AlsR - Revision history

134.76.38.147 at 14:58, 2 April 2014

2014-04-02T14:58:56Z

134.76.70.252 at 11:49, 7 January 2014

2014-01-07T11:49:40Z

Jstuelk at 10:23, 10 July 2013

2013-07-10T10:23:50Z

Jstuelk: /* Original publications */

2013-05-23T12:01:00Z

‎Original publications

134.76.70.252 at 14:44, 16 May 2013

2013-05-16T14:44:55Z

134.76.70.252 at 11:27, 14 May 2013

2013-05-14T11:27:13Z

134.76.70.252 at 14:01, 13 May 2013

2013-05-13T14:01:53Z

Jstuelk at 12:31, 19 April 2013

2013-04-19T12:31:37Z

Jstuelk at 19:48, 31 January 2013

2013-01-31T19:48:45Z

Jstuelk at 16:38, 16 October 2012

2012-10-16T16:38:27Z

← Older revision		Revision as of 14:58, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' transcriptional activator of the ''[[alsS]]-[[alsD]]'' operon<br/><br/>~~	+	{{#bank: AlsR}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''alsR''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| transcriptional activator([[LysR family]])~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of acetoin synthesis (''[[alsS]]-[[alsD]]'')~~
−	\|-
−	\|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=BSU36020 alsR]
−	\|-
−	\|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=alsR alsR]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 34 kDa, 7.288~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 906 bp, 302 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[alsS]]'', ''[[ywrK]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36020 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36020 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36020 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:alsR_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=alsR_3711498_3712406_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:alsR_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36020]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[carbon core metabolism]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−	~~=The [[AlsR regulon]]:=~~
−	* ''[[alsS]]-[[alsD]]''
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU36020
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~no acetoin production~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10470]
−
−	~~=== Additional information===~~
−	* A mutation was found in this gene after evolution under relaxed selection for sporulation {{PubMed\|21821766}}
−	* Inactivation of ''[[alsR]]'', ''[[sigD]]'' and ''[[sigW]]'' increases competitive fitness of ''Bacillus subtilis'' under non-sporulating conditions {{PubMed\|22344650}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' binds the promoter region of the ''[[alsS]]-[[alsD]]'' operon in the presence of acetate, activates transcription
−
−	* '''Protein family:''' [[LysR family]] of transcription factors
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−	** K(D) value for the binding site in the ''[[alsS]]'' promoter region: 33.5 nM {{PubMed\|22178965}}
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q04778 Q04778]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU36020]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=alsR_3711498_3712406_1 alsR] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' AMBs3 (spc), available in the [[Stülke]] lab
−	** 1A978 ( ''alsR''::''cat''), {{PubMed\|7685336}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A978&Search=1A978 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~[[Elisabeth Härtig]], Braunschweig, Germany [http://www.tu-braunschweig.de/ifm/abt/jahn/groups/bs Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 23046954</pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>7685336, 21821766 22344650 23576037 22178965 23695583 23836140 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 16: / Line 16: @@
 |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=BSU36020 alsR]
 |-
-|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/carbon_flow.html Central C-metabolism]'''
+|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=alsR alsR]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 34 kDa, 7.288

@@ Line 146: / Line 146: @@
 <pubmed> 23046954</pubmed>
 ==Original publications==
-<pubmed>7685336, 21821766 22344650 23576037 22178965 23695583 </pubmed>
+<pubmed>7685336, 21821766 22344650 23576037 22178965 23695583 23836140 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 146: / Line 146: @@
 <pubmed> 23046954</pubmed>
 ==Original publications==
-<pubmed>7685336, 21821766 22344650 23576037 22178965</pubmed>
+<pubmed>7685336, 21821766 22344650 23576037 22178965 23695583 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 29: / Line 29: @@
   <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=alsR_3711498_3712406_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:alsR_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=alsR_3711498_3712406_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:alsR_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU36020]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[alsS]]'', ''[[ywrK]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36020 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36020 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36020 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU36020 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU36020 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU36020 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:alsR_context.gif]]

@@ Line 81: / Line 81: @@
 * '''Kinetic information:'''
 * '''Domains:'''
@@ Line 112: / Line 113: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=alsR_3711498_3712406_1 alsR] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 146: / Line 142: @@
 =References=
 '''Additional publications:'''  {{PubMed|22178965}}
 <pubmed>7685336, 21821766 22344650</pubmed>
 [[Category:Protein-coding genes]]