CapE - Revision history

Jstuelk: /* Original publications */

2015-04-08T08:01:47Z

‎Original publications

134.76.38.147 at 14:58, 2 April 2014

2014-04-02T14:58:15Z

Jstuelk: /* References */

2014-02-16T12:16:36Z

‎References

134.76.70.252 at 14:44, 16 May 2013

2013-05-16T14:44:18Z

134.76.70.252 at 11:26, 14 May 2013

2013-05-14T11:26:33Z

134.76.70.252 at 14:01, 13 May 2013

2013-05-13T14:01:13Z

Jstuelk at 12:55, 19 April 2013

2013-04-19T12:55:00Z

134.76.70.252 at 16:39, 7 August 2012

2012-08-07T16:39:49Z

134.76.70.252 at 10:37, 23 April 2012

2012-04-23T10:37:51Z

134.76.70.252 at 07:50, 17 April 2012

2012-04-17T07:50:41Z

← Older revision		Revision as of 08:01, 8 April 2015
Line 1:		Line 1:
−	* '''Description:~~''' stimulates poly-gamma-glutamate production in the presence of zinc, also involved in extra-chromosomal DNA maintenance<br/><br/>~~	+	{{#bank: CapE}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''capE''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ywtC, pgsE, edmS''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| unknown~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| capsule 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=BSU35870 capE]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 6 kDa, 6.487~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 165 bp, 55 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[pgdS]]'', ''[[capA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35870 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ywtC_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=pgsE_3697639_3697806_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:capE_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35870]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[capsule biosynthesis and degradation]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[DegU regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU35870
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35870&redirect=T BSU35870]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywsC-ywtABC.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12534]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** stimulates poly-gamma-glutamate production in the presence of zinc {{PubMed\|20812257}}
−	** also involved in extra-chromosomal DNA maintenance {{PubMed\|23583563,21357437}}
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:''' N-terminal membrane-anchoring domain and a C-terminal assembly accelerator-like structure {{PubMed\|23583563}}
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cell membrane {{PubMed\|23583563}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU35870&redirect=T BSU35870]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P96739 P96739]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU35870]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[capB]]-[[capC]]-[[capA]]-[[capE]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11751809 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgsE_3697639_3697806_-1 capE] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:''' activated by [[DegU]]-P [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]
−
−	* '''Additional information:''' The operon is not expressed in the lab strain 168 due to lack of expression of [[DegQ]] resulting in inactivity of [[DegS]] and [[DegU]] {{PubMed\|21965392}}
−
−	~~=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>16689787</pubmed>~~
−	~~== Original publications ==~~
−	~~<pubmed>19420703, 16233197 16267300 20564357 20564574 21357437 23583563 20812257,21965392</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 53: / Line 53: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywsC-ywtABC.html]
@@ Line 93: / Line 94: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 137: / Line 137: @@
 =References=
 <pubmed>19420703, 16233197 16267300 20564357 20564574 21357437 23583563 20812257,21965392</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=pgsE_3697639_3697806_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:capE_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgsE_3697639_3697806_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:capE_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU35870]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgdS]]'', ''[[capA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35870 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35870 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ywtC_context.gif]]

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || capsule synthesis
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Gene expression levels in [http://cellpublisher.gobics.de/subtiexpress/ ''Subti''Express]''': [http://cellpublisher.gobics.de/subtiexpress/bsu/BSU35870 capE]
+|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=BSU35870 capE]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 6 kDa, 6.487
@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgdS]]'', ''[[capA]]''
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15604&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU35870 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU35870 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU35870 Advanced_DNA]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ywtC_context.gif]]

@@ Line 6: / Line 6: @@
 |''capE''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywtC, pgsE''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywtC, pgsE, edmS''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no
@@ Line 35: / Line 35: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
 <br/><br/>
 = [[Categories]] containing this gene/protein =
-{{SubtiWiki category|[[capsule biosynthesis and degradation]]}}
+{{SubtiWiki category|[[capsule biosynthesis and degradation]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 70: / Line 67: @@
 === Basic information/ Evolution ===
-* '''Catalyzed reaction/ biological activity:''' stimulates poly-gamma-glutamate production in the presence of zinc {{PubMed|20812257}}, also involved in extra-chromosomal DNA maintenance {{PubMed|21357437}}
+* '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:'''
@@ Line 80: / Line 79: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''Domains:''' N-terminal membrane-anchoring domain and a C-terminal assembly accelerator-like structure {{PubMed|23583563}}
 * '''Modification:'''
@@ Line 91: / Line 90: @@
 * '''[[Localization]]:'''
 === Database entries ===
@@ Line 110: / Line 110: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgsE_3697639_3697806_-1 capE] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]
+* '''[[Sigma factor]]:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]
 * '''Regulation:'''
@@ Line 137: / Line 137: @@
 =References=
-'''Additional publications:''' {{PubMed|20812257,21965392}}
+<pubmed>19420703, 16233197 16267300 20564357 20564574 21357437 23583563 20812257,21965392</pubmed>
 [[Category:Protein-coding genes]]

← Older revision		Revision as of 07:50, 17 April 2012
Line 97:		Line 97:

	* '''Operon:''' ''[[capB]]-[[capC]]-[[capA]]-[[capE]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11751809 PubMed]		* '''Operon:''' ''[[capB]]-[[capC]]-[[capA]]-[[capE]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/11751809 PubMed]
		+
		+	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgsE_3697639_3697806_-1 capE] {{PubMed\|22383849}}

	* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]		* '''Sigma factor:''' [[SigA]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19420703 PubMed]