FabF - Revision history

134.76.70.252 at 14:06, 17 April 2014

2014-04-17T14:06:07Z

134.76.70.252 at 09:27, 17 April 2014

2014-04-17T09:27:28Z

134.76.38.147 at 13:24, 2 April 2014

2014-04-02T13:24:26Z

Jstuelk: /* Database entries */

2014-03-20T09:46:20Z

‎Database entries

Jstuelk at 09:34, 20 March 2014

2014-03-20T09:34:51Z

134.76.70.252 at 10:30, 7 January 2014

2014-01-07T10:30:41Z

134.76.70.252 at 12:58, 16 May 2013

2013-05-16T12:58:16Z

134.76.70.252 at 09:54, 14 May 2013

2013-05-14T09:54:15Z

134.76.70.252 at 12:32, 13 May 2013

2013-05-13T12:32:15Z

Raphael2215 at 11:12, 9 August 2012

2012-08-09T11:12:55Z

← Older revision		Revision as of 14:06, 17 April 2014
Line 1:		Line 1:
−	* '''Description:''' beta-ketoacyl-acyl carrier protein synthase II, involved in the control of membrane fluidity <br/><br/>	+	{{#bank: FabF}}
−	{~~\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''fabF''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yjaY ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| yes [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| beta-ketoacyl-acyl carrier protein synthase II~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| fatty acid biosynthesis~~
−	\|-
−	\|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=BSU11340 fabF]
−	\|-
−	\|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=fabF fabF]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 43 kDa, 4.768~~
−	\|-
−	~~\|style="background:~~#~~ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1239 bp, 413 aa~~
−	\|-
−	~~\|style="background~~:~~#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[fabHA]]'', ''[[yjaZ]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU11340 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU11340 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU11340 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:fabF_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=fabF_1209183_1210424_1 Expression at a glance]'''   {{PubMed\|22383849~~}~~}<br/>[[Image:fabF_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU11340]]~~
−	\|-
−	\|}

−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[membrane dynamics]]}},~~
−	~~{{SubtiWiki category\|[[biosynthesis of lipids]]}},~~
−	~~{{SubtiWiki category\|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},~~
−	~~{{SubtiWiki category\|[[essential genes]]}}~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−	~~{{SubtiWiki regulon\|[[FapR regulon]]}},~~
−	~~{{SubtiWiki regulon\|[[SigW regulon]]}}~~
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU11340
−
−	~~===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=BSU11340&redirect=T BSU11340]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fabHAF.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13128]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:'''
−	** (Z)-hexadec-11-enoyl-[acyl-carrier-protein] + malonyl-[acyl-carrier-protein] = (Z)-3-oxooctadec-13-enoyl-[acyl-carrier-protein] + CO<sub>2</sub> + [acyl-carrier-protein] (according to Swiss-Prot)
−	** [[SigW]]-dependent expression of ''[[fabF]]'' and the ''[[yuaF]]-[[floT]]-[[yuaI]]'' operon result in reduced membrane fluidity {{PubMed\|21542858,22178969}}
−
−	* '''Protein family:''' beta-ketoacyl-ACP synthases family (according to Swiss-Prot)
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:'''
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:'''
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU11340&redirect=T BSU11340]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=4LS5 4LS5] {{PubMed\|24641521}}
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/O34340 O34340]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU11340]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/2.3.1.179 2.3.1.179]
−
−	~~=== Additional information===~~
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:''' ''[[fabHA]]-[[fabF]]'' {{PubMed\|12737802}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fabF_1209183_1210424_1 fabF] {{PubMed\|22383849}}
−
−	* '''Sigma factor:'''
−	** ''[[fabHA]]'': [[SigA]] {{PubMed\|12737802}}
−	** ''[[fabF]]'': [[SigW]] {{PubMed\|21542858}}
−
−	* '''Regulation:'''
−	** ''[[fabHA]]'': expressed when the cells experience a lack of malonyl-CoA ([[FapR]]) {{PubMed\|12737802}}
−	** ''[[fabHA]]'': induced upon fatty acid biosynthesis inhibition {{PubMed\|21383089}}
−	** ''[[fabF]]'': induced by alkaline shock and by polymyxin B, vancomycin, cephalosporin C, D-cycloserine, and triton X-100 ([[SigW]]) {{PubMed\|21542858}}
−
−	* '''Regulatory mechanism:'''
−	** [[FapR]]: transcription repression {{PubMed\|12737802}}
−
−	* '''Additional information:'''
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 1802 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1844 {{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=~~
−	~~==Reviews==~~
−	~~<pubmed> 15952903 17919287</pubmed>~~
−	~~==Original Publications==~~
−	~~<pubmed>18384517, 12837788,12737802, 12682299 21383089 24641521 21542858,22178969</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

← Older revision		Revision as of 09:27, 17 April 2014
Line 127:		Line 127:

	* '''Additional information:'''		* '''Additional information:'''
		+	** number of protein molecules per cell (minimal medium with glucose and ammonium): 1802 {{PubMed\|24696501}}
		+	** number of protein molecules per cell (complex medium with amino acids, without glucose): 1844 {{PubMed\|24696501}}

	=Biological materials =		=Biological materials =

@@ Line 59: / Line 59: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fabHAF.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=4LS5 4LS5] {{PubMed|24641521}}

@@ Line 96: / Line 96: @@
 === Database entries ===
-* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=1OX0 1OX0] (the protein from ''Streptococcus pneumoniae'') {{PubMed|12837788}}
+* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=4LS5 4LS5] {{PubMed|24641521}}
 * '''UniProt:''' [http://www.uniprot.org/uniprot/O34340 O34340]

@@ Line 36: / Line 36: @@
 <br/><br/><br/><br/>
 <br/><br/><br/><br/>
-<br/><br/><br/><br/>
+<br/><br/>
 = [[Categories]] containing this gene/protein =
@@ Line 69: / Line 65: @@
 === Additional information===
 =The protein=
@@ Line 87: / Line 82: @@
 * '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:'''
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:'''
@@ Line 153: / Line 148: @@
 <pubmed> 15952903 17919287</pubmed>
 ==Original Publications==
-'''Additional publications:'''  {{PubMed|21542858,22178969}}
+<pubmed>18384517, 12837788,12737802, 12682299 21383089 24641521 21542858,22178969</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=BSU11340 fabF]
 |-
-|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=fabF fabF]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 43 kDa, 4.768

@@ 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=fabF_1209183_1210424_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fabF_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fabF_1209183_1210424_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fabF_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU11340]]
 |-
 |}

@@ Line 23: / Line 23: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[fabHA]]'', ''[[yjaZ]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU11340 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU11340 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU11340 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU11340 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU11340 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU11340 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:fabF_context.gif]]

@@ Line 1: / Line 1: @@
+* '''Description:''' beta-ketoacyl-acyl carrier protein synthase II, involved in the control of membrane fluidity <br/><br/>
 {| align="right" border="1" cellpadding="2"
 |-