SasA - Revision history

Jstuelk: /* References */

2015-02-10T17:56:27Z

‎References

Jstuelk: /* Phenotypes of a mutant */

2015-02-10T17:55:39Z

‎Phenotypes of a mutant

Jstuelk: /* References */

2014-04-02T08:19:50Z

‎References

Jstuelk at 16:40, 6 February 2014

2014-02-06T16:40:35Z

Jstuelk at 15:53, 6 February 2014

2014-02-06T15:53:20Z

Jstuelk: Jstuelk moved page YwaC to SasA: 24489751

2014-02-06T15:52:00Z

Jstuelk moved page YwaC to SasA: 24489751

Jstuelk at 11:46, 22 December 2013

2013-12-22T11:46:24Z

134.76.70.252 at 14:55, 16 May 2013

2013-05-16T14:55:05Z

134.76.70.252 at 11:36, 14 May 2013

2013-05-14T11:36:54Z

134.76.70.252 at 14:11, 13 May 2013

2013-05-13T14:11:30Z

← Older revision		Revision as of 17:56, 10 February 2015
Line 1:		Line 1:
−	* '''Description:~~''' (p)ppGpp synthetase, small alarmone synthetase <br/><br/>~~	+	{{#bank: SasA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''sasA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''ywaC, ipa-7d ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| (p)ppGpp synthetase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| ppGpp synthesis independent from stringent response~~
−	\|-
−	\|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=BSU38480 sasA]
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 24 kDa, 6.217~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 630 bp, 210 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ywaD]]'', ''[[menA]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38480 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38480 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38480 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:ywaC_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=ywaC_3949952_3950584_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:ywaC_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38480]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[metabolism of signalling nucleotides]]}},~~
−	~~{{SubtiWiki category\|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigM regulon]]}}~~
−	~~{{SubtiWiki regulon\|[[SigW regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU38480
−
−	~~===Phenotypes of a mutant ===~~
−	* a ''[[relA]] [[sasA]] [[sasB]]'' triple mutant requires branched chain amino acids, methionine and threonine for growth, the requirement can be suppressed by reduced expression of ''[[guaB]]'' or inactivation of ''[[codY]]'' {{PubMed\|24163341}}
−	* a ''[[relA]] [[sasA]] [[sasB]]'' triple mutant acquires suppressor mutations in ''[[guaA]], [[guaB]], [[gmk]]'' or inactivation of ''[[codY]]'' {{PubMed\|24682323,24163341}}
−
−	~~=== Database entries ===~~
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywaC.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10553]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):''' [[SasB]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:''' single ppGpp synthetase domain {{PubMed\|24163341}}
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P39583 P39583]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38480]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''sasA'' {{PubMed\|11866510}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywaC_3949952_3950584_-1 sasA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigM]] {{PubMed\|18179421}} [[SigW]] {{PubMed\|11866510}}
−
−	* '''Regulation:'''
−	** transcription is highly upregulated in response to lesions in late-acting teichoic acid synthesis genes ''[[tagB]]'', ''[[tagD]]'' and ''[[tagF]]'', and also in response to cell-wall-active compounds like bacitracin or vancomycin {{PubMed\|19477419}}
−	** expression is reduced in a [[SigV]] mutant {{PubMed\|21926231}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341 24489751 24687489 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 53: / Line 53: @@
 ===Phenotypes of a mutant ===
 * a ''[[relA]] [[sasA]] [[sasB]]'' triple mutant requires branched chain amino acids, methionine and threonine for growth, the requirement can be suppressed by reduced expression of ''[[guaB]]'' or inactivation of ''[[codY]]'' {{PubMed|24163341}}
 === Database entries ===

@@ Line 135: / Line 135: @@
 =References=
-<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341 24489751 </pubmed>
+<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341 24489751 24687489 </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 4: / Line 4: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Gene name'''
-|''ywaC''
+|''sasA''
 |-
-|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-7d ''
+|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywaC, ipa-7d ''
 |-
 |style="background:#ABCDEF;" align="center"| '''Essential''' || no

@@ Line 14: / Line 14: @@
 |style="background:#ABCDEF;" align="center"|'''Function''' || ppGpp synthesis independent from stringent response
 |-
-|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=BSU38480 ywaC]
+|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=BSU38480 sasA]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 24 kDa, 6.217
@@ Line 52: / Line 52: @@
 ===Phenotypes of a mutant ===
-* a ''[[relA]] [[yjbM]] [[ywaC]]'' triple mutant requires branched chain amino acids, methionine and threonine for growth, the requirement can be suppressed by reduced expression of ''[[guaB]]'' or inactivation of ''[[codY]]'' {{PubMed|24163341}}
+* a ''[[relA]] [[sasA]] [[sasB]]'' triple mutant requires branched chain amino acids, methionine and threonine for growth, the requirement can be suppressed by reduced expression of ''[[guaB]]'' or inactivation of ''[[codY]]'' {{PubMed|24163341}}
 === Database entries ===
@@ Line 70: / Line 70: @@
 * '''Protein family:'''
-* '''Paralogous protein(s):''' [[YjbM]]
+* '''Paralogous protein(s):''' [[SasB]]
 === Extended information on the protein ===
@@ Line 102: / Line 102: @@
 =Expression and regulation=
-* '''Operon:''' ''ywaC'' {{PubMed|11866510}}
+* '''Operon:''' ''sasA'' {{PubMed|11866510}}
-* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywaC_3949952_3950584_-1 ywaC] {{PubMed|22383849}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywaC_3949952_3950584_-1 sasA] {{PubMed|22383849}}
 * '''[[Sigma factor]]:''' [[SigM]] {{PubMed|18179421}} [[SigW]] {{PubMed|11866510}}
@@ Line 135: / Line 135: @@
 =References=
-<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341</pubmed>
+<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341 24489751 </pubmed>
 [[Category:Protein-coding genes]]

← Older revision	Revision as of 15:52, 6 February 2014
(No difference)

@@ Line 52: / Line 52: @@
 ===Phenotypes of a mutant ===
 === Database entries ===
@@ Line 75: / Line 76: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:''' single ppGpp synthetase domain {{PubMed|24163341}}
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 105: / Line 106: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywaC_3949952_3950584_-1 ywaC] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigM]] {{PubMed|18179421}} [[SigW]] {{PubMed|11866510}}
+* '''[[Sigma factor]]:''' [[SigM]] {{PubMed|18179421}} [[SigW]] {{PubMed|11866510}}
 * '''Regulation:'''
@@ Line 134: / Line 135: @@
 =References=
-'''Additional publications:''' {{PubMed|21926231,22950019}}
+<pubmed>21926231,22950019 18670626 19447912 18067544 19477419 12207695 11866510 18179421 24163341</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=ywaC_3949952_3950584_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ywaC_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=ywaC_3949952_3950584_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:ywaC_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU38480]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywaD]]'', ''[[menA]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38480 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38480 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38480 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU38480 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU38480 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU38480 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:ywaC_context.gif]]