DegQ - Revision history

Jstuelk: /* References */

2015-08-28T08:42:46Z

‎References

Julian at 12:51, 24 April 2014

2014-04-24T12:51:00Z

Julian at 11:00, 24 April 2014

2014-04-24T11:00:03Z

Julian at 08:12, 22 April 2014

2014-04-22T08:12:51Z

134.76.38.147 at 14:38, 2 April 2014

2014-04-02T14:38:53Z

134.76.70.252 at 09:16, 12 November 2013

2013-11-12T09:16:36Z

134.76.70.252 at 14:27, 16 May 2013

2013-05-16T14:27:45Z

134.76.70.252 at 11:09, 14 May 2013

2013-05-14T11:09:37Z

134.76.70.252 at 13:44, 13 May 2013

2013-05-13T13:44:46Z

134.76.70.252 at 15:30, 7 August 2012

2012-08-07T15:30:54Z

← Older revision		Revision as of 08:42, 28 August 2015
Line 1:		Line 1:
−	* '''Description:''' stimulates production of degradative enzymes and of extracellular poly-gamma-glutamate [http://www.ncbi.nlm.nih.gov/sites/entrez/16091050 PubMed], stimulates phosphorylation of [[DegU]] by [[DegS]] [http://www.ncbi.nlm.nih.gov/sites/entrez/17850253 PubMed], gene is not expressed in the lab strain 168 due to promoter down mutation in the -10 region (T - 10 ---> C) [http://www.ncbi.nlm.nih.gov/sites/entrez/16091050 PubMed]<br/><br/>	+	{{#bank: DegQ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''degQ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''sacQ ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| pleiotropic regulator~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| regulation of exoenzyme synthesis~~
−	\|-
−	\|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=BSU31720 degQ]
−	\|-
−	\|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=DegQ DegQ]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 5 kDa, 6.536~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 138 bp, 46 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[comQ]]'', ''[[yuzC]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31720 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:degQ_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=degQ_3257092_3257232_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:degQ_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31720]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−
−
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biofilm formation]]}},~~
−	~~{{SubtiWiki category\|[[transcription factors and their control]]}},~~
−	~~{{SubtiWiki category\|[[sporulation proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[ComA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[DegU regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU31720
−
−	~~===Phenotypes of a mutant ===~~
−
−	loss of poly-gamma-glutamate production [http://www.ncbi.nlm.nih.gov/sites/entrez/16091050 PubMed], no synthesis of nonribosomal peptides iturin A and plipastatin [http://www.ncbi.nlm.nih.gov/sites/entrez/16251307 PubMed1] [http://www.ncbi.nlm.nih.gov/sites/entrez/10471562 PubMed2], reduced synthesis of degradative enzymes [http://www.ncbi.nlm.nih.gov/sites/entrez/3098732 PubMed], increased genetic competence [http://www.ncbi.nlm.nih.gov/sites/entrez/3098732 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31720&redirect=T BSU31720]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/degQ.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10378]
−
−	~~=== Additional information===~~
−	* Correction of ''[[sfp]]'', ''[[epsC]]'','' [[swrAA]]'', and ''[[degQ]]'' as well as introduction of ''rapP'' from a plasmid present in NCIB3610 results in biofilm formation in ''B. subtilis'' 168 {{PubMed\|21278284}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** stimulates autophosphorylation of [[DegS]] {{PubMed\|21965392}}
−
−	* '''Protein family:''' degQ family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[DegQ]]-[[DegS]] {{PubMed\|21965392}}
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31720&redirect=T BSU31720]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q99039 Q99039]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31720]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[degQ]]'' {{PubMed\|3007431}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=degQ_3257092_3257232_-1 degQ] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|3007431}}
−
−	* '''Regulation:'''
−	** induced by high cell density ([[ComA]]) {{PubMed\|1901055}}
−	** subject to carbon catabolite repression {{PubMed\|1901055}}
−	** controlled by [[DegU]] {{PubMed\|1901055}}
−
−	* '''Regulatory mechanism:'''
−	** [[ComA]]: transcription activation {{PubMed\|1901055}}
−	** [[DegU]]: transcription activation {{PubMed\|1901055}}
−
−	* '''Additional information:''' the gene is not expressed in the lab strain 168 due to promoter down mutation in the -10 region (T - 10 ---> C) [http://www.ncbi.nlm.nih.gov/sites/entrez/16091050 PubMed]
−
−	~~=Biological materials =~~
−
−	* '''Mutant:''' QB4851 (cat), available in the [[Stülke]] lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~'''Additional publications:''' {{PubMed\|21965392}}~~
−	~~<pubmed>17850253,2428811,, 19447339 3007431 1901055 16091050 21278284</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 46: / Line 46: @@
 {{SubtiWiki category|[[biofilm formation]]}},
 {{SubtiWiki category|[[transcription factors and their control]]}},
-{{SubtiWiki category|[[Sporulation#Sporulation_proteins/_other|sporulation proteins]]}}
+{{SubtiWiki category|[[sporulation proteins]]}}
 = This gene is a member of the following [[regulons]] =

@@ Line 46: / Line 46: @@
 {{SubtiWiki category|[[biofilm formation]]}},
 {{SubtiWiki category|[[transcription factors and their control]]}},
-{{SubtiWiki category|[[sporulation/ other]]}}
+{{SubtiWiki category|[[Sporulation#Sporulation_proteins/_other|sporulation proteins]]}}
 = This gene is a member of the following [[regulons]] =

@@ Line 45: / Line 45: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[biofilm formation]]}},
-{{SubtiWiki category|[[transcription factors and their control]]}}
+{{SubtiWiki category|[[transcription factors and their control]]}},
 = This gene is a member of the following [[regulons]] =

@@ Line 62: / Line 62: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/degQ.html]
@@ Line 99: / Line 100: @@
 === 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=BSU31720 degQ]
 |-
-|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/DegQ DegQ]
+|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=DegQ DegQ]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 5 kDa, 6.536

@@ 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=degQ_3257092_3257232_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:degQ_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=degQ_3257092_3257232_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:degQ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31720]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[comQ]]'', ''[[yuzC]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31720 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31720 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31720 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31720 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:degQ_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || regulation of exoenzyme synthesis
 |-
 |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/DegQ DegQ]