SigW - Revision history

Jstuelk: /* References */

2014-06-13T07:03:54Z

‎References

134.76.38.147 at 12:51, 2 April 2014

2014-04-02T12:51:51Z

134.76.70.252 at 15:04, 11 November 2013

2013-11-11T15:04:36Z

Jstuelk: /* References */

2013-08-13T12:35:22Z

‎References

134.76.70.252 at 12:25, 16 May 2013

2013-05-16T12:25:07Z

134.76.70.252 at 09:19, 14 May 2013

2013-05-14T09:19:32Z

134.76.70.252 at 12:00, 13 May 2013

2013-05-13T12:00:39Z

Jstuelk: /* References */

2013-01-10T16:11:37Z

‎References

Jstuelk: /* Extended information on the protein */

2013-01-10T16:09:43Z

‎Extended information on the protein

Jstuelk at 12:00, 30 November 2012

2012-11-30T12:00:28Z

← Older revision		Revision as of 07:03, 13 June 2014
Line 1:		Line 1:
−	* '''Description:~~''' [[RNA polymerase]] ECF-type [[sigma factor]]~~ SigW~~, activated by alkaline shock and by polymyxin B, vancomycin, cephalosporin C, D-cycloserine, and triton X-100 <br/><br/>~~	+	{{#bank: SigW}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''sigW''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ybbL ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[RNA polymerase]] ECF-type [[sigma factor]] SigW~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| resistance against [[SdpC]] <br/>that functions in detoxification and/or <br/>production of antimicrobial compounds~~
−	\|-
−	\|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=BSU01730 sigW]
−	\|-
−	\|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=SigW SigW]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 21 kDa, 8.614~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 561 bp, 187 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[trnSL-Gln2]]'', ''[[rsiW]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU01730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU01730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU01730 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:sigW_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=sigW_194849_195412_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:sigW_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU01730]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[transcription]]}},~~
−	~~{{SubtiWiki category\|[[sigma factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[AbrB regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigW regulon]]}}~~
−	~~=The [[SigW regulon]]=~~
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU01730
−
−	~~===Phenotypes of a mutant ===~~
−	* sensitive to ß-lactam antibiotics such as cefuroxime and to fosfomycin {{PubMed\|22178969}}
−	* Inactivation of ''[[alsR]]'', ''[[sigD]]'' and ''[[sigW]]'' increases competitive fitness of ''Bacillus subtilis'' under non-sporulating conditions {{PubMed\|22344650}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU01730&redirect=T BSU01730]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigW-ybbM.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11573]
−
−	~~=== Additional information===~~
−	* A mutation was found in this gene after evolution under relaxed selection for sporulation {{PubMed\|21821766}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:''' ECF subfamily (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:''' [[RsiW]] acts as antagonist of SigW (anti-SigW)
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[RsiW]]-[[SigW]] {{PubMed\|14993308}}
−	** [[SigW]]-[[RpoB]]-[[RpoC]]
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU01730&redirect=T BSU01730]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q45585 Q45585]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU01730]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[sigW]]-[[rsiW]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/12207695 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sigW_194849_195412_1 sigW] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigW]] [http://www.ncbi.nlm.nih.gov/sites/entrez/12207695 PubMed]
−
−	* '''Regulation:'''
−	** induced under conditions of alkali shock or in the presence of the toxin [[SdpC]] ([[SigW]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12207695 PubMed]
−	** repressed during logrithmic growth ([[AbrB]]) [http://www.ncbi.nlm.nih.gov/sites/entrez/12076816 PubMed]
−
−	* '''Regulatory mechanism:'''
−	** [[AbrB]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/12076816 PubMed]
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** 1A905 ( ''sigW''::''erm''), {{PubMed\|11244082}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A905&Search=1A905 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−	~~[[John Helmann]], Cornell University, USA [http://www.micro.cornell.edu/research/labs/helmann-lab/index.cfm Homepage]~~
−
−	~~[[Thomas Wiegert]], University of Bayreuth, Germany [http://www.genetik.uni-bayreuth.de/LSGenetik1/Thomas%20Wiegert-Dateien/Thomas%20Wiegert.html Homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>22381678</pubmed>~~
−	~~==The [[SigW regulon]]==~~
−	~~<pubmed>9683469,16629676,17675383,11866510,9987136,10960106, 23934352 23155385</pubmed>~~
−	~~==Other original publications==~~
−	~~<pubmed>11222589,14993308,16816000,17338440,12207695, 11454200,14563871,12076816, 19820159 21821766 22344650 14993308 23185515,20817771,21542858,22178969</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigW-ybbM.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU01730 sigW]
 |-
-|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/SigW SigW]
+|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=SigW SigW]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 21 kDa, 8.614

@@ Line 148: / Line 148: @@
 =References=
 ==Reviews==
-'''Additional reviews:''' {{PubMed|22381678}}
+<pubmed>22381678</pubmed>
 ==The [[SigW regulon]]==
-'''Additional publications:''' {{PubMed|23155385}}
+<pubmed>9683469,16629676,17675383,11866510,9987136,10960106, 23934352 23155385</pubmed>
 ==Other original publications==
-'''Additional original publications:''' {{PubMed|23185515,20817771,21542858,22178969}}
+<pubmed>11222589,14993308,16816000,17338440,12207695, 11454200,14563871,12076816, 19820159 21821766 22344650 14993308 23185515,20817771,21542858,22178969</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=sigW_194849_195412_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sigW_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sigW_194849_195412_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:sigW_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU01730]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnSL-Gln2]]'', ''[[rsiW]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU01730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU01730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU01730 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU01730 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU01730 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU01730 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:sigW_context.gif]]

@@ Line 90: / Line 90: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[RsiW]]-[[SigW]], [[SigW]]-[[RpoB]]-[[RpoC]]
+** [[RsiW]]-[[SigW]] {{PubMed|14993308}}
 * '''[[Localization]]:'''

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 561 bp, 187 aa
 |-
-|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnSL-Gln2]]'', ''[[ybbM]]''
+|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[trnSL-Gln2]]'', ''[[rsiW]]''
 |-
 |colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB11949&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''