AroE - Revision history

134.76.70.252 at 14:03, 17 April 2014

2014-04-17T14:03:12Z

Jstuelk: Reverted edits by 134.76.70.252 (talk) to last revision by 134.76.38.147

2014-04-17T13:43:16Z

Reverted edits by 134.76.70.252 (talk) to last revision by 134.76.38.147

134.76.70.252 at 13:32, 17 April 2014

2014-04-17T13:32:47Z

134.76.70.252 at 09:27, 17 April 2014

2014-04-17T09:27:30Z

134.76.38.147 at 14:03, 2 April 2014

2014-04-02T14:03:30Z

134.76.70.252 at 11:04, 7 January 2014

2014-01-07T11:04:53Z

Jstuelk: /* References */

2013-07-13T16:22:16Z

‎References

134.76.70.252 at 13:44, 16 May 2013

2013-05-16T13:44:52Z

134.76.70.252 at 10:33, 14 May 2013

2013-05-14T10:33:55Z

134.76.70.252 at 13:08, 13 May 2013

2013-05-13T13:08:45Z

← Older revision		Revision as of 14:03, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' 3-phosphoshikimate 1-carboxyvinyltransferase <br/><br/>~~	+	{{#bank: AroE}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''aroE''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| 3-phosphoshikimate 1-carboxyvinyltransferase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of aromatic 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=BSU22600 aroE]
−	\|-
−	\|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=aroE aroE]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 45 kDa, 6.341~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1284 bp, 428 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ypiA]]'', ''[[tyrA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22600 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:aroE_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=aroE_2367954_2369240_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:aroE_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22600]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<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:''' BSU22600
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU22600&redirect=T BSU22600]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10294]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Phosphoenolpyruvate + 3-phosphoshikimate = phosphate + 5-O-(1-carboxyvinyl)-3-phosphoshikimate (according to Swiss-Prot)
−
−	* '''Protein family:''' ABC transporter 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]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU22600&redirect=T BSU22600]
−
−	* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3RMT 3RMT] (from ''B. halodurans'', 68% identity, 87% similarity)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P20691 P20691]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU22600]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.5.1.19 2.5.1.19]
−
−	~~=== 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}}
−	** ''[[hisC]]-[[tyrA]]-[[aroE]]'' (according to [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html DBTBS])
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=aroE_2367954_2369240_-1 aroE] {{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:'''
−	** the mRNA is substantially stabilized upon depletion of [[Rny\|RNase Y]] {{PubMed\|21815947}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>3924737,3106153,6436812 1551827 8419914 21815947 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 125: / Line 125: @@
 * '''Additional information:'''
 ** 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, late stationary phase after glucose exhaustion): 494 {{PubMed|21395229}}
+=Biological materials =
 * '''Mutant:'''

@@ Line 127: / Line 127: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 3514 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 3619 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 125: / Line 125: @@
 * '''Additional information:'''
 ** the mRNA is substantially stabilized upon depletion of [[Rny|RNase Y]] {{PubMed|21815947}}
 =Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/trpEDCFBA-hisC-tyrA-aroE.html]
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=3RMT 3RMT] (from ''B. halodurans'', 68% identity, 87% similarity)

@@ 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=BSU22600 aroE]
 |-
-|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=aroE aroE]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 45 kDa, 6.341

@@ Line 143: / Line 143: @@
 =References=
- <big>''Lehnik-Habrink M, Schaffer M, Mäder U, Diethmaier C, Herzberg C, Stülke J''  </big>
+<pubmed>3924737,3106153,6436812 1551827 8419914 21815947 </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=aroE_2367954_2369240_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:aroE_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=aroE_2367954_2369240_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:aroE_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU22600]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ypiA]]'', ''[[tyrA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22600 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU22600 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU22600 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU22600 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:aroE_context.gif]]