MenB - Revision history

134.76.70.252 at 14:10, 17 April 2014

2014-04-17T14:10:01Z

134.76.70.252 at 09:41, 17 April 2014

2014-04-17T09:41:22Z

134.76.38.147 at 14:35, 2 April 2014

2014-04-02T14:35:33Z

134.76.70.252 at 11:31, 7 January 2014

2014-01-07T11:31:42Z

134.76.70.252 at 14:23, 16 May 2013

2013-05-16T14:23:40Z

134.76.70.252 at 11:05, 14 May 2013

2013-05-14T11:05:47Z

134.76.70.252 at 13:41, 13 May 2013

2013-05-13T13:41:19Z

134.76.70.252 at 15:16, 7 August 2012

2012-08-07T15:16:25Z

Jstuelk at 14:52, 21 April 2012

2012-04-21T14:52:09Z

Jstuelk: /* Categories containing this gene/protein */

2012-04-20T15:24:08Z

‎Categories containing this gene/protein

← Older revision		Revision as of 14:10, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' naphthoate synthase <br/><br/>~~	+	{{#bank: MenB}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''menB''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| '' ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| naphthoate synthase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| biosynthesis of menaquinone~~
−	\|-
−	\|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=BSU30800 menB]
−	\|-
−	\|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=menB menB]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 29 kDa, 5.343~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 813 bp, 271 aa~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[menE]]'', ''[[ytxM]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30800 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30800 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30800 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:menB_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=menB_3148901_3149716_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:menB_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU30800]]
−	\|-
−	\|}
−
−	~~__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\|[[biosynthesis of cofactors]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU30800
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU30800&redirect=T BSU30800]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/menBEC.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10686]
−
−	~~=== Additional information===~~
−
−
−
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' o-succinylbenzoyl-CoA = CoA + 1,4-dihydroxy-2-naphthoate (according to Swiss-Prot)
−
−	* '''Protein family:''' enoyl-CoA hydratase/isomerase family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''Domains:'''
−
−	* '''Modification:'''
−	** phosphorylated on Arg-78 and Arg-269 {{PubMed\|22517742}}
−
−	* '''Cofactor(s):'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU30800&redirect=T BSU30800]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1RJM 1RJM] (from ''Mycobacterium tuberculosis'', 48% identity, 61% similarity)
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P23966 P23966]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU30800]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/4.1.3.36 4.1.3.36]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−	* '''Operon:'''
−	** ''[[menF]]-[[menD]]-[[ytxM]]-[[menB]]-[[menE]]-[[menC]]'' {{PubMed\|9387221,1629163,8550504}}
−	** ''[[menB]]-[[menE]]-[[menC]]'' {{PubMed\|9387221,1629163}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=menB_3148901_3149716_-1 menB] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−	** ''[[menF]]'': [[SigA]] {{PubMed\|8550504}}
−	** ''[[menB]]'': [[SigA]] {{PubMed\|9387221,1629163}}
−
−	* '''Regulation:'''
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 929 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 2531 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−
−	* '''Expression vector:'''
−
−	* '''lacZ fusion:'''
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:'''
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−
−	~~<pubmed>9387221,1629163,8550504 22517742</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:41, 17 April 2014
Line 129:		Line 129:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 929 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 2531 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 62: / Line 62: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/menBEC.html]
@@ Line 100: / Line 101: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1RJM 1RJM] (from ''Mycobacterium tuberculosis'', 48% identity, 61% similarity)

@@ 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=BSU30800 menB]
 |-
-|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/menaquinone.html Menaquinone]'''
+|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=menB menB]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 29 kDa, 5.343

@@ 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=menB_3148901_3149716_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:menB_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=menB_3148901_3149716_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:menB_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU30800]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[menE]]'', ''[[ytxM]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30800 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30800 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30800 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU30800 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU30800 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU30800 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:menB_context.gif]]

@@ Line 13: / Line 13: @@
 |-
 |style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of menaquinone
 |-
 |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/menaquinone.html Menaquinone]'''

@@ Line 87: / Line 87: @@
 * '''Modification:'''
 * '''Cofactor(s):'''
@@ Line 145: / Line 146: @@
 =References=
-<pubmed>9387221,1629163,8550504</pubmed>
+<pubmed>9387221,1629163,8550504 22517742</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 43: / Line 43: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[biosynthesis of cofactors]]}},
-{{SubtiWiki category|[[essential genes]]}}
+{{SubtiWiki category|[[essential genes]]}},
 = This gene is a member of the following [[regulons]] =