IlvB - Revision history

Jstuelk: /* References */

2015-07-30T13:00:09Z

‎References

Jstuelk: /* References */

2015-07-30T09:16:47Z

‎References

Jstuelk: /* References */

2014-09-19T12:35:38Z

‎References

134.76.70.252 at 14:09, 17 April 2014

2014-04-17T14:09:05Z

134.76.70.252 at 09:59, 17 April 2014

2014-04-17T09:59:16Z

134.76.38.147 at 14:26, 2 April 2014

2014-04-02T14:26:00Z

134.76.70.252 at 11:23, 7 January 2014

2014-01-07T11:23:25Z

Jstuelk: /* References */

2013-12-22T12:20:37Z

‎References

Jstuelk at 12:18, 22 December 2013

2013-12-22T12:18:41Z

134.76.70.252 at 14:11, 16 May 2013

2013-05-16T14:11:50Z

← Older revision		Revision as of 13:00, 30 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' acetolactate synthase (large subunit) <br/><br/>~~	+	{{#bank: IlvB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''ilvB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| acetolactate synthase (large subunit)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of branched-chain amino acids~~
−	\|-
−	\|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=BSU28310 ilvB]
−	\|-
−	\|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=ilvB ilvB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 62 kDa, 5.178~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1722 bp, 574 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ilvH]]'', ''[[ysnD]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28310 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28310 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28310 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ilvB_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=ilvB_2895248_2896972_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ilvB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28310]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU28310
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28310&redirect=T BSU28310]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ilvBHC-leuABCD.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10670]
−
−	~~=== Additional information===~~
−
−
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis/ acquisition of amino acids]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~[[CodY regulon]], [[CcpA regulon]], [[TnrA regulon]], [[T-box]]~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' 2 pyruvate = 2-acetolactate + CO<sub>2</sub> (according to Swiss-Prot)
−
−	* '''Protein family:''' TPP enzyme family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[AlsS]], [[YdaP]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-297 {{PubMed\|22517742}}
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28310&redirect=T BSU28310]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1N53 1N53] (T box RNA)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37251 P37251]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28310]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.2.1.6 2.2.1.6]
−
−	~~=== Additional information===~~
−	* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[ilvB]]-[[ilvH]]-[[ilvC]]-[[leuA]]-[[leuB]]-[[leuC]]-[[leuD]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/1577690 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ilvB_2895248_2896972_-1 ilvB] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/1577690 PubMed]
−
−	* '''Regulation:'''
−	** for a complete overview on the regulation of the ilv operon, see [http://www.ncbi.nlm.nih.gov/pubmed/20935095 Brinsmade ''et al''.]
−	** expression is stimulated in the presence of glucose ([[CcpA]]) [http://www.ncbi.nlm.ntnrih.gov/sites/entrez/12193635 PubMed]
−	** repressed under nitrogen limiting conditions (glutamine or ammonium) ([[TnrA]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/15547269 PubMed]
−	** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
−	** repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[CcpA]]: transcription activation [http://www.ncbi.nlm.nih.gov/sites/entrez/12193635 PubMed]
−	** repression by BCAA: tRNA-controlled [[RNA switch]] ([[T-box]]) that mediates termination/antitermination
−	** [[TnrA]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/15547269 PubMed]
−	** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed1] [http://www.ncbi.nlm.nih.gov/sites/entrez/18083814 PubMed2]
−
−	* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 1230 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 3316 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1500 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 1905 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:''' GP324, ''ilvB'' under control of pXyl (cat), available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:''' pGP520 and pGP524 (both in [[pAC5]]), pGP523 (in [[pAC6]]), all are available in [[Jörg Stülke]]'s lab
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 25157083 25755103</pubmed>
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 151: / Line 151: @@
 =References=
-<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 25157083 </pubmed>
+<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 25157083 25755103</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 151: / Line 151: @@
 =References=
-<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 </pubmed>
+<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 25157083 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 129: / Line 129: @@
 * '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 1230 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:''' GP324, ''ilvB'' under control of pXyl (cat), available in [[Jörg Stülke]]'s lab

← Older revision		Revision as of 09:59, 17 April 2014
Line 128:		Line 128:

	* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]		* '''Additional information:''' subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 1230 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 48: / Line 48: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ilvBHC-leuABCD.html]
@@ Line 92: / Line 93: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1N53 1N53] (T box RNA)

@@ 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=BSU28310 ilvB]
 |-
-|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/ile_val_leu.html Ile, Leu, Val], [http://subtiwiki.uni-goettingen.de/pathways/CoA_synthesis.html Coenzyme A]'''
+|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=ilvB ilvB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 62 kDa, 5.178

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/><br/><br/>
+<br/><br/>
 =The gene=
@@ Line 78: / Line 78: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
 ** phosphorylated on Arg-297 {{PubMed|22517742}}
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 102: / Line 102: @@
 === Additional information===
 =Expression and regulation=
@@ Line 110: / Line 110: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ilvB_2895248_2896972_-1 ilvB] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/1577690 PubMed]
+* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/1577690 PubMed]
-* '''Regulation:''' for a complete overview on the regulation of the ilv operon, see [http://www.ncbi.nlm.nih.gov/pubmed/20935095 Brinsmade ''et al''.]
+* '''Regulation:'''
 ** expression is stimulated in the presence of glucose ([[CcpA]]) [http://www.ncbi.nlm.ntnrih.gov/sites/entrez/12193635 PubMed]
 ** repressed under nitrogen limiting conditions (glutamine or ammonium) ([[TnrA]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/15547269 PubMed]
@@ Line 128: / Line 129: @@
 =Biological materials =
-* '''Mutant:''' GP324, ''ilvB'' under control of pXyl (cat), available in [[Jörg Stülke]] lab
+* '''Mutant:''' GP324, ''ilvB'' under control of pXyl (cat), available in [[Jörg Stülke]]'s lab
 * '''Expression vector:'''
-* '''lacZ fusion:''' pGP520 and pGP524 (both in [[pAC5]]), available in [[Stülke]] lab; pGP523 (in [[pAC6]]), available in [[Stülke]] lab
+* '''lacZ fusion:''' pGP520 and pGP524 (both in [[pAC5]]), pGP523 (in [[pAC6]]), all are available in [[Jörg Stülke]]'s lab
 * '''GFP fusion:'''
@@ Line 145: / Line 146: @@
 =References=
-'''Additional publications:''' {{PubMed|21303765}}
+'''Additional publications:''' {{PubMed|}}
-<pubmed>15060025,19258532,8289305,17488331,18083814,18641142,15547269,12618455,,15547269,12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 </pubmed>
+<pubmed> 21303765 15060025,19258532,8289305,17488331,18083814, 18641142,15547269,12618455,24163341, 15547269, 12618455,12107147 1577690 12193635 15916605 15916606 15547269, 20935095 22517742 22900538 </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=ilvB_2895248_2896972_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ilvB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ilvB_2895248_2896972_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ilvB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28310]]
 |-
 |}