John Helmann]]'s and [[Jörg Stülke]]'s labs, also GP868 (''fur::mls'', ''perR::spc'').
−	** 1A903 ( ''perR''::''kan''), {{PubMed\|12029044}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A903&Search=1A903 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−	~~[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 25160631 26070785</pubmed>~~
−
−	~~==Original Publications==~~
−	<pubmed> 8932315,18487332,14563870, 16766519,17158660,12486061,11532148,12180919,16166527, 15231799, 12029044,10913706, 21398634, 9701813, 16541078, 12029044, ,11532148, 12029044, 19508285 , 22194458 23645680 23057863 23934352 25486128 </pubmed>
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 143: / Line 143: @@
 =References=
 ==Reviews==
-<pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 25160631 </pubmed>
+<pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 25160631 26070785</pubmed>
 ==Original Publications==
 <pubmed> 8932315,18487332,14563870, 16766519,17158660,12486061,11532148,12180919,16166527, 15231799, 12029044,10913706, 21398634, 9701813, 16541078, 12029044, ,11532148, 12029044, 19508285 , 22194458 23645680 23057863 23934352 25486128 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 145: / Line 145: @@
 <pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 25160631 </pubmed>
 ==Original Publications==
-<pubmed> 8932315,18487332,14563870, 16766519,17158660,12486061,11532148,12180919,16166527, 15231799, 12029044,10913706, 21398634, 9701813, 16541078, 12029044, ,11532148, 12029044, 19508285 , 22194458 23645680 23057863 23934352</pubmed>
+<pubmed> 8932315,18487332,14563870, 16766519,17158660,12486061,11532148,12180919,16166527, 15231799, 12029044,10913706, 21398634, 9701813, 16541078, 12029044, ,11532148, 12029044, 19508285 , 22194458 23645680 23057863 23934352 25486128 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 1: / Line 1: @@
-* '''Description:''' transcriptional repressor of the peroxide regulon <br/><br/>
+* '''Description:''' transcriptional repressor of the peroxide regulon, sensor of the intracellular Fe/Mn ratio <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
@@ Line 143: / Line 143: @@
 =References=
 ==Reviews==
-<pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 </pubmed>
+<pubmed> 19575568 19508286 ,20094649 , 20977351 22797754 25160631 </pubmed>
 ==Original Publications==
 <pubmed> 8932315,18487332,14563870, 16766519,17158660,12486061,11532148,12180919,16166527, 15231799, 12029044,10913706, 21398634, 9701813, 16541078, 12029044, ,11532148, 12029044, 19508285 , 22194458 23645680 23057863 23934352</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 54: / Line 54: @@
 * resistant to hydrogen peroxide, accumulates a porphyrin-like compound, and grows very slowly (due to heme sequestration by [[KatA]]) {{PubMed|22194458}}
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/perR.html]
@@ Line 91: / Line 92: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2RGV 2RGV] [http://www.rcsb.org/pdb/explore.do?structureId=3F8N 3F8N]

@@ Line 15: / Line 15: @@
 |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=BSU08730 perR]
 |-
-|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/stress_response.html Stress]'''
+|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/subtipathways/search.php?enzyme=perR perR]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 16 kDa, 5.888

@@ Line 28: / Line 28: @@
   <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=perR_944487_944924_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:perR_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=perR_944487_944924_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:perR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08730]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ygaF]]'', ''[[ygzB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08730 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08730 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:perR_context.gif]]