FbaA - Revision history

134.76.70.252 at 14:06, 17 April 2014

2014-04-17T14:06:24Z

134.76.70.252 at 09:42, 17 April 2014

2014-04-17T09:42:38Z

134.76.38.147 at 15:03, 2 April 2014

2014-04-02T15:03:35Z

Jstuelk at 13:00, 5 March 2014

2014-03-05T13:00:37Z

Jstuelk at 16:32, 28 February 2014

2014-02-28T16:32:53Z

134.76.70.252 at 11:53, 7 January 2014

2014-01-07T11:53:24Z

Jstuelk at 15:59, 13 July 2013

2013-07-13T15:59:41Z

134.76.70.252 at 14:49, 16 May 2013

2013-05-16T14:49:25Z

134.76.70.252 at 11:31, 14 May 2013

2013-05-14T11:31:17Z

134.76.70.252 at 14:05, 13 May 2013

2013-05-13T14:05:52Z

← Older revision		Revision as of 14:06, 17 April 2014
Line 1:		Line 1:
−	* '''Description:~~''' fructose 1,6-bisphosphate aldolase, glycolytic/ gluconeogenic enzyme<br/><br/>~~	+	{{#bank: FbaA}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''fbaA''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''fba, fba1, tsr ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| fructose-1,6-bisphosphate aldolase~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Function''' \|\| enzyme in glycolysis/ gluconeogenesis~~
−	\|-
−	\|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=BSU37120 fbaA]
−	\|-
−	\|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=fbaA fbaA]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 30,2 kDa, 5.03~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 855 bp, 285 amino acids~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[ywjH]]'', ''[[spo0F]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU37120 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU37120 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU37120 DNA_with_flanks]
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:fbaA_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=fbaA_3808512_3809369_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:fbaA_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU37120]]
−	\|-
−	\|}
−
−	~~__TOC__~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/><br/><br/>~~
−	~~<br/><br/>~~
−
−
−	~~= [[Categories]] containing this gene/protein =~~
−	~~{{SubtiWiki category\|[[carbon core metabolism]]}},~~
−	~~{{SubtiWiki category\|[[phosphoproteins]]}},~~
−	~~[[most abundant proteins]]~~
−
−	~~= This gene is a member of the following [[regulons]] =~~
−
−
−	~~=The gene=~~
−
−	~~=== Basic information ===~~
−
−	* '''Locus tag:''' BSU37120
−
−	~~===Phenotypes of a mutant ===~~
−	* essential {{PubMed\|12682299}}, non-essential according to {{PubMed\|23420519}}
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU37120&redirect=T BSU37120]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fbaA-ywjH.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10412]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' D-fructose 1,6-bisphosphate = glycerone phosphate + D-glyceraldehyde 3-phosphate (according to Swiss-Prot)
−
−	* '''Protein family:''' class II fructose-bisphosphate aldolase family (according to Swiss-Prot)
−	* '''Paralogous protein(s):''' [[FbaB]]
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−	** Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/15125960 PubMed]
−	** specific activity: 0.049 µmol min<sup>-1</sup> (mg protein)<sup>-1</sup> {{PubMed\|24571712}}
−
−	* '''[[Domains]]:'''
−	** 2 x Dihydroxyacetone phosphate binding domain (210–212), (231–234)
−
−	* '''Modification:''' phosphorylation on Thr-212 and Thr-234 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
−
−	* '''[[Cofactors]]:''' Zn2+ (Metalloenzyme)
−
−	* '''Effectors of protein activity:'''
−	** Inhibited by alpha-ketoglutarate, oxaloacetate and pyruvate [http://www.ncbi.nlm.nih.gov/pubmed/24624 PubMed] [http://www.ncbi.nlm.nih.gov/sites/entrez/15125960 PubMed]
−	** Activated by NH4+ [http://www.ncbi.nlm.nih.gov/sites/entrez/15125960 PubMed]
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU37120&redirect=T BSU37120]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=3Q94 3Q94] (from ''Bacillus anthracis'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P13243 P13243]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37120]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/4.1.2.13 4.1.2.13]
−
−	~~=== Additional information===~~
−	* Binds 2 zinc ions per subunit. One is catalytic and the other provides a structural contribution
−	* extensive information on the structure and enzymatic properties of FbaA can be found at [http://www.proteopedia.org/wiki/index.php/Fructose_Bisphosphate_Aldolase Proteopedia]
−
−	~~=Expression and regulation=~~
−
−	* '''Operon:'''
−	**''fbaA'' {{PubMed\|11489127}}
−	** ''[[fbaA]]-[[ywjH]]'' {{PubMed\|11489127}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fbaA_3808512_3809369_-1 fbaA] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:'''
−	** constitutively expressed {{PubMed\|11489127}}
−	** strongly repressed in response to glucose starvation in M9 medium {{PubMed\|23033921}}
−
−	* '''Regulatory mechanism:'''
−
−	* '''Additional information:'''
−	** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed\|20525796}}
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 15625 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 45663 {{PubMed\|24696501}}
−
−	~~=Biological materials =~~
−
−	* '''Mutant:'''
−	* GP591 (''fbaA''::''cat''), available in [[Jörg Stülke]]'s lab, {{PubMed\|23420519}}
−	* GP596 (''fbaA''::''erm''), available in [[Jörg Stülke]]'s lab, {{PubMed\|23420519}}
−
−	* '''Expression vector:'''
−	** for expression in ''B. subtilis'', in [[pBQ200]]: pGP1423, available in [[Jörg Stülke]]'s lab
−	** for expression/ purification from ''B. subtilis'' with N-terminal Strep-tag, for [[SPINE]], in [[pGP380]]: pGP88, available in [[Jörg Stülke]]'s lab
−	** for expression/ purification from ''E. coli'' with N-terminal His-tag, in [[pWH844]]: pGP395, available in [[Jörg Stülke]]'s lab
−
−	* '''lacZ fusion:''' pGP601 (in [[pAC6]])
−
−	* '''GFP fusion:'''
−
−	* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
−
−	* '''Antibody:'''
−
−	~~=Labs working on this gene/protein=~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>17218307, 15125960, 24624 16843441 11489127 20525796 23420519 23033921 24571712 15378759</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 130: / Line 130: @@
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 ** belongs to the 100 [[most abundant proteins]] {{PubMed|15378759}}
 =Biological materials =

@@ Line 58: / Line 58: @@
 === Database entries ===
 * '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/fbaA-ywjH.html]
@@ Line 96: / Line 97: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore/explore.do?structureId=3Q94 3Q94] (from ''Bacillus anthracis'')

@@ Line 42: / Line 42: @@
 = [[Categories]] containing this gene/protein =
 {{SubtiWiki category|[[carbon core metabolism]]}},
-{{SubtiWiki category|[[phosphoproteins]]}}
+{{SubtiWiki category|[[phosphoproteins]]}},
 = This gene is a member of the following [[regulons]] =
@@ Line 126: / Line 127: @@
 * '''Additional information:'''
 ** The mRNA has a long 5' leader region. This may indicate RNA-based regulation {{PubMed|20525796}}
 =Biological materials =
@@ Line 151: / Line 153: @@
 =References=
-<pubmed>17218307, 15125960, 24624 16843441 11489127 20525796 23420519 23033921 24571712</pubmed>
+<pubmed>17218307, 15125960, 24624 16843441 11489127 20525796 23420519 23033921 24571712 15378759</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 63: / Line 63: @@
 === Additional information===
 =The protein=
@@ Line 77: / Line 75: @@
 === Extended information on the protein ===
-* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/15125960 PubMed]
+* '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 ** 2 x Dihydroxyacetone phosphate binding domain (210–212), (231–234)
 * '''Modification:''' phosphorylation on Thr-212 and Thr-234 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
-* '''Cofactor(s):''' Zn2+ (Metalloenzyme)
+* '''[[Cofactors]]:''' Zn2+ (Metalloenzyme)
 * '''Effectors of protein activity:'''
@@ Line 151: / Line 151: @@
 =References=
-<pubmed>17218307, 15125960, 24624 16843441 11489127 20525796 23420519 23033921</pubmed>
+<pubmed>17218307, 15125960, 24624 16843441 11489127 20525796 23420519 23033921 24571712</pubmed>
 [[Category:Protein-coding genes]]

@@ 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=BSU37120 fbaA]
 |-
-|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/carbon_flow.html Central C-metabolism], [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=fbaA fbaA]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 30,2 kDa, 5.03

@@ Line 130: / Line 130: @@
 * '''Mutant:'''
-* GP591 (''fbaA''::''cat''), available in [[Jörg Stülke]]'s lab
+* GP591 (''fbaA''::''cat''), available in [[Jörg Stülke]]'s lab, {{PubMed|23420519}}
-* GP596 (''fbaA''::''erm''), available in [[Jörg Stülke]]'s lab
+* GP596 (''fbaA''::''erm''), available in [[Jörg Stülke]]'s lab, {{PubMed|23420519}}
 * '''Expression vector:'''

@@ 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=fbaA_3808512_3809369_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fbaA_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=fbaA_3808512_3809369_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:fbaA_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU37120]]
 |-
 |}

@@ Line 24: / Line 24: @@
 |style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywjH]]'', ''[[spo0F]]''
 |-
-|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU37120 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU37120 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU37120 Advanced_DNA]
+|style="background:#FAF8CC;" align="center"|'''Sequences'''||[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU37120 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU37120 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU37120 DNA_with_flanks]
 |-
 |colspan="2" | '''Genetic context''' <br/> [[Image:fbaA_context.gif]]