IolJ - Revision history

134.76.70.252 at 09:46, 17 April 2014

2014-04-17T09:46:26Z

134.76.38.147 at 15:13, 2 April 2014

2014-04-02T15:13:23Z

134.76.70.252 at 12:01, 7 January 2014

2014-01-07T12:01:44Z

134.76.70.252 at 14:59, 16 May 2013

2013-05-16T14:59:12Z

134.76.70.252 at 11:41, 14 May 2013

2013-05-14T11:41:36Z

134.76.70.252 at 14:16, 13 May 2013

2013-05-13T14:16:07Z

134.76.70.252 at 17:37, 7 August 2012

2012-08-07T17:37:34Z

134.76.70.252 at 12:38, 23 April 2012

2012-04-23T12:38:48Z

134.76.70.252 at 10:04, 17 April 2012

2012-04-17T10:04:12Z

Jstuelk: /* Extended information on the protein */

2011-08-10T16:17:23Z

‎Extended information on the protein

← Older revision		Revision as of 09:46, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' 2-deoxy-5-keto-gluconic acid-6-phosphate aldolase, formation of dihydroxyacetone phosphate and malonic semialdehyde (6th reaction) <br/><br/>~~	+	{{#bank: IolJ}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''iolJ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''fbaB, yxdI ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| 2-deoxy-5-keto-gluconic acid-6-phosphate aldolase, <br/>formation of dihydroxyacetone phosphate and <br/>malonic semialdehyde (6th reaction)
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| myo-inositol catabolism~~
−	\|-
−	\|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=BSU39670 iolJ]
−	\|-
−	\|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=iolJ iolJ]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 31 kDa, 4.854~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 870 bp, 290 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yxdJ]]'', ''[[iolI]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU39670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU39670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU39670 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:fbaB_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=iolJ_4073081_4073953_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:iolJ_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU39670]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−
−
−	~~<br/><br/><br/><br/><br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of specific carbon sources]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[CcpA regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[IolR regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU39670
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU39670&redirect=T BSU39670]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mmsA-iolBCDEF-idh-iolHI-fbaB.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11125]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' 5-dehydro-2-deoxy-D-gluconate 6-phosphate = glycerone phosphate + malonate semialdehyde (according to Swiss-Prot)
−
−	* '''Protein family:''' IolJ subfamily (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[FbaA]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:''' inhibited by alpha-keto acids [http://www.ncbi.nlm.nih.gov/pubmed/24624 PubMed]
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU39670&redirect=T BSU39670]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P42420 P42420]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU39670]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/4.1.2.29 4.1.2.29]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[iolA]]-[[iolB]]-[[iolC]]-[[iolD]]-[[iolE]]-[[iolF]]-[[iolG]]-[[iolH]]-[[iolI]]-[[iolJ]]'' {{PubMed\|9226270}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=iolJ_4073081_4073953_-1 iolJ] {{PubMed\|22383849}}
−
−	* '''Sigma factor:''' [[SigA]] {{PubMed\|9226270}}
−
−	* '''Regulation:'''
−	** repressed by glucose ([[CcpA]]) {{PubMed\|10666464}}
−	** induced by inositol ([[IolR]]) {{PubMed\|9887260,9226270}}
−
−	* '''Regulatory mechanism:'''
−	** [[IolR]]: transcription repression {{PubMed\|9887260,9226270}}
−	** [[CcpA]]: transcription repression {{PubMed\|10666464}}
−
−	* '''Additional information:'''
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	* [[Yasutaro Fujita]], University of Fukuyama, Japan
−	* [[Ken-ichi Yoshida]], Kobe University, Japan
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>9226270,18310071,9887260,18310071, </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/mmsA-iolBCDEF-idh-iolHI-fbaB.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:'''

@@ 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=BSU39670 iolJ]
 |-
-|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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''
+|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=iolJ iolJ]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 31 kDa, 4.854

@@ 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=iolJ_4073081_4073953_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:iolJ_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=iolJ_4073081_4073953_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:iolJ_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU39670]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yxdJ]]'', ''[[iolI]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU39670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU39670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU39670 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU39670 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU39670 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU39670 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:fbaB_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || myo-inositol catabolism
 |-
 |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/carbohydrate_metabolic_pathways.html Sugar catabolism]'''

@@ Line 101: / Line 101: @@
 * '''Operon:''' ''[[iolA]]-[[iolB]]-[[iolC]]-[[iolD]]-[[iolE]]-[[iolF]]-[[iolG]]-[[iolH]]-[[iolI]]-[[iolJ]]'' {{PubMed|9226270}}
-* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|9226270}}
+* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=iolJ_4073081_4073953_-1 iolJ] {{PubMed|22383849}}
 * '''Regulation:'''

@@ Line 81: / Line 81: @@
 * '''Effectors of protein activity:''' inhibited by alpha-keto acids [http://www.ncbi.nlm.nih.gov/pubmed/24624 PubMed]
-* '''Interactions:'''
+* '''[[SubtInteract|Interactions]]:'''
-* '''Localization:'''
+* '''[[Localization]]:'''
 === Database entries ===