WapA - Revision history

Jstuelk at 16:38, 11 February 2015

2015-02-11T16:38:35Z

Jstuelk at 16:32, 11 February 2015

2015-02-11T16:32:36Z

134.76.70.252 at 14:16, 17 April 2014

2014-04-17T14:16:29Z

134.76.38.147 at 15:11, 2 April 2014

2014-04-02T15:11:26Z

Jstuelk: /* Expression and regulation */

2013-12-29T11:54:34Z

‎Expression and regulation

Jstuelk at 11:33, 29 December 2013

2013-12-29T11:33:27Z

Jstuelk: /* Expression and regulation */

2013-12-29T11:31:43Z

‎Expression and regulation

Jstuelk: /* Expression and regulation */

2013-12-29T11:30:48Z

‎Expression and regulation

Jstuelk: /* References */

2013-12-28T10:29:37Z

‎References

134.76.70.252 at 09:42, 12 November 2013

2013-11-12T09:42:54Z

← Older revision		Revision as of 16:38, 11 February 2015
Line 1:		Line 1:
−	* '''Description:~~''' cell wall-associated protein precursor, contact-dependent growth inhibition protein <br/><br/>~~	+	{{#bank: WapA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''wapA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| cell wall-associated protein precursor~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| intercellular competition~~
−	\|-
−	\|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=BSU39230 wapA]
−	\|-
−	\|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=WapA WapA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 258 kDa, 6.131~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 7002 bp, 2334 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yxxG]]'', ''[[yxxF]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU39230 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU39230 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU39230 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:wapA_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=wapA_4023544_4030548_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:wapA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU39230]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[cell wall/ other]]}},~~
−	~~{{SubtiWiki category\|[[toxins, antitoxins and immunity against toxins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[DegU regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[PhoP regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[WalR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[YvrHb regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU39230
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU39230&redirect=T BSU39230]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/wapA-yxxG.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10797]
−
−	~~=== Additional information===~~
−	* A mutation was found in this gene after evolution under relexed selection for sporulation {{PubMed\|21821766}}
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** the C-terminal toxic domain has RNase activity (cleaves tRNAs) {{PubMed\|23572593}}
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−	** cell wall binding domain as retention signal
−	** C-terminal toxic domain with RNase activity (cleaves tRNAs) {{PubMed\|23572593}}
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−	** [[YxxG]] inhibits the toxic activity of [[WapA]] {{PubMed\|23572593}}
−
−	* '''[[SubtInteract\|Interactions]]:'''
−	** [[WapA]]-[[YxxG]] {{PubMed\|23572593}}
−
−	* '''[[Localization]]:'''
−	** extracellular (signal peptide), cell wall binding domain as retention signal, major constituent of the secretome [http://www.ncbi.nlm.nih.gov/pubmed/18957862 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU39230&redirect=T BSU39230]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q07833 Q07833]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU39230]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[wapA]]-[[yxxG]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=wapA_4023544_4030548_-1 wapA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigA]] {{PubMed\|23199363}}
−
−	* '''Regulation:'''
−	** repressed at high salt concentration ([[DegU]]-P) {{PubMed\|9537385}}
−	** repressed when phosphate is available ([[PhoP]]) {{PubMed\|25666134}}
−
−	* '''Regulatory mechanism:'''
−	** [[PhoP]]: transcription repression {{PubMed\|25666134}}
−	** [[DegU]]-P: transcription repression {{PubMed\|9537385}}
−	** activated by [[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
−	** [[WalR]]: transcription repression {{PubMed\|23199363}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 66 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 6 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 51 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>11987133,16672620,18957862 16306698, 9537385 21821766 23572593 23199363 25666134</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 47: / Line 47: @@
 = This gene is a member of the following [[regulons]] =
 {{SubtiWiki regulon|[[DegU regulon]]}},
 {{SubtiWiki regulon|[[WalR regulon]]}},
 {{SubtiWiki regulon|[[YvrHb regulon]]}}
@@ Line 123: / Line 124: @@
 * '''Regulation:'''
 ** repressed at high salt concentration ([[DegU]]-P) {{PubMed|9537385}}
 * '''Regulatory mechanism:'''
 ** [[DegU]]-P: transcription repression {{PubMed|9537385}}
 ** activated by [[YvrHb]]  [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
@@ Line 153: / Line 156: @@
 =References=
-<pubmed>11987133,16672620,18957862 16306698, 9537385 21821766 23572593 23199363</pubmed>
+<pubmed>11987133,16672620,18957862 16306698, 9537385 21821766 23572593 23199363 25666134</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 130: / Line 130: @@
 * '''Additional information:'''
 =Biological materials =
 * '''Mutant:'''

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/wapA-yxxG.html]
@@ Line 100: / Line 101: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 117: / Line 117: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=wapA_4023544_4030548_-1 wapA] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigA]] {{PubMed|23199363}}
+* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|23199363}}
 * '''Regulation:'''

@@ Line 47: / Line 47: @@
 = This gene is a member of the following [[regulons]] =
 {{SubtiWiki regulon|[[DegU regulon]]}},
 {{SubtiWiki regulon|[[YvrHb regulon]]}}
@@ Line 65: / Line 66: @@
 === Additional information===
 * A mutation was found in this gene after evolution under relexed selection for sporulation  {{PubMed|21821766}}
 =The protein=
@@ Line 82: / Line 82: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 ** cell wall binding domain as retention signal
 ** C-terminal toxic domain with RNase activity (cleaves tRNAs) {{PubMed|23572593}}
@@ Line 88: / Line 88: @@
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''

@@ 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=BSU39230 wapA]
 |-
-|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/WapA WapA]
+|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=WapA WapA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 258 kDa, 6.131