RtpA - Revision history

134.76.38.147 at 12:54, 2 April 2014

2014-04-02T12:54:34Z

Jstuelk at 10:35, 2 April 2014

2014-04-02T10:35:12Z

134.76.70.252 at 10:05, 7 January 2014

2014-01-07T10:05:16Z

134.76.70.252 at 14:13, 18 November 2013

2013-11-18T14:13:20Z

134.76.70.252 at 12:28, 16 May 2013

2013-05-16T12:28:07Z

134.76.70.252 at 09:23, 14 May 2013

2013-05-14T09:23:36Z

134.76.70.252 at 12:03, 13 May 2013

2013-05-13T12:03:48Z

134.76.70.252 at 09:24, 8 August 2012

2012-08-08T09:24:55Z

134.76.70.252 at 08:28, 8 August 2012

2012-08-08T08:28:30Z

134.76.70.252 at 15:13, 7 August 2012

2012-08-07T15:13:27Z

← Older revision		Revision as of 12:54, 2 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' anti-[[MtrB\|TRAP]]<br/><br/>~~	+	{{#bank: RtpA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''rtpA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yczA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| anti-[[MtrB\|TRAP]]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of tryptophan biosynthesis~~
−	\|-
−	\|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=BSU02530 rtpA]
−	\|-
−	\|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=RtpA RtpA]
−	\|-
−	\|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=rtpA rtpA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 5 kDa, 4.862~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 159 bp, 53 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ycbJ]]'', ''[[ycbK]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02530 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yczA_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=rtpA_277160_277321_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:rtpA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU02530]]
−	\|-
−	\|}
−
−	~~__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]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[T-box]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU02530
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/rtpA-ycbK.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12776]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[MtrB\|TRAP]]<sub>11</sub>-[[RtpA]]<sub>3</sub> {{PubMed\|24682818,11557884}}
−	** forms trimers and dodecamers (tetramer of trimers) {{PubMed\|20713740}}, only the trimeric form interacts with [[MtrB\|TRAP]] {{PubMed\|20713740}}
−
−	* '''[[Localization]]:'''
−	** cytoplasm (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1N53 1N53] (structure of T box RNA), [http://www.rcsb.org/pdb/explore.do?structureId=2BX9 2BX9], [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=2ZP9 2ZP9] (complex with [[MtrB]])
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O31466 O31466]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU02530]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[rtpA]]-[[ycbK]]'' {{PubMed\|10706627}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rtpA_277160_277321_1 rtpA] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|10706627}}
−
−	* '''Regulation:'''
−	** induced by tryptophan limitation ([[T-box]] in the mRNA leader, [[MtrB\|TRAP]]) {{PubMed\|10706627}}
−
−	* '''Regulatory mechanism:'''
−	** [[T-box]], [[MtrB\|TRAP]]: transcription termination/ antitermination {{PubMed\|10706627}}
−
−	* '''Additional information:'''
−
−	~~=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>16285852, 19258532,</pubmed>~~
−	~~==Original Publications==~~
−	~~<pubmed>15213402,16306262,15099736,15743934,11786553,11566976,15023340,18178730,12386162,11557884,10706627,18334255,12855807, 20713740 24682818</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 67: / Line 63: @@
 === Additional information===
 =The protein=
@@ Line 85: / Line 78: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
 * '''[[SubtInteract|Interactions]]:'''
-** [[MtrB|TRAP]]-[[RtpA]] {{PubMed|11557884}}
+** [[MtrB|TRAP]]<sub>11</sub>-[[RtpA]]<sub>3</sub> {{PubMed|24682818,11557884}}
 ** forms trimers and dodecamers (tetramer of trimers) {{PubMed|20713740}}, only the trimeric form interacts with [[MtrB|TRAP]] {{PubMed|20713740}}
@@ Line 150: / Line 143: @@
 <pubmed>16285852, 19258532,</pubmed>
 ==Original Publications==
-<pubmed>15213402,16306262,15099736,15743934,11786553,11566976,15023340,18178730,12386162,11557884,10706627,18334255,12855807, 20713740 </pubmed>
+<pubmed>15213402,16306262,15099736,15743934,11786553,11566976,15023340,18178730,12386162,11557884,10706627,18334255,12855807, 20713740 24682818</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=RtpA RtpA]
 |-
-|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=rtpA rtpA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 5 kDa, 4.862

@@ 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=BSU02530 rtpA]
 |-
-|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/RtpA RtpA]
+|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=RtpA RtpA]
 |-
 |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=rtpA_277160_277321_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rtpA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rtpA_277160_277321_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:rtpA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU02530]]
 |-
 |}

@@ Line 26: / Line 26: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ycbJ]]'', ''[[ycbK]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02530 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU02530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU02530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU02530 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yczA_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of tryptophan biosynthesis
 |-
 |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/RtpA RtpA]

@@ Line 106: / Line 106: @@
 * '''Operon:''' ''[[rtpA]]-[[ycbK]]'' {{PubMed|10706627}}
-* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|10706627}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=rtpA_277160_277321_1 rtpA] {{PubMed|22383849}}
 * '''Regulation:'''