BkdB - Revision history

134.76.70.252 at 09:55, 17 April 2014

2014-04-17T09:55:25Z

134.76.38.147 at 14:09, 2 April 2014

2014-04-02T14:09:50Z

134.76.70.252 at 11:10, 7 January 2014

2014-01-07T11:10:01Z

Jstuelk at 10:51, 28 July 2013

2013-07-28T10:51:51Z

Jstuelk at 19:18, 8 June 2013

2013-06-08T19:18:00Z

134.76.70.252 at 13:51, 16 May 2013

2013-05-16T13:51:30Z

134.76.70.252 at 10:40, 14 May 2013

2013-05-14T10:40:13Z

134.76.70.252 at 13:14, 13 May 2013

2013-05-13T13:14:31Z

134.76.70.252 at 11:26, 7 August 2012

2012-08-07T11:26:32Z

134.76.70.252 at 07:58, 20 April 2012

2012-04-20T07:58:58Z

← Older revision		Revision as of 09:55, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' 2-oxoisovalerate dehydrogenase (E2 subunit, lipoamide acyltransferase) <br/><br/>~~	+	{{#bank: BkdB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''bkdB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''bfmBB, bfmB2, bkd ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| 2-oxoisovalerate dehydrogenase <br/>(E2 subunit, lipoamide acyltransferase)~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| utilization of branched-chain keto acids~~
−	\|-
−	\|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=BSU24030 bkdB]
−	\|-
−	\|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=bkdB bkdB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 45 kDa, 5.301~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1272 bp, 424 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[bmrR]]'', ''[[bkdAB]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24030 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24030 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24030 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:bkdB_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=bkdB_2496796_2498070_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:bkdB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24030]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[utilization of amino acids]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[BkdR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[CodY regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigL regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU24030
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24030&redirect=T BSU24030]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptb-bcd-buk-lpdV-bkdAABB.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10305]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' 2-methylpropanoyl-CoA + enzyme N(6)-(dihydrolipoyl)lysine = CoA + enzyme N(6)-(S-(2-methylpropanoyl)dihydrolipoyl)lysine (according to Swiss-Prot)
−
−	* '''Protein family:''' 2-oxoacid dehydrogenase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):''' [[AcoC]], [[OdhB]], [[PdhC]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−
−	* '''Cofactor(s):'''
−	** lipoic acid
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:''' Nucleoid (Heterogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU24030&redirect=T BSU24030]
−
−	* '''Structure:'''
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P37942 P37942]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU24030]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.168 2.3.1.168]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[ptb]]-[[bcd]]-[[buk]]-[[lpdV]]-[[bkdAA]]-[[bkdAB]]-[[bkdB]]'' {{PubMed\|12823818}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=bkdB_2496796_2498070_-1 bkdB] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/10094682 PubMed]
−
−	* '''Regulation:'''
−	** induced in the presence of isoleucine or valine ([[BkdR]]) {{PubMed\|10094682}}
−
−	* '''Regulatory mechanism:'''
−	** [[CodY]]: transcription repression [http://www.ncbi.nlm.nih.gov/sites/entrez/10094682 PubMed]
−	** [[BkdR]]: transcription activation {{PubMed\|10094682}}
−
−	* '''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>12427936,15241682,10094682,10094682,16479537 12823818 </pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 56: / Line 56: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ptb-bcd-buk-lpdV-bkdAABB.html]
@@ Line 94: / Line 95: @@
 === 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=BSU24030 bkdB]
 |-
-|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], [http://subtiwiki.uni-goettingen.de/pathways/ile_val_leu.html Ile, Leu, Val]'''
+|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=bkdB bkdB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 45 kDa, 5.301

← Older revision		Revision as of 10:51, 28 July 2013
Line 85:		Line 85:

	* '''Cofactor(s):'''		* '''Cofactor(s):'''
		+	** lipoic acid

	* '''Effectors of protein activity:'''		* '''Effectors of protein activity:'''

@@ Line 37: / Line 37: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 78: / Line 74: @@
 * '''Protein family:''' 2-oxoacid dehydrogenase family (according to Swiss-Prot)
-* '''Paralogous protein(s):'''
+* '''Paralogous protein(s):''' [[AcoC]], [[OdhB]], [[PdhC]]
 === Extended information on the protein ===
@@ Line 113: / Line 109: @@
 * '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=bkdB_2496796_2498070_-1 bkdB] {{PubMed|22383849}}
-* '''Sigma factor:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/10094682 PubMed]
+* '''[[Sigma factor]]:''' [[SigL]] [http://www.ncbi.nlm.nih.gov/sites/entrez/10094682 PubMed]
 * '''Regulation:'''

@@ 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=bkdB_2496796_2498070_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:bkdB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=bkdB_2496796_2498070_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:bkdB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU24030]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[bmrR]]'', ''[[bkdAB]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24030 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24030 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24030 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU24030 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU24030 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU24030 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:bkdB_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || utilization of branched-chain keto acids
 |-
 |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], [http://subtiwiki.uni-goettingen.de/pathways/ile_val_leu.html Ile, Leu, Val]'''