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2024-03-29T02:28:50Z
User contributions
MediaWiki 1.30.0
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgm&diff=104485
Pgm
2009-07-09T18:05:37Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgm''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent <br/>phosphoglycerate mutase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tpi]]'', ''[[eno]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15396&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgm_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33910<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot) <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed] <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mn2+<br />
<br />
* '''Effectors of protein activity:''' <br />
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
<br />
* '''Interactions:''' Pgm-[[PfkA]]<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.expasy.ch/cgi-bin/sprot-search-ac?P39773]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (7.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
<br />
''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' <br />
** pGP1101 (N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab <br />
** pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab <br />
** pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), available in [[Stülke]] lab <br />
** pGP1500 (expression in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgm&diff=104358
Pgm
2009-07-07T09:47:01Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgm''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent <br/>phosphoglycerate mutase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tpi]]'', ''[[eno]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15396&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgm_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33910<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot) <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed] <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mn2+<br />
<br />
* '''Effectors of protein activity:''' <br />
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
<br />
* '''Interactions:''' Pgm-[[PfkA]]<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.expasy.ch/cgi-bin/sprot-search-ac?P39773]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (7.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
<br />
''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP1101 (N-terminal His-tag, in [[pWH844]]), pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), pGP1500 (expression in ''B. subtilis'', in [[pBQ200]]), pGP1502 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pUT18]]), pGP1503 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pUT18C]]), pGP1504 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[p25-N]]), pGP1505 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pKT25]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Eno&diff=104357
Eno
2009-07-07T09:46:18Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' enolase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''eno''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || enolase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46,4 kDa, 4.49 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1290 bp, 430 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgm]]'', ''[[yvgK]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15395&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:eno_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33900<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10899]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = phosphoenolpyruvate + H<sub>2</sub>O (according to Swiss-Prot) 2-phospho-D-glycerate = phosphoenolpyruvate + H(2)O<br />
<br />
* '''Protein family:''' enolase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed] <br />
<br />
* '''Domains:''' <br />
** substrate binding domain (366–369)<br />
<br />
* '''Modification:''' phosphorylation on Thr-141 AND Ser-259 AND Tyr-281 AND Ser-325 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mg2+<br />
<br />
* '''Effectors of protein activity:'''<br />
** Inhibited by EDTA [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
* '''Interactions:''' [[Eno]]-[[PfkA]], [[Eno]]-[[Rny]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19193632 PubMed]<br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed] and membrane associated [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3ES8 3ES8] (from ''Oceanobacillus iheyensis'', complex with Mg(2+) and malate)<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P37869 P37869]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33900]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.11 4.2.1.11]<br />
<br />
=== Additional information===<br />
There are indications that this enzyme is an octamer [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab <br />
<br />
* '''Expression vector:''' pGP563 (N-terminal His-tag, in [[pWH844]]), pGP93 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), pGP1500 (expression in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' pHT315-yfp-eno, available in [[Mijakovic]] lab<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:''' available in [[Stülke]] lab<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany<br />
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 17726680, 17218307, 12850135 , 19193632 , 11489127, 8021172, 17505547, 25885 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Tpi&diff=104356
Tpi
2009-07-07T09:45:30Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' triose phosphate isomerase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''tpi''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tpiA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || triosephosphate isomerase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26,9 kDa, 4.79<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgk]]'', ''[[pgm]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15397&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:tpi_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33920<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10897]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' D-glyceraldehyde 3-phosphate = dihydroxyacetone phosphate (according to Swiss-Prot)<br />
<br />
* '''Protein family:''' triosephosphate isomerase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-213 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' inhibited by 2-phosphoglycolate (in ''B. stearothermophilus'') [http://www.ncbi.nlm.nih.gov/sites/entrez/8580851 PubMed]<br />
<br />
* '''Interactions:''' <br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1BTM 1BTM] (complex with 2-phosphoglycolic acid, Geobacillus stearothermophilus), complex with 2-phosphpoglycolic acid, ''Geobacillus stearothermophilus'' [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=48255 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P27876 P27876]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33920]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.3.1.1 5.3.1.1] 5.3.1.1]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (2.8 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP700 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP394 (N-terminal His-tag, in [[pWH844]]), pGP89 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis), pGP1511 (expression in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:''' <br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12850135 11489127 17505547 8021172 17218307 8580851 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgk&diff=104355
Pgk
2009-07-07T09:44:46Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate kinase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgk''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphoglycerate kinase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 42,0 kDa, 4.77<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1182 bp, 394 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gapA]]'', ''[[tpi]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15398&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgk_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11062]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' ATP + 3-phospho-D-glycerate = ADP + 1,3-bisphosphoglycerate (according to Swiss-Prot)<br />
<br />
* '''Protein family:''' phosphoglycerate kinase family (according to Swiss-Prot)<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Two Substrate Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Domains:''' <br />
** nucleotide binding domain (ATP) (350–353) <br />
** 2x substrate binding domain (21–23), (59–62) <br />
<br />
* '''Modification:''' phosphorylation on Ser-183 AND Thr-299 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mg2+ or Mn2+ [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Effectors of protein activity:'''<br />
** Inhibited by Co2+, NDP and NMP [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Interactions:''' <br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PHP 1PHP] (Geobacillus stearothermophilus), ''Geobacillus stearothermophilus'' [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=57113 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P40924 P40924]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33930]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.2.3 2.7.2.3]<br />
<br />
=== Additional information===<br />
<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (2.8 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': induced by sugar [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP699 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP1102 (N-terminal His-tag, in [[pWH844]]), pGP95 (N-terminal Strep-tag, in [[pGP172]]), pGP91 (N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]), pGP1513 (expression in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:''' pGP514 (in [[pAC6]]), a series of promoter deletion variants is also available in [[pAC6]], available in [[Stülke]] lab<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 16479537, 12850135 , 17726680, 11489127 ,17505547 , 17218307 7154941 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Tpi&diff=104354
Tpi
2009-07-07T09:42:39Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' triose phosphate isomerase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''tpi''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tpiA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || triosephosphate isomerase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26,9 kDa, 4.79<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgk]]'', ''[[pgm]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15397&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:tpi_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33920<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10897]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' D-glyceraldehyde 3-phosphate = dihydroxyacetone phosphate (according to Swiss-Prot)<br />
<br />
* '''Protein family:''' triosephosphate isomerase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-213 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' inhibited by 2-phosphoglycolate (in ''B. stearothermophilus'') [http://www.ncbi.nlm.nih.gov/sites/entrez/8580851 PubMed]<br />
<br />
* '''Interactions:''' <br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1BTM 1BTM] (complex with 2-phosphoglycolic acid, Geobacillus stearothermophilus), complex with 2-phosphpoglycolic acid, ''Geobacillus stearothermophilus'' [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=48255 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P27876 P27876]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33920]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.3.1.1 5.3.1.1] 5.3.1.1]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (2.8 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP700 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP394 (N-terminal His-tag, in [[pWH844]]), pGP89 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis), pGP1511 (in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:''' <br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12850135 11489127 17505547 8021172 17218307 8580851 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgm&diff=104353
Pgm
2009-07-07T09:39:58Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgm''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent <br/>phosphoglycerate mutase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tpi]]'', ''[[eno]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15396&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgm_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33910<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot) <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed] <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mn2+<br />
<br />
* '''Effectors of protein activity:''' <br />
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
<br />
* '''Interactions:''' Pgm-[[PfkA]]<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.expasy.ch/cgi-bin/sprot-search-ac?P39773]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (7.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
<br />
''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP1101 (N-terminal His-tag, in [[pWH844]]), pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), pGP1500 (in [[pBQ200]]), pGP1502 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pUT18]]), pGP1503 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pUT18C]]), pGP1504 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[p25-N]]), pGP1505 (Pgm-S62A, for [[BACTH]], expression in B. subtilis, in [[pKT25]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Eno&diff=104352
Eno
2009-07-07T09:33:55Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' enolase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''eno''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || enolase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46,4 kDa, 4.49 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1290 bp, 430 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgm]]'', ''[[yvgK]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15395&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:eno_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33900<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10899]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = phosphoenolpyruvate + H<sub>2</sub>O (according to Swiss-Prot) 2-phospho-D-glycerate = phosphoenolpyruvate + H(2)O<br />
<br />
* '''Protein family:''' enolase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed] <br />
<br />
* '''Domains:''' <br />
** substrate binding domain (366–369)<br />
<br />
* '''Modification:''' phosphorylation on Thr-141 AND Ser-259 AND Tyr-281 AND Ser-325 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mg2+<br />
<br />
* '''Effectors of protein activity:'''<br />
** Inhibited by EDTA [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
* '''Interactions:''' [[Eno]]-[[PfkA]], [[Eno]]-[[Rny]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19193632 PubMed]<br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed] and membrane associated [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3ES8 3ES8] (from ''Oceanobacillus iheyensis'', complex with Mg(2+) and malate)<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P37869 P37869]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33900]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.11 4.2.1.11]<br />
<br />
=== Additional information===<br />
There are indications that this enzyme is an octamer [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab <br />
<br />
* '''Expression vector:''' pGP563 (N-terminal His-tag, in [[pWH844]]), pGP93 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), pGP1500 (in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' pHT315-yfp-eno, available in [[Mijakovic]] lab<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:''' available in [[Stülke]] lab<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany<br />
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 17726680, 17218307, 12850135 , 19193632 , 11489127, 8021172, 17505547, 25885 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgm&diff=104351
Pgm
2009-07-07T09:32:38Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgm''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent <br/>phosphoglycerate mutase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tpi]]'', ''[[eno]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15396&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgm_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33910<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot) <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed] <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mn2+<br />
<br />
* '''Effectors of protein activity:''' <br />
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
<br />
* '''Interactions:''' Pgm-[[PfkA]]<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.expasy.ch/cgi-bin/sprot-search-ac?P39773]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (7.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
<br />
''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP1101 (N-terminal His-tag, in [[pWH844]]), pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), pGP1500 (in [[pBQ200]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Tpi&diff=104350
Tpi
2009-07-07T09:13:14Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' triose phosphate isomerase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''tpi''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''tpiA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || triosephosphate isomerase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26,9 kDa, 4.79<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 759 bp, 253 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgk]]'', ''[[pgm]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15397&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:tpi_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33920<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10897]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' D-glyceraldehyde 3-phosphate = dihydroxyacetone phosphate (according to Swiss-Prot)<br />
<br />
* '''Protein family:''' triosephosphate isomerase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-213 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed]<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:''' inhibited by 2-phosphoglycolate (in ''B. stearothermophilus'') [http://www.ncbi.nlm.nih.gov/sites/entrez/8580851 PubMed]<br />
<br />
* '''Interactions:''' <br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1BTM 1BTM] (complex with 2-phosphoglycolic acid, Geobacillus stearothermophilus), complex with 2-phosphpoglycolic acid, ''Geobacillus stearothermophilus'' [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=48255 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P27876 P27876]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33920]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/5.3.1.1 5.3.1.1] 5.3.1.1]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (2.8 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP700 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP394 (N-terminal His-tag, in [[pWH844]]), pGP89 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:''' <br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12850135 11489127 17505547 8021172 17218307 8580851 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgk&diff=104349
Pgk
2009-07-07T09:11:55Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate kinase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgk''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || phosphoglycerate kinase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 42,0 kDa, 4.77<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1182 bp, 394 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[gapA]]'', ''[[tpi]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15398&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgk_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33930<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11062]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' ATP + 3-phospho-D-glycerate = ADP + 1,3-bisphosphoglycerate (according to Swiss-Prot)<br />
<br />
* '''Protein family:''' phosphoglycerate kinase family (according to Swiss-Prot)<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Two Substrate Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Domains:''' <br />
** nucleotide binding domain (ATP) (350–353) <br />
** 2x substrate binding domain (21–23), (59–62) <br />
<br />
* '''Modification:''' phosphorylation on Ser-183 AND Thr-299 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mg2+ or Mn2+ [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Effectors of protein activity:'''<br />
** Inhibited by Co2+, NDP and NMP [http://www.ncbi.nlm.nih.gov/pubmed/7154941 PubMed]<br />
<br />
* '''Interactions:''' <br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1PHP 1PHP] (Geobacillus stearothermophilus), ''Geobacillus stearothermophilus'' [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=57113 NCBI]<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P40924 P40924]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33930]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/2.7.2.3 2.7.2.3]<br />
<br />
=== Additional information===<br />
<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (2.8 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': induced by sugar [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP699 (cat), available in [[Stülke]] lab<br />
<br />
* '''Expression vector:''' pGP1102 (N-terminal His-tag, in [[pWH844]]), pGP95 (N-terminal Strep-tag, in [[pGP172]]), pGP91 (N-terminal Strep-tag, for [[SPINE]], expression in ''B. subtilis'', in [[pGP380]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:''' pGP514 (in [[pAC6]]), a series of promoter deletion variants is also available in [[pAC6]], available in [[Stülke]] lab<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 16479537, 12850135 , 17726680, 11489127 ,17505547 , 17218307 7154941 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Eno&diff=104348
Eno
2009-07-07T09:10:32Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' enolase, glycolytic/ gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''eno''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || enolase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46,4 kDa, 4.49 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1290 bp, 430 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[pgm]]'', ''[[yvgK]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15395&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:eno_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33900<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10899]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = phosphoenolpyruvate + H<sub>2</sub>O (according to Swiss-Prot) 2-phospho-D-glycerate = phosphoenolpyruvate + H(2)O<br />
<br />
* '''Protein family:''' enolase family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed] <br />
<br />
* '''Domains:''' <br />
** substrate binding domain (366–369)<br />
<br />
* '''Modification:''' phosphorylation on Thr-141 AND Ser-259 AND Tyr-281 AND Ser-325 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/16493705 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mg2+<br />
<br />
* '''Effectors of protein activity:'''<br />
** Inhibited by EDTA [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
* '''Interactions:''' [[Eno]]-[[PfkA]], [[Eno]]-[[Rny]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19193632 PubMed]<br />
<br />
* '''Localization:''' cytoplasm (according to Swiss-Prot), cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed] and membrane associated [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=3ES8 3ES8] (from ''Oceanobacillus iheyensis'', complex with Mg(2+) and malate)<br />
<br />
* '''Swiss prot entry:''' [http://www.uniprot.org/uniprot/P37869 P37869]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33900]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.11 4.2.1.11]<br />
<br />
=== Additional information===<br />
There are indications that this enzyme is an octamer [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
<br />
* '''Sigma factor:''' [[SigA]]<br />
<br />
* '''Regulation:''' expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
**''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
**''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab <br />
<br />
* '''Expression vector:''' pGP563 (N-terminal His-tag, in [[pWH844]]), pGP93 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), available in [[Stülke]] lab<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:''' pHT315-yfp-eno, available in [[Mijakovic]] lab<br />
<br />
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
<br />
* '''Antibody:''' available in [[Stülke]] lab<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stülke|Jörg Stülke]], University of Göttingen, Germany<br />
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed> 17726680, 17218307, 12850135 , 19193632 , 11489127, 8021172, 17505547, 25885 </pubmed></div>
MArnold
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Pgm&diff=104347
Pgm
2009-07-07T09:09:02Z
<p>MArnold: /* Biological materials */</p>
<hr />
<div>* '''Description:''' phosphoglycerate mutase, glycolytic / gluconeogenic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''pgm''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''gpmI''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || yes<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || 2,3-bisphosphoglycerate-independent <br/>phosphoglycerate mutase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis / gluconeogenesis<br />
|-<br />
|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]'''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 56,1 kDa, 5.21<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1533 bp, 511 amino acids<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[tpi]]'', ''[[eno]]''<br />
|-<br />
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15396&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:pgm_context.gif]]<br />
<div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div><br />
|-<br />
|}<br />
<br />
__TOC__<br />
<br />
<br/><br/><br/><br/><br/><br/><br />
<br />
<br />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU33910<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
* Essential [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10898]<br />
<br />
=== Additional information===<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' 2-phospho-D-glycerate = 3-phospho-D-glycerate (according to Swiss-Prot) <br />
<br />
* '''Protein family:''' BPG-independent phosphoglycerate mutase family (according to Swiss-Prot) <br />
<br />
* '''Paralogous protein(s):'''<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' Reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/pubmed/33963 PubMed] <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:''' phosphorylation on Ser-62 [http://www.ncbi.nlm.nih.gov/sites/entrez/17218307 PubMed], [http://www.ncbi.nlm.nih.gov/pubmed/17726680 PubMed]<br />
<br />
* '''Cofactor(s):''' Mn2+<br />
<br />
* '''Effectors of protein activity:''' <br />
** Inhibited by diverse divalent heavy-metal ions, EDTA and 2,3-butanedione [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
** 2,3-Diphosphoglycerate has NO role on this enzyme regulation [http://www.ncbi.nlm.nih.gov/sites/entrez/33963 PubMed]<br />
<br />
* '''Interactions:''' Pgm-[[PfkA]]<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.rcsb.org/pdb/explore.do?structureId=1EJJ 1EJJ] (Geobacillus stearothermophilus, complex with 3-phosphoglycerate), [http://www.rcsb.org/pdb/explore.do?structureId=1EQJ 1EQJ] (Geobacillus stearothermophilus, complex with 2-phosphoglycerate), ''Geobacillus stearothermophilus'', complex with 2-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=16359 NCBI], ''Geobacillus stearothermophilus'', complex with 3-phosphoglycerate [http://www.ncbi.nlm.nih.gov/Structure/mmdb/mmdbsrv.cgi?Dopt=s&uid=15578 NCBI]<br />
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* '''Swiss prot entry:''' [http://www.expasy.ch/cgi-bin/sprot-search-ac?P39773]<br />
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* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33910]<br />
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* '''E.C. number:''' [http://www.expasy.org/enzyme/5.4.2.1 5.4.2.1]]<br />
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=== Additional information===<br />
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=Expression and regulation=<br />
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* '''Operon:''' <br />
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]''<br />
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* '''Sigma factor:''' [[SigA]]<br />
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* '''Regulation:''' expression activated by glucose (7.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] <br />
''[[cggR]]'': neg. regulated by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed], induced by sugar<br />
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''[[pgk]]'': constitutive [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
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* '''Regulatory mechanism:''' transcription repression by [[CggR]] [http://www.ncbi.nlm.nih.gov/entrez/query.fcgi?cmd=Retrieve&db=PubMed&dopt=Abstract&list_uids=+11489127 PubMed]<br />
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* '''Additional information:'''<br />
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=Biological materials =<br />
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* '''Mutant:''' GP698 (cat), available in [[Stülke]] lab<br />
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* '''Expression vector:''' pGP1101 (N-terminal His-tag, in [[pWH844]]), pGP396 (Pgm-S62A, N-terminal His-tag, in [[pWH844]]), pGP92 (N-terminal Strep-tag, for [[SPINE]], expression in B. subtilis, in [[pGP380]]), available in [[Stülke]] lab<br />
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* '''lacZ fusion:'''<br />
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* '''GFP fusion:'''<br />
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* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab<br />
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* '''Antibody:'''<br />
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=Labs working on this gene/protein=<br />
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[[Stülke|Jörg Stülke]], University of Göttingen, Germany [http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]<br />
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[[Jedrzejas|Mark J. Jedrzejas]], Research Center Oakland, CA, USA [http://www.chori.org/Principal_Investigators/Jedrzejas_Mark_J/jedrzejas_research.html Homepage]<br />
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=Your additional remarks=<br />
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=References=<br />
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<pubmed>11514674,17085493,10764795,8215434,10747010,11712498,9830105,10388626,8636019,11827481,16479537, 12850135,17726680,17505547, 8021172,11489127, 10388626,10747010, 10764795, 11712498, 12729763, 17085493, 17218307 33963 </pubmed></div>
MArnold