YhdN - Revision history

134.76.70.252 at 10:04, 17 April 2014

2014-04-17T10:04:16Z

134.76.38.147 at 13:18, 2 April 2014

2014-04-02T13:18:06Z

Jstuelk: /* The gene */

2014-02-14T17:35:56Z

‎The gene

Jstuelk: /* The protein */

2014-02-14T17:28:48Z

‎The protein

Jstuelk at 17:26, 14 February 2014

2014-02-14T17:26:19Z

Jstuelk at 18:12, 7 January 2014

2014-01-07T18:12:41Z

134.76.70.252 at 10:25, 7 January 2014

2014-01-07T10:25:34Z

134.76.70.252 at 12:52, 16 May 2013

2013-05-16T12:52:27Z

134.76.70.252 at 09:48, 14 May 2013

2013-05-14T09:48:25Z

134.76.70.252 at 12:26, 13 May 2013

2013-05-13T12:26:42Z

← Older revision		Revision as of 10:04, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' general stress protein, broad specificity aldo-keto reductase that converts MG to acetol <br/><br/>	+	{{#bank: YhdN}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''yhdN''~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| aldo/keto reductase, specific for NADP~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| detoxification of methylglyoxal~~
−	\|-
−	\|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=BSU09530 yhdN]
−	\|-
−	\|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=yhdN yhdN]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 37 kDa, 4.77~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 993 bp, 331 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[sigM]]'', ''[[plsC]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09530 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:yhdN_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=yhdN_1030265_1031260_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:yhdN_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU09530]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[biosynthesis of lipids]]}},~~
−	~~{{SubtiWiki category\|[[general stress proteins (controlled by SigB)]]}},~~
−	~~{{SubtiWiki category\|[[resistance against oxidative and electrophile stress]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[SigB regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU09530
−
−	~~===Phenotypes of a mutant ===~~
−	* increased sensitivity to methylglyoxal {{PubMed\|24330391}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU09530&redirect=T BSU09530]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhdNO.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13020]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** methylglyoxal --> acetol {{PubMed\|24330391}}
−
−	* '''Protein family:''' aldo/keto reductase 2 family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:''' NADPH {{PubMed\|24330391}}
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU09530&redirect=T BSU09530]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PZ1 1PZ1]
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P80874 P80874]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU09530]
−
−	* '''E.C. number:'''
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[yhdN]]-[[plsC]]'' {{PubMed\|10220166}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhdN_1030265_1031260_1 yhdN] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigB]] {{PubMed\|10220166,15805528}}
−
−	* '''Regulation:'''
−	** induced by stress ([[SigB]]) {{PubMed\|10220166,15805528}}
−
−	* '''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>10220166,15019785, 24330391,12737802,15805528, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/yhdNO.html]
@@ Line 91: / Line 92: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PZ1 1PZ1]

← Older revision		Revision as of 17:35, 14 February 2014
Line 53:		Line 53:

	===Phenotypes of a mutant ===		===Phenotypes of a mutant ===
		+	* increased sensitivity to methylglyoxal {{PubMed\|24330391}}

	=== Database entries ===		=== Database entries ===

@@ Line 81: / Line 81: @@
 * '''Modification:'''
-* '''[[Cofactors]]:'''
+* '''[[Cofactors]]:''' NADPH {{PubMed|24330391}}
 * '''Effectors of protein activity:'''

@@ Line 40: / Line 40: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[biosynthesis of lipids]]}},
-{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}}
+{{SubtiWiki category|[[general stress proteins (controlled by SigB)]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 66: / Line 67: @@
 * '''Catalyzed reaction/ biological activity:'''
 * '''Protein family:''' aldo/keto reductase 2 family (according to Swiss-Prot)

@@ Line 1: / Line 1: @@
-* '''Description:''' general stress protein, aldo/keto reductase <br/><br/>
+* '''Description:''' general stress protein, broad specificity aldo-keto reductase that converts MG to acetol <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-
@@ Line 11: / Line 11: @@
 |style="background:#ABCDEF;" align="center"| '''Product''' || aldo/keto reductase, specific for NADP
 |-
-|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+|style="background:#ABCDEF;" align="center"|'''Function''' || detoxification of methylglyoxal
 |-
 |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=BSU09530 yhdN]
@@ Line 36: / Line 36: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 64: / Line 60: @@
 === Additional information===
 =The protein=
@@ Line 82: / Line 75: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 112: / Line 105: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhdN_1030265_1031260_1 yhdN] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigB]] {{PubMed|10220166,15805528}}
+* '''[[Sigma factor]]:''' [[SigB]] {{PubMed|10220166,15805528}}
 * '''Regulation:'''
@@ Line 141: / Line 134: @@
 =References=
-<pubmed>10220166,15019785,,12737802,15805528, </pubmed>
+<pubmed>10220166,15019785, 24330391,12737802,15805528, </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=BSU09530 yhdN]
 |-
-|colspan="2" style="background:#FAF8CC;" align="center"| '''Metabolic function and regulation of this protein in [[SubtiPathways|''Subti''Pathways]]: <br/>[http://subtiwiki.uni-goettingen.de/pathways/fatty_acid_synthesis.html Lipid synthesis]'''
+|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=yhdN yhdN]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 37 kDa, 4.77

@@ Line 28: / Line 28: @@
   <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=yhdN_1030265_1031260_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yhdN_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=yhdN_1030265_1031260_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:yhdN_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU09530]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[sigM]]'', ''[[plsC]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09530 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU09530 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU09530 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU09530 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:yhdN_context.gif]]