SigL - Revision history

Jstuelk: /* Reviews */

2015-08-30T16:42:39Z

‎Reviews

Jstuelk: /* Original publications */

2015-08-30T16:33:39Z

‎Original publications

Jstuelk: /* Reviews */

2015-08-30T16:32:03Z

‎Reviews

Jstuelk at 16:27, 30 August 2015

2015-08-30T16:27:00Z

Jstuelk at 16:21, 30 August 2015

2015-08-30T16:21:04Z

Jstuelk: /* Biological materials */

2014-07-23T12:31:30Z

‎Biological materials

Jstuelk at 12:31, 23 July 2014

2014-07-23T12:31:04Z

Jstuelk: /* Biological materials */

2014-07-23T11:03:31Z

‎Biological materials

Jstuelk: /* Original publications */

2014-07-23T10:48:12Z

‎Original publications

Jstuelk: /* Reviews */

2014-07-23T10:47:47Z

‎Reviews

← Older revision		Revision as of 16:42, 30 August 2015
Line 1:		Line 1:
−	* '''Description:~~''' [[sigma factor]] of the [[RNA polymerase]], Sigma-54, Sigma L <br/><br/>~~	+	{{#bank: SigL}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''sigL''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| [[RNA polymerase]] sigma-54 factor (sigma-L)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| utilization of arginin, acetoin and fructose, <br/>required for cold adaptation~~
−	\|-
−	\|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=BSU34200 sigL]
−	\|-
−	\|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=SigL SigL]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 49,5 kDa, 7.79~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1308 bp, 436 amino acids~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yvfH]]'', ''[[yvfG]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU34200 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU34200 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU34200 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:sigL_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=sigL_3512498_3513808_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:sigL_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU34200]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><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]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}}~~
−
−	~~=The [[SigL regulon]]=~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU34200
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~The mutant is cold-sensitive and unable to use arginine as a single carbon source. [http://www.ncbi.nlm.nih.gov/sites/entrez/16585774 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34200&redirect=T BSU34200]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/sigL.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10748]
−
−	~~=== Additional information===~~
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' Binding to promoters of the -12, -24 type
−
−	* '''Protein family:''' sigma-54 factor family (according to Swiss-Prot) sigma-54 factor family
−
−	* '''Paralogous protein(s):'''
−
−	~~===[[Transcription factors activating transcription at SigL-dependent promoters]]===~~
−	~~[[AcoR]], [[BkdR]], [[LevR]], [[RocR]], [[YplP]]~~
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−	** DNA binding domain (H-T-H motif) (324–343)
−	** pron box domain (413–421)
−	** 3 x Compositional bias domain (6–21),(32–53),(112–136)
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[SigL]]-([[RpoB]]-[[RpoC]]-[[RpoA]]) {{PubMed\|26293966}}
−	** [[SigL]]-[[AcoR]], [[SigL]]-[[RocR]], [[SigL]]-[[LevR]], [[SigL]]-[[BkdR]], [[SigL]]-[[YplP]],
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34200&redirect=T BSU34200]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=5byh 5BYH] (''E. coli'' [[RNA polymerase]] containing Sigma-54) {{PubMed\|26293966}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P24219 P24219]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU34200]
−
−	~~=== Additional information===~~
−	~~Transcription initiation by SigL-containing [[RNA polymerase]] requires the activity of ATP-hydrolyzing transcription activators.~~
−
−	~~[[Transcription factors activating transcription at SigL-dependent promoters]]~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''sigL'' (according to [http://dbtbs.hgc.jp/COG/prom/sigL.html DBTBS])
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=sigL_3512498_3513808_-1 sigL] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:''' repressed by glucose ([[CcpA]]) {{PubMed\|16166551}}
−
−	* '''Regulatory mechanism:''' [[CcpA]]: transcription repression, transcriptional roadblock {{PubMed\|16166551}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP146 ( ''sigL''::spc), available in [[Jörg Stülke]]'s lab {{PubMed\|17183217}}
−	** 1A914 ( ''sigL''::''kan''), {{PubMed\|16585774}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A914&Search=1A914 BGSC]
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	[[Michel Debarbouille]], Pasteur Institute, Paris, France [http://www.pasteur.fr/ip/easysite/go/03b-00000m-0ob/recherche/departements-scientifiques/microbiologie/unites-et-groupes/unite-de-biologie-des-bacteries-pathogenes-a-gram-positif/les-membres-de-l-equipe Homepage]
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~==Reviews==~~
−	~~<pubmed>7934866 10894718 21054445 26010401</pubmed>~~
−
−	~~==Original publications==~~
−	~~<pubmed>16585774,11274109,1924373 ,16166551 22900538 26293966 24553251~~
−
−	~~</pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

@@ Line 156: / Line 156: @@
 ==Original publications==
-<pubmed>16585774,11274109,1924373 ,16166551 22900538 26293966</pubmed>
+<pubmed>16585774,11274109,1924373 ,16166551 22900538 26293966     24553251
 [[Category:Protein-coding genes]]

@@ Line 153: / Line 153: @@
 =References=
 ==Reviews==
-<pubmed>7934866 10894718 21054445</pubmed>
+<pubmed>7934866 10894718 21054445 26010401</pubmed>
 ==Original publications==
 <pubmed>16585774,11274109,1924373 ,16166551 22900538 26293966</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 98: / Line 98: @@
 * '''[[SubtInteract|Interactions]]:'''
-** [[SigL]]-([[RpoB]]-[[RpoC]])
+** [[SigL]]-([[RpoB]]-[[RpoC]]-[[RpoA]]) {{PubMed|26293966}}
 ** [[SigL]]-[[AcoR]],  [[SigL]]-[[RocR]],  [[SigL]]-[[LevR]],  [[SigL]]-[[BkdR]],  [[SigL]]-[[YplP]],

@@ Line 106: / Line 106: @@
 * '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU34200&redirect=T BSU34200]
-* '''Structure:'''
+* '''Structure:''' [http://www.rcsb.org/pdb/search/structidSearch.do?structureId=5byh 5BYH] (''E. coli'' [[RNA polymerase]] containing Sigma-54) {{PubMed|26293966}}
 * '''UniProt:''' [http://www.uniprot.org/uniprot/P24219 P24219]
@@ Line 155: / Line 155: @@
 <pubmed>7934866 10894718 21054445</pubmed>
 ==Original publications==
-<pubmed>16585774,11274109,1924373 ,16166551 22900538</pubmed>
+<pubmed>16585774,11274109,1924373 ,16166551 22900538 26293966</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 134: / Line 134: @@
 * '''Mutant:'''
-** GP146 ( ''sigL''::'spc), available in [[Jörg Stülke]]'s lab {{PubMed|17183217}}
+** GP146 ( ''sigL''::spc), available in [[Jörg Stülke]]'s lab {{PubMed|17183217}}
 ** 1A914 ( ''sigL''::''kan''), {{PubMed|16585774}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A914&Search=1A914 BGSC]

@@ Line 133: / Line 133: @@
 =Biological materials =
-* '''Mutant:''' GP146 (aphA3), available in [[Stülke]] lab
+* '''Mutant:'''
 ** 1A914 ( ''sigL''::''kan''), {{PubMed|16585774}}, available at [http://pasture.asc.ohio-state.edu/BGSC/getdetail.cfm?bgscid=1A914&Search=1A914 BGSC]