LysC - Revision history

Jstuelk: /* Reviews */

2015-05-19T15:39:32Z

‎Reviews

Jstuelk: /* Other original Publications */

2015-05-19T15:31:30Z

‎Other original Publications

Jstuelk: /* Other original Publications */

2015-05-05T14:33:53Z

‎Other original Publications

134.76.70.252 at 14:09, 17 April 2014

2014-04-17T14:09:43Z

134.76.70.252 at 09:59, 17 April 2014

2014-04-17T09:59:39Z

134.76.38.147 at 14:26, 2 April 2014

2014-04-02T14:26:55Z

Jstuelk at 14:44, 5 March 2014

2014-03-05T14:44:27Z

134.76.70.252 at 11:24, 7 January 2014

2014-01-07T11:24:04Z

Jstuelk at 13:10, 28 November 2013

2013-11-28T13:10:10Z

134.76.70.252 at 14:12, 16 May 2013

2013-05-16T14:12:35Z

← Older revision		Revision as of 15:39, 19 May 2015
Line 1:		Line 1:
−	* '''Description:~~''' aspartokinase II (alpha and beta subunits) <br/><br/>~~	+	{{#bank: LysC}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''lysC''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ask, aecA ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| aspartokinase II (alpha and beta subunits)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of lysine~~
−	\|-
−	\|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=BSU28470 lysC]
−	\|-
−	\|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=lysC lysC]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 43 kDa, 4.643~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1224 bp, 408 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yslB]]'', ''[[uvrC]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28470 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28470 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28470 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:lysC_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=lysC_2909520_2910746_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:lysC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28470]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis/ acquisition of amino acids]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[L-box]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU28470
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28470&redirect=T BSU28470]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/lysC.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10350]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' ATP + L-aspartate = ADP + 4-phospho-L-aspartate (according to Swiss-Prot)
−
−	* '''Protein family:''' aspartokinase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[DapG]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28470&redirect=T BSU28470]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=2RE1 2RE1] (from ''Neisseria meningitidis mc58'', 40% identity, 58% similarity)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P08495 P08495]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28470]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.2.4 2.7.2.4]
−
−	~~=== 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], also degraded upon ammonium or amino acid starvation [http://www.ncbi.nlm.nih.gov/sites/entrez/2168395 PubMed]
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''lysC'' [http://www.ncbi.nlm.nih.gov/pubmed/19636616 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lysC_2909520_2910746_-1 lysC] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** repressed in the presence of lysine ([[L-box]]) [http://www.ncbi.nlm.nih.gov/pubmed/19636616 PubMed]
−	** expression activated by glucose (5.4 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed]
−	** repressed by casamino acids [http://www.ncbi.nlm.nih.gov/pubmed/12107147 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[L-box]]: a riboswich that mediates transcription terimnation antitermination control [http://www.ncbi.nlm.nih.gov/pubmed/19636616 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], also degraded upon ammonium or amino acid starvation [http://www.ncbi.nlm.nih.gov/sites/entrez/2168395 PubMed]
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 1459 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 4406 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 1282 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 806 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed> 19946135 </pubmed>~~
−	~~==Original Publications==~~
−	~~===The [[L-box]] [[riboswitch]]===~~
−	~~<pubmed>14523230, 14597663, 19636616 21169337 22416067 23067368 </pubmed>~~
−
−	~~===Other original Publications===~~
−	~~<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759 25935345 2153658 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 153: / Line 153: @@
 ===Other original Publications===
-<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759 25935345</pubmed>
+<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759 25935345 2153658 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 153: / Line 153: @@
 ===Other original Publications===
-<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759</pubmed>
+<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759 25935345</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 124: / Line 124: @@
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 1459 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 123: / Line 123: @@
 ** 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], also degraded upon ammonium or amino acid starvation [http://www.ncbi.nlm.nih.gov/sites/entrez/2168395 PubMed]
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =

@@ Line 55: / Line 55: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/lysC.html]
@@ Line 89: / Line 90: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=2RE1 2RE1] (from ''Neisseria meningitidis mc58'', 40% identity, 58% similarity)

@@ Line 40: / Line 40: @@
 = [[Categories]] containing this gene/protein =
-{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}}
+{{SubtiWiki category|[[biosynthesis/ acquisition of amino acids]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 60: / Line 61: @@
 === Additional information===
 =The protein=
@@ Line 78: / Line 76: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 110: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lysC_2909520_2910746_-1 lysC] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
@@ Line 120: / Line 118: @@
 ** [[L-box]]: a riboswich that mediates transcription terimnation antitermination control [http://www.ncbi.nlm.nih.gov/pubmed/19636616 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], also degraded upon ammonium or amino acid starvation [http://www.ncbi.nlm.nih.gov/sites/entrez/2168395 PubMed]
+* '''Additional information:'''
 =Biological materials =
@@ Line 148: / Line 148: @@
 ===Other original Publications===
-<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 </pubmed>
+<pubmed>2168395, 1624109, 2559145, 2557260,12850135 12107147, 17981983 15378759</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=BSU28470 lysC]
 |-
-|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/lys_threo.html Lys, Thr]'''
+|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=lysC lysC]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 43 kDa, 4.643

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =

@@ 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=lysC_2909520_2910746_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lysC_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=lysC_2909520_2910746_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:lysC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28470]]
 |-
 |}