TreR - Revision history

Jstuelk at 17:46, 11 June 2014

2014-06-11T17:46:19Z

134.76.38.147 at 13:12, 2 April 2014

2014-04-02T13:12:22Z

134.76.70.252 at 10:20, 7 January 2014

2014-01-07T10:20:43Z

134.76.70.252 at 12:46, 16 May 2013

2013-05-16T12:46:55Z

134.76.70.252 at 09:42, 14 May 2013

2013-05-14T09:42:52Z

134.76.70.252 at 12:21, 13 May 2013

2013-05-13T12:21:48Z

Kgunka at 14:12, 12 December 2012

2012-12-12T14:12:26Z

Raphael2215 at 11:16, 13 August 2012

2012-08-13T11:16:30Z

134.76.70.252 at 15:58, 6 August 2012

2012-08-06T15:58:06Z

Jstuelk at 12:41, 14 July 2012

2012-07-14T12:41:00Z

← Older revision		Revision as of 17:46, 11 June 2014
Line 1:		Line 1:
−	* '''Description:''' transcription repressor of the ''[[treP]]-[[treA]]-[[treR]]'' operon, ([[GntR family]]) <br/><br/>	+	{{#bank: TreR}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''treR''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yfxA ''~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcription repressor, ([[GntR family]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of trehalose utilization~~
−	\|-
−	\|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=BSU07820 treR]
−	\|-
−	\|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=treR treR]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 27 kDa, 6.82~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 714 bp, 238 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[treA]]'', ''[[hypO]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07820 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:treR_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=treR_853556_854272_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:treR_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07820]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[PhoP regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[TreR regulon]]}}~~
−
−	~~=The [[TreR regulon]]=~~
−	* ''[[treP]]-[[treA]]-[[treR]]''
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU07820
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07820&redirect=T BSU07820]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trePAR.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11011]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU07820&redirect=T BSU07820]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2OGG 2OGG] (effector binding domain) {{PubMed\|17705272}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39796 P39796]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU07820]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[treP]]-[[treA]]-[[treR]]'' {{PubMed\|8755887}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=treR_853556_854272_1 treR] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|8755887}}
−
−	* '''Regulation:'''
−	** induced by trehalose ([[TreR]]) {{PubMed\|8755887}}
−	** repressed by glucose ([[CcpA]]) {{PubMed\|18977770}}
−	** expressed under conditions of phosphate limitation ([[PhoP]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/21636651 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[TreR]]: transcription repression {{PubMed\|8755887}}
−	** [[CcpA]]: transcription repression {{PubMed\|18977770}}
−	** [[PhoP]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/21636651 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~'''Additional publications:''' {{PubMed\|21636651}}~~
−
−	~~<pubmed>8755887,9829827,8917076, 17705272,18977770, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trePAR.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=2OGG 2OGG] (effector binding domain) {{PubMed|17705272}}

@@ 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=BSU07820 treR]
 |-
-|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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
+|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=treR treR]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 27 kDa, 6.82

@@ 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=treR_853556_854272_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:treR_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=treR_853556_854272_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:treR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU07820]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[treA]]'', ''[[hypO]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07820 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU07820 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU07820 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU07820 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:treR_context.gif]]

@@ Line 11: / Line 11: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || transcription repressor, ([[GntR family]])
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || regulaation of trehalose utilization
+|style="background:#ABCDEF;" align="center"|'''Function''' || regulation of trehalose utilization
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU07820 treR]
@@ Line 36: / Line 36: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =

@@ Line 1: / Line 1: @@
+* '''Description:''' transcription repressor of the ''[[treP]]-[[treA]]-[[treR]]'' operon,  ([[GntR family]]) <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-