Pgi - Revision history

Jstuelk at 17:22, 16 May 2014

2014-05-16T17:22:57Z

134.76.70.252 at 14:11, 17 April 2014

2014-04-17T14:11:40Z

134.76.70.252 at 09:45, 17 April 2014

2014-04-17T09:45:34Z

134.76.38.147 at 14:37, 2 April 2014

2014-04-02T14:37:23Z

Jstuelk at 16:33, 5 March 2014

2014-03-05T16:33:00Z

Jstuelk at 16:27, 28 February 2014

2014-02-28T16:27:43Z

134.76.70.252 at 11:33, 7 January 2014

2014-01-07T11:33:21Z

Jstuelk: /* References */

2013-07-13T16:01:21Z

‎References

Jstuelk at 16:01, 13 July 2013

2013-07-13T16:01:07Z

134.76.70.252 at 14:25, 16 May 2013

2013-05-16T14:25:59Z

← Older revision		Revision as of 17:22, 16 May 2014
Line 1:		Line 1:
−	* '''Description:~~''' glucose 6-phosphate isomerase, glycolytic / gluconeogenic enzyme<br/><br/>~~	+	{{#bank: Pgi}}

−	~~{\| align="right" border="1" cellpadding="2"~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Gene name'''~~
−	~~\|''pgi''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Synonyms''' \|\| ''yugL ''~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Essential''' \|\| no~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Product''' \|\| glucose-6-phosphate isomerase~~
−	\|-
−	~~\|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=BSU31350 pgi]
−	\|-
−	\|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=pgi pgi]'''
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''MW, pI''' \|\| 50.4 kDa, 4.85~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\| '''Gene length, protein length''' \|\| 1353 bp, 451 amino acids~~
−	\|-
−	~~\|style="background:#ABCDEF;" align="center"\|'''Immediate neighbours''' \|\| ''[[yugM]]'', ''[[yugK]]''~~
−	\|-
−	\|style="background:#FAF8CC;" align="center"\|'''Sequences'''\|\|[http://bsubcyc.org/BSUB/sequence-aa?type=GENE&object=BSU31350 Protein] [http://bsubcyc.org/BSUB/sequence?type=GENE&object=BSU31350 DNA] [http://bsubcyc.org/BSUB/seq-selector?chromosome=CHROM-1&object=BSU31350 DNA_with_flanks]
−	\|-
−	\|-
−	\|-
−	~~\|colspan="2" \| '''Genetic context''' <br/> [[Image:pgi_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=pgi_3220731_3222083_-1 Expression at a glance]'''   {{PubMed\|22383849}}<br/>[[Image:pgi_expression.png\|500px\|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31350]]
−	\|-
−	\|}
−
−	~~__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:''' BSU31350
−
−	~~===Phenotypes of a mutant ===~~
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31350&redirect=T BSU31350]
−
−	* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/pgi-yugMN.html]
−
−	* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12366]
−
−	~~=== Additional information===~~
−
−	~~=The protein=~~
−
−	~~=== Basic information/ Evolution ===~~
−
−	* '''Catalyzed reaction/ biological activity:''' D-glucose 6-phosphate = D-fructose 6-phosphate (according to Swiss-Prot) D-glucose 6-phosphate = D-fructose 6-phosphate
−
−	* '''Protein family:''' GPI family (according to Swiss-Prot) GPI family
−
−	* '''Paralogous protein(s):'''
−
−	~~=== Extended information on the protein ===~~
−
−	* '''Kinetic information:'''
−	** Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/7400125 PubMed]
−	** specific activity: 2.1 µmol min<sup>-1</sup> (mg protein)<sup>-1</sup> {{PubMed\|24571712}}
−
−	* '''[[Domains]]:'''
−
−	* '''Modification:''' phosphorylation on Thr-39 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
−
−	* '''[[Cofactors]]:'''
−
−	* '''Effectors of protein activity:''' competitively inhibited by 6-phosphogluconate (in ''B.caldotenax, B.stearothermophilus'') [http://www.ncbi.nlm.nih.gov/pubmed/7400125 PubMed]
−
−	* '''[[SubtInteract\|Interactions]]:'''
−
−	* '''[[Localization]]:'''
−	** cytoplasm (according to Swiss-Prot), cytoplasm
−
−	~~=== Database entries ===~~
−	* '''BsubCyc:''' [http://bsubcyc.org/BSUB/NEW-IMAGE?type=NIL&object=BSU31350&redirect=T BSU31350]
−
−	* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0Z 1B0Z] (''Geobacillus stearothermophilus''), [http://www.proteopedia.org/wiki/index.php/2pgi 2PGI] (''Geobacillus stearothermophilus'')
−
−	* '''UniProt:''' [http://www.uniprot.org/uniprot/P80860 P80860]
−
−	* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU31350]
−
−	* '''E.C. number:''' [http://www.expasy.org/enzyme/5.3.1.9 5.3.1.9]
−
−	~~=== Additional information===~~
−	* extensive information on the structure and enzymatic properties of Pgi can be found at [http://www.proteopedia.org/wiki/index.php/Phosphoglucose_isomerase Proteopedia]
−
−	~~=Expression and regulation=~~
−	* '''Operon:''' ''[[pgi]]-[[yugM]]-[[yugN]]'' {{PubMed\|11489127}}
−
−	* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgi_3220731_3222083_-1 pgi] {{PubMed\|22383849}}
−
−	* '''[[Sigma factor]]:'''
−
−	* '''Regulation:''' constitutively expressed {{PubMed\|11489127}}
−
−	* '''Additional information:'''
−	** belongs to the 100 [[most abundant proteins]] {{PubMed\|15378759}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium): 5183 {{PubMed\|24696501}}
−	** number of protein molecules per cell (complex medium with amino acids, without glucose): 17347 {{PubMed\|24696501}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, exponential phase): 7808 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, early stationary phase after glucose exhaustion): 5723 {{PubMed\|21395229}}
−	** number of protein molecules per cell (minimal medium with glucose and ammonium, late stationary phase after glucose exhaustion): 7262 {{PubMed\|21395229}}
−
−	~~=Biological materials =~~
−	* '''Mutant:''' GP508 (spc), available in [[Jörg Stülke]]'s lab, {{PubMed\|23420519}}
−
−	* '''Expression vector:'''
−	** pGP398 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab
−
−	* '''lacZ fusion:''' pGP510 (in [[pAC6]]), available in [[Jörg Stülke]]'s lab
−
−	* '''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=~~
−
−	~~[[Stülke\|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html homepage]~~
−
−	~~=Your additional remarks=~~
−
−	~~=References=~~
−	~~<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, 24571712 15378759</pubmed>~~
−
−	~~[[Category:Protein-coding genes]]~~

@@ Line 122: / Line 122: @@
 ** number of protein molecules per cell (minimal medium with glucose and ammonium): 5183 {{PubMed|24696501}}
 ** number of protein molecules per cell (complex medium with amino acids, without glucose): 17347 {{PubMed|24696501}}
 =Biological materials =
 * '''Mutant:''' GP508 (spc), available in [[Jörg Stülke]]'s lab, {{PubMed|23420519}}

@@ Line 120: / Line 120: @@
 * '''Additional information:'''
 ** 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/pgi-yugMN.html]
@@ Line 95: / Line 96: @@
 === Database entries ===
 * '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1B0Z 1B0Z] (''Geobacillus stearothermophilus''),  [http://www.proteopedia.org/wiki/index.php/2pgi 2PGI] (''Geobacillus stearothermophilus'')

@@ Line 43: / Line 43: @@
 = [[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 116: / Line 117: @@
 * '''Additional information:'''
 =Biological materials =
@@ Line 139: / Line 141: @@
 =References=
-<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, 24571712 </pubmed>
+<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, 24571712 15378759</pubmed>
 [[Category:Protein-coding genes]]

@@ Line 63: / Line 63: @@
 === Additional information===
 =The protein=
@@ Line 78: / Line 76: @@
 === Extended information on the protein ===
-* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/7400125 PubMed]
+* '''Kinetic information:'''
-* '''Domains:'''
+* '''[[Domains]]:'''
 * '''Modification:''' phosphorylation on Thr-39 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]
-* '''Cofactor(s):'''
+* '''[[Cofactors]]:'''
 * '''Effectors of protein activity:''' competitively inhibited by 6-phosphogluconate (in ''B.caldotenax, B.stearothermophilus'') [http://www.ncbi.nlm.nih.gov/pubmed/7400125 PubMed]
@@ Line 139: / Line 139: @@
 =References=
-<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, </pubmed>
+<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, 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=BSU31350 pgi]
 |-
-|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=pgi pgi]'''
 |-
 |style="background:#ABCDEF;" align="center"| '''MW, pI''' || 50.4 kDa, 4.85

@@ Line 119: / Line 119: @@
 =Biological materials =
-* '''Mutant:''' GP508 (spc), available in [[Stülke]] lab
+* '''Mutant:''' GP508 (spc), available in [[Jörg Stülke]]'s lab, {{PubMed|23420519}}
 * '''Expression vector:'''
-** pGP398 (N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab
+** pGP398 (N-terminal His-tag, in [[pWH844]]), available in [[Jörg Stülke]]'s lab
-* '''lacZ fusion:''' pGP510 (in [[pAC6]]), available in [[Stülke]] lab
+* '''lacZ fusion:''' pGP510 (in [[pAC6]]), available in [[Jörg Stülke]]'s lab
 * '''GFP fusion:'''
-* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab
+* '''two-hybrid system:''' B. pertussis adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Jörg Stülke]]'s lab
 * '''Antibody:'''
@@ Line 140: / Line 140: @@
 =References=
-[http://www.ncbi.nlm.nih.gov/pubmed/17218307,19052382,4214896,11489127,4275311,11491085,17218307 PubMed]
+[http://www.ncbi.nlm.nih.gov/pubmed/PubMed]
-<pubmed>17218307 19052382 4214896 11489127 4275311 11491085 17218307, </pubmed>
+<pubmed>17218307 19052382 4214896 23420519 11489127 4275311 11491085 17218307, </pubmed>
 [[Category:Protein-coding genes]]

@@ Line 31: / Line 31: @@
   <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=pgi_3220731_3222083_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pgi_expression.png|500px]]
+|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=pgi_3220731_3222083_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:pgi_expression.png|500px|link=http://subtiwiki.uni-goettingen.de/apps/expression/expression.php?search=BSU31350]]
 |-
 |}