Tig - Revision history

Jstuelk at 11:59, 11 February 2015

2015-02-11T11:59:38Z

134.76.70.252 at 14:15, 17 April 2014

2014-04-17T14:15:47Z

134.76.70.252 at 09:52, 17 April 2014

2014-04-17T09:52:58Z

134.76.38.147 at 14:25, 2 April 2014

2014-04-02T14:25:30Z

Jstuelk at 13:00, 5 March 2014

2014-03-05T13:00:23Z

134.76.70.252 at 09:03, 12 November 2013

2013-11-12T09:03:09Z

Jstuelk at 12:12, 20 August 2013

2013-08-20T12:12:21Z

Jstuelk at 12:10, 20 August 2013

2013-08-20T12:10:17Z

134.76.70.252 at 14:11, 16 May 2013

2013-05-16T14:11:25Z

134.76.70.252 at 10:55, 14 May 2013

2013-05-14T10:55:08Z

← Older revision		Revision as of 11:59, 11 February 2015
Line 1:		Line 1:
−	* '''Description:~~''' trigger factor (prolyl isomerase) <br/><br/>~~	+	{{#bank: Tig}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''tig''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yzzH ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| trigger factor (prolyl isomerase)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| protein folding~~
−	\|-
−	\|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=BSU28230 tig]
−	\|-
−	\|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=Tig Tig]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 47 kDa, 4.224~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1272 bp, 424 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[clpX]]'', ''[[ysoA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28230 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28230 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28230 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:tig_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=tig_2886315_2887589_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:tig_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28230]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[chaperones/ protein folding]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[stringent response]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU28230
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28230&redirect=T BSU28230]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/tig.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG19023]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' Tig subfamily (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-90 {{PubMed\|22517742}}
−	** phosphorylated on ser/ thr/ tyr [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed]
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[Tig]]-[[RplW]] {{PubMed\|12226666,16271892,16091460}}
−	** [[Tig]]-[[RpmC]] {{PubMed\|12226666,16271892,16091460}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU28230&redirect=T BSU28230]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?pdbId=2VRH 2VRH] (the ''E. coli'' trigger factor) {{PubMed\|18497744}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P80698 P80698]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU28230]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~:* subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]~~
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''tig'' {{PubMed\|8969504}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tig_2886315_2887589_-1 tig] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed\|11948165}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
−	** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed\|20525796}}
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 9318 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 56291 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 6608 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 5389 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 5836 {{PubMed\|21395229}}
−
−	~~=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>16231086 15763705 15837180 19647435 </pubmed>~~
−	~~==Original publications==~~
−	~~<pubmed>12226666,12224648,9748346,9063446,18497744 ,16493705, 8969504 20525796 22517742 16271892,16091460 15378759</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 127: / Line 127: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 9318 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 56291 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:'''

@@ Line 125: / Line 125: @@
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/tig.html]
@@ Line 94: / Line 95: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?pdbId=2VRH 2VRH] (the ''E. coli'' trigger factor) {{PubMed|18497744}}

@@ Line 41: / Line 41: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[chaperones/ protein folding]]}},
-{{SubtiWiki category|[[phosphoproteins]]}}
+{{SubtiWiki category|[[phosphoproteins]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 61: / Line 62: @@
 === Additional information===
 =The protein=
@@ Line 79: / Line 77: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
@@ Line 85: / Line 83: @@
 ** phosphorylated on ser/ thr/ tyr [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed]
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 114: / Line 112: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tig_2886315_2887589_-1 tig] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
@@ Line 124: / Line 122: @@
 ** subject to Clp-dependent proteolysis upon glucose starvation [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+17981983 PubMed]
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 =Biological materials =
@@ Line 147: / Line 146: @@
 <pubmed>16231086 15763705 15837180 19647435 </pubmed>
 ==Original publications==
-<pubmed>12226666,12224648,9748346,9063446,18497744 ,16493705, 8969504 20525796 22517742 16271892,16091460</pubmed>
+<pubmed>12226666,12224648,9748346,9063446,18497744 ,16493705, 8969504 20525796 22517742 16271892,16091460 15378759</pubmed>
 [[Category:Protein-coding genes]]

@@ 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=BSU28230 tig]
 |-
-|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/Tig Tig]
+|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=Tig Tig]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 47 kDa, 4.224

@@ Line 90: / Line 90: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[Tig]]-[[RplW]] {{PubMed|16271892,16091460}}
+** [[Tig]]-[[RplW]] {{PubMed|12226666,16271892,16091460}}
-** [[Tig]]-[[RpmC]] {{PubMed|16271892,16091460}}
+** [[Tig]]-[[RpmC]] {{PubMed|12226666,16271892,16091460}}
 * '''[[Localization]]:'''
@@ Line 147: / Line 147: @@
 <pubmed>16231086 15763705 15837180 19647435 </pubmed>
 ==Original publications==
-<pubmed>12224648,9748346,9063446,18497744 ,16493705, 8969504 20525796 22517742 16271892,16091460</pubmed>
+<pubmed>12226666,12224648,9748346,9063446,18497744 ,16493705, 8969504 20525796 22517742 16271892,16091460</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 27: / Line 27: @@
   <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=tig_2886315_2887589_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:tig_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=tig_2886315_2887589_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:tig_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU28230]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[clpX]]'', ''[[ysoA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28230 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28230 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28230 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU28230 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU28230 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU28230 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:tig_context.gif]]