AppA/1 - Revision history

Jstuelk at 08:59, 30 July 2015

2015-07-30T08:59:32Z

Jstuelk at 08:49, 20 July 2015

2015-07-20T08:49:07Z

134.76.70.252 at 11:51, 8 April 2014

2014-04-08T11:51:32Z

134.76.38.147 at 13:24, 2 April 2014

2014-04-02T13:24:34Z

134.76.70.252 at 14:15, 18 November 2013

2013-11-18T14:15:20Z

134.76.70.252 at 12:58, 16 May 2013

2013-05-16T12:58:24Z

134.76.70.252 at 12:32, 13 May 2013

2013-05-13T12:32:23Z

Awiechert at 10:27, 13 November 2012

2012-11-13T10:27:15Z

Raphael2215 at 11:08, 9 August 2012

2012-08-09T11:08:34Z

134.76.70.252 at 16:42, 6 August 2012

2012-08-06T16:42:45Z

← Older revision		Revision as of 08:59, 30 July 2015
Line 1:		Line 1:
−	* '''Description:''' oligopeptide [[ABC transporter]], inactive pseudogene in strain 168<br/><br/>	+	{{#bank: AppA/1}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''appA/1''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| oligopeptide [[ABC transporter]]~~
−	\|-
−	~~\|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=BSU11381 appA/1]
−	\|-
−	~~\|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=~~AppA ~~AppA]~~
−	\|-
−	\|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=appA/1 ~~appA/1]'''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| -, -~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 462 bp, -~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| [[appF]], [[appA/2]]~~
−	\|-
−	~~\|style="background:#FAF8CC;" align="center"\|'''[http://subtiwiki.uni-goettingen.de/genE_nucleotide.txt Gene sequence (+200bp) ]'''~~
−	~~\|style="background:#FAF8CC;" align="center"\|'''[http://subtiwiki.uni-goettingen.de/genE_protein.txt Protein sequence]'''~~
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:appA/1_context.gif]]~~
−	\|-
−	~~\|colspan="2" \|'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=appA_1213537_1214001_1 Expression at a glance]'''   {{PubMed\|22383849}~~}~~<br/>[[Image:appA/1_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU11381]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[ABC transporters]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}},~~
−	~~{{SubtiWiki category\|[[pseudogenes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CodY regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[ScoC regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU11381
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU11381&redirect=T BSU11381]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' no entry
−
−	~~=== 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:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** ([[AppD]]-[[AppF]])-([[AppB]]-[[AppC]])-[[AppA]] {{PubMed\|10092453}}
−
−	* '''[[Localization]]:''' attached to the cell membrane (via [[AppB]]-[[AppC]]) {{PubMed\|10092453}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU11381&redirect=T BSU11381]
−
−	* '''Structure:'''
−
−	* '''Swiss prot entry:'''
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU11380]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[appD]]-[[appF]]-[[appA]]-[[appB]]-[[appC]]'' {{PubMed\|7997159}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=appA_1213537_1214001_1 appA/1] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** repressed during exponential growth ([[ScoC]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/10383984 PubMed]
−	** repressed during growth in the presence of branched chain amino acids ([[CodY]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[ScoC]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/10383984 PubMed]
−	** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12618455 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP2100 (D(''[[appD]]-[[appF]]-[[appA]]-[[appB]]-[[appC]]'')::''spc''), available in [[Jörg Stülke]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>12618455,7997159,10092453,,10383984,12618455, </pubmed>~~
−	~~[http://www.ncbi.nlm.nih.gov/sites/entrez?db=pubmed&cmd=DetailsSearch&term=subtilis+appA/1&log$=activity search PubMed]~~
−
−	~~[[Category:Pseudogenes]]~~

@@ Line 38: / Line 38: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
@@ Line 69: / Line 65: @@
 === Additional information===
 =The protein=
@@ Line 86: / Line 80: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
@@ Line 118: / Line 112: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=appA_1213537_1214001_1 appA/1] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
@@ Line 133: / Line 127: @@
 * '''Mutant:'''
 * '''Expression vector:'''

@@ Line 16: / Line 16: @@
 |-
 |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=AppA AppA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || -, -

@@ Line 60: / Line 60: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 97: / Line 98: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU11381 appA/1]
 |-
-|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/AppA AppA]
+|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=AppA AppA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || -, -

@@ Line 28: / Line 28: @@
 |colspan="2" | '''Genetic context''' <br/> [[Image:appA/1_context.gif]]
 |-
-|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=appA_1213537_1214001_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:appA/1_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=appA_1213537_1214001_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:appA/1_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU11381]]
 |-
 |}

@@ Line 13: / Line 13: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU11381 appA/1]
+|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=BSU11381 appA/1]
 |-
 |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/AppA AppA]

@@ Line 9: / Line 9: @@
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || write here
+|style="background:#ABCDEF;" align="center"| '''Product''' || oligopeptide [[ABC transporter]]
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || write here
+|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU11381 appA/1]
@@ Line 17: / Line 17: @@
 |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/AppA AppA]
 |-
-|style="background:#ABCDEF;" align="center"| '''MW, pI''' ||
+|style="background:#ABCDEF;" align="center"| '''MW, pI''' || -, -
 |-
-|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' ||
+|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 462 bp, -
 |-
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || [[appF]], [[appA/2]]

@@ Line 1: / Line 1: @@
+* '''Description:''' oligopeptide [[ABC transporter]], inactive pseudogene in strain 168<br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-