YclM - Revision history

Jstuelk: /* Reviews */

2015-05-19T15:39:13Z

‎Reviews

Jstuelk: /* Original publications */

2015-05-19T15:30:09Z

‎Original publications

Jstuelk at 15:08, 19 May 2015

2015-05-19T15:08:58Z

Fabian Commichau: /* This gene is a member of the following regulons */

2015-05-19T13:42:31Z

‎This gene is a member of the following regulons

Jstuelk: /* Expression and regulation */

2014-08-12T15:19:50Z

‎Expression and regulation

134.76.70.252 at 10:03, 17 April 2014

2014-04-17T10:03:41Z

134.76.38.147 at 12:59, 2 April 2014

2014-04-02T12:59:16Z

134.76.70.252 at 10:09, 7 January 2014

2014-01-07T10:09:20Z

134.76.70.252 at 12:33, 16 May 2013

2013-05-16T12:33:15Z

134.76.70.252 at 09:28, 14 May 2013

2013-05-14T09:28:50Z

← Older revision		Revision as of 15:39, 19 May 2015
Line 1:		Line 1:
−	* '''Description:~~''' aspartokinase III<br/><br/>~~	+	{{#bank: YclM}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yclM''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| aspartokinase III~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| unknown~~
−	\|-
−	\|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=BSU03790 yclM]
−	\|-
−	\|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=yclM yclM]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 49 kDa, 4.783~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1362 bp, 454 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yczN]]'', ''[[yclN]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03790 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03790 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03790 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yclM_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=yclM_430623_431987_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yclM_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU03790]]
−	\|-
−	\|}
−
−	~~__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]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CodY regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU03790
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU03790&redirect=T BSU03790]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yclM.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12033]
−
−	~~=== 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):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:''' inhibited by the simultaneous presence of threonine and lysine {{PubMed\|11471740}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU03790&redirect=T BSU03790]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P94417 P94417]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU03790]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.2.4 2.7.2.4]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''yclM'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yclM_430623_431987_-1 yclM] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−	** [[CodY]]: transcription repression {{PubMed\|23569278}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 78 {{PubMed\|24696501}}
−
−	~~=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==~~
−	~~<pubmed>11471740,23569278,2152900,2153658 22383849</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 139: / Line 139: @@
 <pubmed>19946135 ,, </pubmed>
 ==Original publications==
-<pubmed>11471740,23569278,2152900, 22383849</pubmed>
+<pubmed>11471740,23569278,2152900,2153658 22383849</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 65: / Line 61: @@
 === Additional information===
 =The protein=
@@ Line 83: / Line 76: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' inhibited by the simultaneous presence of threonine and lysine {{PubMed|11471740}}
@@ Line 114: / Line 107: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yclM_430623_431987_-1 yclM] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
 * '''Regulatory mechanism:'''
 * '''Additional information:'''
@@ Line 145: / Line 139: @@
 <pubmed>19946135 ,, </pubmed>
 ==Original publications==
-<pubmed>11471740,,2152900, </pubmed>
+<pubmed>11471740,23569278,2152900, 22383849</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 47: / Line 47: @@
 = This gene is a member of the following [[regulons]] =
+{{SubtiWiki regulon|[[CodY regulon]]}}
 =The gene=

@@ Line 110: / Line 110: @@
 =Expression and regulation=
-* '''Operon:''' ''yclM'' (according to [http://dbtbs.hgc.jp/COG/prom/yclM.html DBTBS])
+* '''Operon:''' ''yclM'' {{PubMed|22383849}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yclM_430623_431987_-1 yclM] {{PubMed|22383849}}

← Older revision		Revision as of 10:03, 17 April 2014
Line 121:		Line 121:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 78 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yclM.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU03790 yclM]
 |-
-|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=yclM yclM]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 49 kDa, 4.783

@@ 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=yclM_430623_431987_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yclM_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yclM_430623_431987_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yclM_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU03790]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yczN]]'', ''[[yclN]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03790 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03790 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03790 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU03790 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU03790 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU03790 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yclM_context.gif]]