TrpE - Revision history

134.76.70.252 at 14:16, 17 April 2014

2014-04-17T14:16:04Z

134.76.70.252 at 09:47, 17 April 2014

2014-04-17T09:47:11Z

134.76.38.147 at 14:03, 2 April 2014

2014-04-02T14:03:56Z

Jstuelk: /* The trpE RNA switch */

2014-04-02T10:35:26Z

‎The trpE RNA switch

Jstuelk at 17:32, 9 February 2014

2014-02-09T17:32:16Z

134.76.70.252 at 11:05, 7 January 2014

2014-01-07T11:05:17Z

134.76.70.252 at 08:43, 12 November 2013

2013-11-12T08:43:21Z

Jstuelk: /* Other original publications */

2013-07-13T16:24:35Z

‎Other original publications

134.76.70.252 at 13:45, 16 May 2013

2013-05-16T13:45:22Z

134.76.70.252 at 10:34, 14 May 2013

2013-05-14T10:34:24Z

← Older revision		Revision as of 14:16, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' anthranilate synthase (subunit I) <br/><br/>~~	+	{{#bank: TrpE}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''trpE''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| anthranilate synthase (subunit I)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of tryptophan~~
−	\|-
−	\|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=BSU22680 trpE]
−	\|-
−	\|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=TrpE TrpE]
−	\|-
−	\|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=trpE trpE]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 57 kDa, 5.246~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1545 bp, 515 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[trpD]]'', ''[[aroH]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22680 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:trpE_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=trpE_2375869_2377416_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:trpE_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22680]]
−	\|-
−	\|}
−
−	~~__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\|[[TRAP regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU22680
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU22680&redirect=T BSU22680]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10287]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Chorismate + L-glutamine = anthranilate + pyruvate + L-glutamate (according to Swiss-Prot)
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:''' subject to feedback inhibtion by tryptophan {{PubMed\|4956345}}
−
−	* '''[[SubtInteract\|Interactions]]:''' [[PabA]]-[[TrpE]]
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU22680&redirect=T BSU22680]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1I7Q 1I7Q] (from ''Serratia marcescens'', 42% identity, 62% similarity) {{PubMed\|11371633}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P03963 P03963]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU22680]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/4.1.3.27 4.1.3.27]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:'''
−	** ''[[aroF]]-[[aroB]]-[[aroH]]-[[trpE]]-[[trpD]]-[[trpC]]-[[trpF]]-[[trpB]]-[[trpA]]-[[hisC]]-[[tyrA]]-[[aroE]]'' (according to [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html DBTBS])
−	** ''[[trpE]]-[[trpD]]-[[trpC]]-[[trpF]]-[[trpB]]-[[trpA]]-[[hisC]]-[[tyrA]]-[[aroE]]'' {{PubMed\|3924737,21815947}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=trpE_2375869_2377416_-1 trpE] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−	** ''[[trpE]]'': [[SigA]] {{PubMed\|6436812}}
−
−	* '''Regulation:'''
−	** induction by tryptophan ([[MtrB\| TRAP]]) {{PubMed\|1551827}}
−
−	* '''Regulatory mechanism:'''
−	** [[MtrB\| TRAP]]: binding to the mRNA in the presence of tryptophan, this results in transcription termination {{PubMed\|8419914}}
−
−	* '''Additional information:'''
−	** subject to feedback inhibtion by tryptophan {{PubMed\|4956345}}
−	** the mRNA is substantially stabilized upon depletion of [[Rny\|RNase Y]] {{PubMed\|21815947}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 126 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 462 {{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>19385727, ,16285852 </pubmed>~~
−	~~==The ''trpE'' [[RNA switch]]==~~
−	~~<pubmed> 20384694 19033375, 17881743, 7515880,2422155,3133360, 7678334,7592410, 14976255, 2422155,8419914, 1551827, 16285852 10714985 11566991 12963367 14712717 21097886 24505391 24682818</pubmed>~~
−
−	~~==Other original publications==~~
−	~~<pubmed> 4956345 3924737, 6436812, 21815947 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 122: / Line 122: @@
 ** subject to feedback inhibtion by tryptophan {{PubMed|4956345}}
 ** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}
 =Biological materials =

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]
@@ Line 90: / Line 91: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1I7Q 1I7Q] (from ''Serratia marcescens'', 42% identity, 62% similarity) {{PubMed|11371633}}

@@ Line 143: / Line 143: @@
 <pubmed>19385727, ,16285852 </pubmed>
 ==The ''trpE'' [[RNA switch]]==
-<pubmed> 20384694 19033375, 17881743, 7515880,2422155,3133360, 7678334,7592410, 14976255, 2422155,8419914, 1551827, 16285852 10714985 11566991 12963367 14712717 21097886 24505391 </pubmed>
+<pubmed> 20384694 19033375, 17881743, 7515880,2422155,3133360, 7678334,7592410, 14976255, 2422155,8419914, 1551827, 16285852 10714985 11566991 12963367 14712717 21097886 24505391 24682818</pubmed>
 ==Other original publications==
 <pubmed> 4956345 3924737, 6436812, 21815947  </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 39: / Line 39: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 66: / Line 62: @@
 === Additional information===
 =The protein=
@@ Line 82: / Line 77: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' subject to feedback inhibtion by tryptophan {{PubMed|4956345}}
@@ Line 113: / Line 108: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=trpE_2375869_2377416_-1 trpE] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 ** ''[[trpE]]'': [[SigA]] {{PubMed|6436812}}
@@ Line 148: / Line 143: @@
 <pubmed>19385727, ,16285852 </pubmed>
 ==The ''trpE'' [[RNA switch]]==
-<pubmed> 20384694 19033375, 17881743, 7515880,2422155,3133360, 7678334,7592410, 14976255, 2422155,8419914, 1551827, 16285852 10714985 11566991 12963367 14712717 21097886 </pubmed>
+<pubmed> 20384694 19033375, 17881743, 7515880,2422155,3133360, 7678334,7592410, 14976255, 2422155,8419914, 1551827, 16285852 10714985 11566991 12963367 14712717 21097886 24505391 </pubmed>
 ==Other original publications==
 <pubmed> 4956345 3924737, 6436812, 21815947  </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 18: / Line 18: @@
 |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=TrpE TrpE]
 |-
-|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/phenyl_tyr_tryp.html Phe, Tyr, Trp]'''
+|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=trpE trpE]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 57 kDa, 5.246

@@ 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=BSU22680 trpE]
 |-
-|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/TrpE TrpE]
+|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=TrpE TrpE]
 |-
 |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/phenyl_tyr_tryp.html Phe, Tyr, Trp]'''

@@ Line 31: / Line 31: @@
   <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=trpE_2375869_2377416_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:trpE_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=trpE_2375869_2377416_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:trpE_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22680]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trpD]]'', ''[[aroH]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22680 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22680 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22680 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22680 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:trpE_context.gif]]