YugO - Revision history

Jstuelk: /* Biological materials */

2015-07-20T08:44:45Z

‎Biological materials

Jstuelk: /* Biological materials */

2015-06-09T09:05:53Z

‎Biological materials

134.76.70.252 at 11:54, 8 April 2014

2014-04-08T11:54:12Z

134.76.38.147 at 14:37, 2 April 2014

2014-04-02T14:37:17Z

Jstuelk: /* Extended information on the protein */

2013-12-04T18:19:39Z

‎Extended information on the protein

Jstuelk at 18:18, 4 December 2013

2013-12-04T18:18:34Z

Jstuelk at 12:12, 6 June 2013

2013-06-06T12:12:37Z

Jstuelk at 10:53, 6 June 2013

2013-06-06T10:53:20Z

134.76.70.252 at 14:25, 16 May 2013

2013-05-16T14:25:50Z

134.76.70.252 at 11:07, 14 May 2013

2013-05-14T11:07:42Z

← Older revision		Revision as of 08:44, 20 July 2015
Line 1:		Line 1:
−	* '''Description:~~''' putative potassium channel protein <br/><br/>~~	+	{{#bank: YugO}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yugO''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| putative potassium channel protein~~
−	\|-
−	~~\|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=BSU31322 yugO]
−	\|-
−	\|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=YugO YugO]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 37 kDa, 7.091~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 984 bp, 328 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[mstX]]'', ''[[yugN]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31322 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31322 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31322 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yugO_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=yugO_3218854_3219840_1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:yugO_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31322]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[transporters/ other]]}},~~
−	~~{{SubtiWiki category\|[[metal ion homeostasis (K, Na, Ca, Mg)]]}},~~
−	~~{{SubtiWiki category\|[[biofilm formation]]}},~~
−	~~{{SubtiWiki category\|[[membrane proteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SinR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU31322
−
−	~~===Phenotypes of a mutant ===~~
−	* reduced [[biofilm formation]] (can be suppressed by inactivation of ''[[sinR]]'') {{PubMed\|23737939}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31322&redirect=T BSU31322]
−
−	* '''DBTBS entry:''' no entry
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12369]
−
−	~~=== Additional information===~~
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−
−	* '''Protein family:'''
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−	** contains a [[RCK_N domain]] (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+N-terminal+domain*%22])
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31322&redirect=T BSU31322]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/Q795M8 Q795M8]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31320]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[mstX]]-[[yugO]]'' {{PubMed\|23737939}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yugO_3218854_3219840_1 yugO] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** repressed by [[SinR]] {{PubMed\|23737939}}
−
−	* '''Regulatory mechanism:'''
−	** [[SinR]]: transcription repression {{PubMed\|23737939}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	** TMB92 (''yugO''::''tet''), available in [[Erhard Bremer]]'s and [[Jörg Stülke]]'s labs
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>23737939 </pubmed>~~
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:05, 9 June 2015
Line 128:		Line 128:

	* '''Mutant:'''		* '''Mutant:'''
		+	** TMB92 (''yugO''::''tet''), available in [[Erhard Bremer]]'s and [[Jörg Stülke]]'s labs

	* '''Expression vector:'''		* '''Expression vector:'''

@@ 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=BSU31322 yugO]
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37 kDa, 7.091

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' no entry
@@ Line 94: / Line 95: @@
 === Database entries ===
 * '''Structure:'''

@@ Line 81: / Line 81: @@
 * '''[[Domains]]:'''
-** contains a [[RCK_N domain]] at the N-terminus (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+N-terminal+domain*%22])
+** contains a [[RCK_N domain]] (according to UniProt, [http://www.uniprot.org/uniprot/?query=domain:%22RCK+N-terminal+domain*%22])
 * '''Modification:'''

@@ Line 64: / Line 64: @@
 === Additional information===
@@ Line 82: / Line 80: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
-* '''Interactions:'''
+* '''[[SubtInteract|Interactions]]:'''
-* '''Localization:'''
+* '''[[Localization]]:'''
 === Database entries ===

@@ Line 41: / Line 41: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[transporters/ other]]}},
-{{SubtiWiki category|[[metal ion homeostasis (K, Na, Ca, Mg)]]}}
+{{SubtiWiki category|[[metal ion homeostasis (K, Na, Ca, Mg)]]}},
 = This gene is a member of the following [[regulons]] =
+{{SubtiWiki regulon|[[SinR regulon]]}}
 =The gene=
@@ Line 53: / Line 55: @@
 ===Phenotypes of a mutant ===
 === Database entries ===

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 109: / Line 105: @@
 =Expression and regulation=
-* '''Operon:'''
+* '''Operon:''' ''[[mstX]]-[[yugO]]'' {{PubMed|23737939}}
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yugO_3218854_3219840_1 yugO] {{PubMed|22383849}}
-* '''Sigma factor:'''
+* '''[[Sigma factor]]:'''
 * '''Regulation:'''
 * '''Regulatory mechanism:'''
 * '''Additional information:'''
@@ Line 140: / Line 138: @@
 =References=
+<pubmed>23737939 </pubmed>
 [[Category:Protein-coding genes]]

@@ 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=yugO_3218854_3219840_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yugO_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yugO_3218854_3219840_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yugO_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31322]]
 |-
 |}

@@ Line 22: / Line 22: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[mstX]]'', ''[[yugN]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31322 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31322 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31322 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31322 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31322 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31322 DNA_with_flanks]
 |-
 |-