AcoA - Revision history

Julian at 12:47, 24 April 2014

2014-04-24T12:47:45Z

Julian at 10:54, 24 April 2014

2014-04-24T10:54:54Z

Julian at 08:33, 23 April 2014

2014-04-23T08:33:39Z

134.76.70.252 at 10:07, 17 April 2014

2014-04-17T10:07:22Z

134.76.38.147 at 13:13, 2 April 2014

2014-04-02T13:13:11Z

134.76.70.252 at 10:21, 7 January 2014

2014-01-07T10:21:20Z

134.76.70.252 at 15:26, 11 November 2013

2013-11-11T15:26:18Z

Jstuelk at 19:30, 8 June 2013

2013-06-08T19:30:34Z

134.76.70.252 at 12:47, 16 May 2013

2013-05-16T12:47:38Z

134.76.70.252 at 09:43, 14 May 2013

2013-05-14T09:43:36Z

← Older revision		Revision as of 12:47, 24 April 2014
Line 1:		Line 1:
−	* '''Description:''' acetoin dehydrogenase E1 component (TPP-dependent alpha subunit) <br/><br/>	+	{{#bank: AcoA}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''acoA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yfjK ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| acetoin dehydrogenase E1 component (TPP-dependent alpha subunit)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| acetoin 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=BSU08060 acoA]
−	\|-
−	~~\|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=AcoA~~ AcoA]
−	\|-
−	\|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=acoA acoA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 35 kDa, 4.912~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 999 bp, 333 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yfjL]]'', ''[[acoB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08060 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08060 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08060 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:acoA_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=acoA_879002_880003_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:acoA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08060]]~~
−	\|-
−	\|}

−	~~__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\|[[Sporulation#Sporulation_proteins/_other\|sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AcoR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigL regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU08060
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08060&redirect=T BSU08060]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/acoABCL.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12558]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):''' [[BkdAA]], [[PdhA]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** ([[AcoA]]-[[AcoB]])-[[AcoC]]-[[AcoL]]
−
−	* '''[[Localization]]:''' cytoplasm (homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU08060&redirect=T BSU08060]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31404 O31404]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU08060]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[acoA]]-[[acoB]]-[[acoC]]-[[acoL]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=acoA_879002_880003_1 acoA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109 PubMed]
−
−	* '''Regulation:'''
−	** repressed by glucose ([[CcpA]]) {{PubMed\|10666464}}
−	** induced by acetoin ([[AcoR]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109 PubMed]
−	** induced under anaerobic conditions ([[Fnr]]) {{PubMed\|16428414}}
−
−	* '''Regulatory mechanism:'''
−	** [[CcpA]]: transcription repression {{PubMed\|10666464}}
−	** [[AcoR]]: transcription activation (interaction with [[SigL]]-containing [[RNA polymerase]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109 PubMed]
−	** [[Fnr]]: indirect positive regulation via [[NarG]]-[[NarH]]-[[NarJ]]-[[NarI]] {{PubMed\|16428414}}
−
−	* '''Additional information:'''
−	** the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]
−	** the mRNA is substantially stabilized upon depletion of [[Rny\|RNase Y]] {{PubMed\|21815947}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 313 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	[[Michel Debarbouille]], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed> 22900538 21815947 11274109,10368162,10666464,12884008,16479537,11274109 16428414 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 42: / Line 42: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[utilization of specific carbon sources]]}},
-{{SubtiWiki category|[[sporulation/ other]]}}
+{{SubtiWiki category|[[Sporulation#Sporulation_proteins/_other|sporulation proteins]]}}
 = This gene is a member of the following [[regulons]] =

@@ Line 41: / Line 41: @@
 = [[Categories]] containing this gene/protein =
-{{SubtiWiki category|[[utilization of specific carbon sources]]}}
+{{SubtiWiki category|[[utilization of specific carbon sources]]}},
 = This gene is a member of the following [[regulons]] =

@@ Line 128: / Line 128: @@
 ** the mRNA is very stable (half-life > 15 min) [http://www.ncbi.nlm.nih.gov/sites/entrez/12884008 PubMed]
 ** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}
 =Biological materials =

@@ Line 57: / Line 57: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/acoABCL.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 17: / Line 17: @@
 |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=AcoA AcoA]
 |-
-|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=acoA acoA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 35 kDa, 4.912

@@ 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=BSU08060 acoA]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/AcoA AcoA]
+|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=AcoA AcoA]
 |-
 |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]'''

@@ Line 38: / Line 38: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 79: / Line 75: @@
 * '''Protein family:'''
-* '''Paralogous protein(s):'''
+* '''Paralogous protein(s):''' [[BkdAA]], [[PdhA]]
 === Extended information on the protein ===
@@ Line 115: / Line 111: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=acoA_879002_880003_1 acoA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109  PubMed]
+* '''[[Sigma factor]]:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/11274109  PubMed]
 * '''Regulation:'''
@@ Line 152: / Line 148: @@
 =References=
-<pubmed> 22900538 </pubmed>
+<pubmed> 22900538 21815947 11274109,10368162,10666464,12884008,16479537,11274109 16428414 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 30: / Line 30: @@
   <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=acoA_879002_880003_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:acoA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=acoA_879002_880003_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:acoA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU08060]]
 |-
 |}

@@ Line 25: / Line 25: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yfjL]]'', ''[[acoB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08060 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08060 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08060 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU08060 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU08060 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU08060 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:acoA_context.gif]]