GatA - Revision history

134.76.70.252 at 14:06, 17 April 2014

2014-04-17T14:06:51Z

134.76.70.252 at 09:38, 17 April 2014

2014-04-17T09:38:13Z

134.76.38.147 at 13:08, 2 April 2014

2014-04-02T13:08:51Z

134.76.70.252 at 10:17, 7 January 2014

2014-01-07T10:17:38Z

134.76.70.252 at 15:20, 11 November 2013

2013-11-11T15:20:53Z

Jstuelk at 14:42, 12 July 2013

2013-07-12T14:42:26Z

134.76.70.252 at 12:43, 16 May 2013

2013-05-16T12:43:17Z

134.76.70.252 at 09:38, 14 May 2013

2013-05-14T09:38:35Z

134.76.70.252 at 12:18, 13 May 2013

2013-05-13T12:18:13Z

Raphael2215 at 13:13, 10 August 2012

2012-08-10T13:13:46Z

← Older revision		Revision as of 14:06, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' production of glutamyl-tRNA(Gln) <br/><br/>	+	{{#bank: GatA}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''gatA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yerM, yedB ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| glutamyl-tRNA(Gln) amidotransferase subunit A~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| translation~~
−	\|-
−	\|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=BSU06680 gatA]
−	\|-
−	~~\|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=GatA~~ GatA]
−	\|-
−	\|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=gatA gatA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 52 kDa, 5.24~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1455 bp, 485 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[gatC]]'', ''[[gatB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU06680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU06680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU06680 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:gatA_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=gatA_729038_730495_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:gatA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU06680]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[translation]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU06680
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU06680&redirect=T BSU06680]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12839]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' ATP + L-glutamyl-tRNA(Gln) + L-glutamine = ADP + phosphate + L-glutaminyl-tRNA(Gln) + L-glutamate (according to Swiss-Prot)
−
−	* '''Protein family:''' amidase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** ([[GatA]]-[[GatB]]-[[GatC]])-[[GltX]]-[[trnS-Gln]] (the "[[transamidosome]]") {{PubMed\|20882017}}, see a [http://www.nature.com/nature/journal/v467/n7315/fig_tab/nature09411_F3.html model of the interaction] {{PubMed\|20882017}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU06680&redirect=T BSU06680]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?pdbId=2DF4 2DF4] ([[GatA]]-[[GatB]]-[[GatC]] complex from ''Staphylococcus aureus'') {{PubMed\|16809541}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O06491 O06491]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU06680]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=gatA_729038_730495_1 gatA] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2779 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 6450 {{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=~~
−
−	~~<pubmed>9342321, 20882017, 16809541 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:38, 17 April 2014
Line 122:		Line 122:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 2779 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 6450 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''	[http://www.rcsb.org/pdb/explore/explore.do?pdbId=2DF4 2DF4] ([[GatA]]-[[GatB]]-[[GatC]] complex from ''Staphylococcus aureus'') {{PubMed|16809541}}

@@ 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=GatA GatA]
 |-
-|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/tRNA_charging.html tRNA charging]'''
+|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=gatA gatA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 52 kDa, 5.24

@@ 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=BSU06680 gatA]
 |-
-|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/GatA GatA]
+|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=GatA GatA]
 |-
 |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/tRNA_charging.html tRNA charging]'''

@@ Line 38: / Line 38: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 101: / Line 97: @@
 === Database entries ===
-* '''Structure:'''
+* '''Structure:'''	[http://www.rcsb.org/pdb/explore/explore.do?pdbId=2DF4 2DF4] ([[GatA]]-[[GatB]]-[[GatC]] complex from ''Staphylococcus aureus'') {{PubMed|16809541}}
 * '''UniProt:''' [http://www.uniprot.org/uniprot/O06491 O06491]
@@ Line 145: / Line 141: @@
 =References=
-<pubmed>9342321, 20882017, </pubmed>
+<pubmed>9342321, 20882017, 16809541 </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=gatA_729038_730495_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:gatA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=gatA_729038_730495_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:gatA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU06680]]
 |-
 |}

@@ Line 25: / Line 25: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gatC]]'', ''[[gatB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU06680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU06680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU06680 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU06680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU06680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU06680 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:gatA_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' production of glutamyl-tRNA(Gln) <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-