DgcW - Revision history

Jstuelk at 16:09, 27 October 2014

2014-10-27T16:09:04Z

134.76.70.252 at 11:39, 8 April 2014

2014-04-08T11:39:27Z

Jstuelk at 11:09, 10 August 2013

2013-08-10T11:09:55Z

Jstuelk: Jstuelk moved page YkoW to DgcW: 23893111

2013-08-10T10:19:23Z

Jstuelk moved page YkoW to DgcW: 23893111

Jstuelk: /* Expression and regulation */

2013-08-10T10:18:57Z

‎Expression and regulation

Jstuelk at 10:18, 10 August 2013

2013-08-10T10:18:36Z

Jstuelk at 15:49, 8 August 2013

2013-08-08T15:49:52Z

Fabian Commichau: /* Biological materials */

2013-08-06T12:40:40Z

‎Biological materials

Fabian Commichau: /* Biological materials */

2013-07-12T07:30:36Z

‎Biological materials

Kgunka: /* Biological materials */

2013-07-11T12:40:01Z

‎Biological materials

← Older revision		Revision as of 16:09, 27 October 2014
Line 1:		Line 1:
−	* '''Description:~~''' diguanylate cyclase and potential phosphodiesterase <br/><br/>~~	+	{{#bank: DgcW}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''dgcW''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ykoW''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| diguanylate cyclase and potential phosphodiesterase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| synthesis of c-di-GMP~~
−	\|-
−	\|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=BSU13420 dgcW]
−	\|-
−	\|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=DgcW DgcW]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 84 kDa, 6.823~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 2247 bp, 749 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ykoV]]'', ''[[ykoX]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU13420 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU13420 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU13420 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ykoW_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=ykoW_1407329_1409578_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ykoW_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU13420]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}},~~
−	~~{{SubtiWiki category\|[[metabolism of signalling nucleotides]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU13420
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13266]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** synthesis of c-di-GMP from two molecules of GTP {{PubMed\|23893111}}
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−	** contains a N-terminal PAS domain {{PubMed\|23893111}}
−	** contains a central GGDEF domain and a C-terminal EAL domain {{PubMed\|22821967}}
−	** aa 290-735 are similar to ''E. coli'' CsrD (18% identity, 43% similarity)
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cell membrane (according to Swiss-Prot)
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34311 O34311]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU13420]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[dgcW]]'' {{PubMed\|22383849}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykoW_1407329_1409578_-1 dgcW] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** GP850 (''[[ykoW]]''::''cat''), available in [[Jörg Stülke]]'s lab
−	** BP140 (''[[ykoW]]''::''ermC'') available in [[Fabian Commichau]]'s lab
−	** BP142 (''[[ykoW]]-[[ykoV]]-[[ligD]]''::''kan'') available in [[Fabian Commichau]]'s lab
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>11728710,16980588 , 22821967 22383849 23893111 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ 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=BSU13420 dgcW]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 84 kDa, 6.823

@@ Line 12: / Line 12: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || diguanylate cyclase and potential phosphodiesterase
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || synthesis of c-di-GMP
 |-
 |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=BSU13420 dgcW]
@@ Line 66: / Line 66: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:'''
@@ Line 76: / Line 77: @@
 * '''Domains:'''
 ** contains a central GGDEF domain and a C-terminal EAL domain {{PubMed|22821967}}
 ** aa 290-735 are similar to ''E.  coli'' CsrD (18% identity, 43% similarity)

@@ Line 104: / Line 104: @@
 =Expression and regulation=
-* '''Operon:''' ''[[ykoW]]'' {{PubMed|22383849}}
+* '''Operon:''' ''[[dgcW]]'' {{PubMed|22383849}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykoW_1407329_1409578_-1 dgcW] {{PubMed|22383849}}

@@ Line 1: / Line 1: @@
-* '''Description:''' potential diguanylate cyclase and phosphodiesterase <br/><br/>
+* '''Description:''' diguanylate cyclase and potential phosphodiesterase <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''ykoW''
+|''dgcW''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ykoW''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
 |-
-|style="background:#ABCDEF;" align="center"| '''Product''' || potential diguanylate cyclase and phosphodiesterase
+|style="background:#ABCDEF;" align="center"| '''Product''' || diguanylate cyclase and potential phosphodiesterase
 |-
 |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=BSU13420 ykoW]
+|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=BSU13420 dgcW]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 84 kDa, 6.823
@@ Line 106: / Line 106: @@
 * '''Operon:''' ''[[ykoW]]'' {{PubMed|22383849}}
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykoW_1407329_1409578_-1 ykoW] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ykoW_1407329_1409578_-1 dgcW] {{PubMed|22383849}}
 * '''[[Sigma factor]]:'''
@@ Line 138: / Line 138: @@
 =References=
-<pubmed>11728710,16980588 , 22821967 22383849</pubmed>
+<pubmed>11728710,16980588 , 22821967 22383849 23893111 </pubmed>
 [[Category:Protein-coding genes]]

← Older revision	Revision as of 10:19, 10 August 2013
(No difference)

@@ Line 121: / Line 121: @@
 ** GP850 (''[[ykoW]]''::''cat''), available in [[Jörg Stülke]]'s lab
 ** BP140 (''[[ykoW]]''::''ermC'') available in [[Fabian Commichau]]'s lab
 * '''Expression vector:'''