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SubtiWiki - User contributions [en]
2024-03-19T01:43:23Z
User contributions
MediaWiki 1.30.0
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MaeA&diff=123316
MaeA
2010-08-16T16:08:07Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''maeA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywkA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization <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''' || 63 kDa, 4.883 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1746 bp, 582 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywkB]]'', ''[[tdk]]''<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:CAB15722&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywkA_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:''' BSU37050<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywkAB.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11312]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[MalS]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P45868 P45868]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37050]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[maeA]]-[[ywkB]]'' {{PubMed|12949160}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12949160}}<br />
<br />
* '''Regulation:''' <br />
** expressed in the presence of malate ([[MalR]]) {{PubMed|12949160}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[MalR]]: transcription activation {{PubMed|12949160}}<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1141 (aphA3) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stephane Aymerich |Stephane Aymerich]], Microbiology and Molecular Genetics, INRA Paris-Grignon, France<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12949160,,16788182 , </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MleA&diff=123315
MleA
2010-08-16T16:07:31Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''mleA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqkJ ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization<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''' || 45 kDa, 4.895 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1317 bp, 439 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqkK]]'', ''[[mleN]]''<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:CAB14287&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:mleA_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:''' BSU23550<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11764]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[YtsJ]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P54572 P54572]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU23550]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1136 (cat) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed> 16788182 </pubmed><br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=YtsJ&diff=123314
YtsJ
2010-08-16T16:07:16Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''ytsJ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization <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''' || 43 kDa, 5.046 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1230 bp, 410 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[accD]]'', ''[[dnaE]]''<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:CAB14882&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ytsJ_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:''' BSU29220<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
Poor growth with malate as single carbon source [http://www.ncbi.nlm.nih.gov/sites/entrez/16788182 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ytsJ.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG13922]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate <--> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[MleA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:''' Cytoplasm (Homogeneous) [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed] cytoplasm protein [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.pdb.org/pdb/explore/explore.do?structureId=1WW8 1WW8] (from ''Pyrococcus horikoshii'', 46% identity, 63% similarity) <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O34962 O34962]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29220]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[ytsJ]]'' {{PubMed|9387221}}<br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP612 (spc), GP1143 (spc) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''FLAG-tag construct:''' GP1032 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab<br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stephane Aymerich |Stephane Aymerich]], Microbiology and Molecular Genetics, INRA Paris-Grignon, France<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>16479537, 16788182 ,12949160 9387221 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MalS&diff=123313
MalS
2010-08-16T16:06:56Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malate dehydrogenase (decarboxylating) <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''malS''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || malate dehydrogenase (decarboxylating)<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization <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''' || 61 kDa, 4.895 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1698 bp, 566 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ytzB]]'', ''[[ytnP]]''<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:CAB14966&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:malS_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:''' BSU29880<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/malS.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12614]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[MaeA]] [[YtsJ]] [[MleA]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/O34389 O34389]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU29880]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' ''[[malS]]'' {{PubMed|9387221}} <br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1142 (spc) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed>9387221 16788182 </pubmed><br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MleA&diff=123312
MleA
2010-08-16T16:06:31Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme<br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''mleA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yqkJ ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization<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''' || 45 kDa, 4.895 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1317 bp, 439 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yqkK]]'', ''[[mleN]]''<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:CAB14287&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:mleA_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:''' BSU23550<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11764]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[YtsJ]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P54572 P54572]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU23550]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''Sigma factor:''' <br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1136 (cat) available in [[Stülke]] lab<br />
<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<pubmed> 16788182 </pubmed><br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MaeA&diff=123311
MaeA
2010-08-16T16:05:31Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''maeA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywkA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization <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''' || 63 kDa, 4.883 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1746 bp, 582 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywkB]]'', ''[[tdk]]''<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:CAB15722&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywkA_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:''' BSU37050<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywkAB.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11312]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[MalS]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P45868 P45868]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37050]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[maeA]]-[[ywkB]]'' {{PubMed|12949160}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12949160}}<br />
<br />
* '''Regulation:''' <br />
** expressed in the presence of malate ([[MalR]]) {{PubMed|12949160}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[MalR]]: transcription activation {{PubMed|12949160}}<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1141 (aph3) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stephane Aymerich |Stephane Aymerich]], Microbiology and Molecular Genetics, INRA Paris-Grignon, France<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12949160,,16788182 , </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=MaeA&diff=123310
MaeA
2010-08-16T16:04:55Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' malic enzyme <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''maeA''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ywkA ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || NAD-dependent malate dehydrogenase <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || malate utilization <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''' || 63 kDa, 4.883 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1746 bp, 582 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[ywkB]]'', ''[[tdk]]''<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:CAB15722&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:ywkA_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:''' BSU37050<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/ywkAB.html]<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG11312]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' (S)-malate + NAD<sup>+</sup> = pyruvate + CO<sub>2</sub> + NADH (according to Swiss-Prot) malate --> pyruvate<br />
<br />
* '''Protein family:''' malic enzymes family (according to Swiss-Prot)<br />
<br />
* '''Paralogous protein(s):''' [[MalS]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P45868 P45868]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU37050]<br />
<br />
* '''E.C. number:''' [http://www.expasy.org/enzyme/1.1.1.38 1.1.1.38]<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
* '''Operon:''' ''[[maeA]]-[[ywkB]]'' {{PubMed|12949160}}<br />
<br />
* '''[[Sigma factor]]:''' [[SigA]] {{PubMed|12949160}}<br />
<br />
* '''Regulation:''' <br />
** expressed in the presence of malate ([[MalR]]) {{PubMed|12949160}}<br />
<br />
* '''Regulatory mechanism:''' <br />
** [[MalR]]: transcription activation {{PubMed|12949160}}<br />
<br />
* '''Additional information:'''<br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1136 (cat) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
[[Stephane Aymerich |Stephane Aymerich]], Microbiology and Molecular Genetics, INRA Paris-Grignon, France<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
<br />
<pubmed>12949160,,16788182 , </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
BFreytag
http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Mfd&diff=115113
Mfd
2009-09-04T11:35:03Z
<p>BFreytag: /* Biological materials */</p>
<hr />
<div>* '''Description:''' transcription-repair coupling factor <br/><br/><br />
<br />
{| align="right" border="1" cellpadding="2" <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Gene name'''<br />
|''mfd''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Essential''' || no <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Product''' || transcription-repair coupling factor<br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Function''' || promotes strand-specific DNA repair by displacing <br />
RNA polymerase stalled at a nucleotide lesion and directing <br />
<br />
the (A)BC excinuclease to the RNA damage site<br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 133 kDa, 5.367 <br />
|-<br />
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 3531 bp, 1177 aa <br />
|-<br />
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yabK]]'', ''[[spoVT]]''<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:CAB11831&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''<br />
|-<br />
|colspan="2" | '''Genetic context''' <br/> [[Image:mfd_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 />
=The gene=<br />
<br />
=== Basic information ===<br />
<br />
* '''Locus tag:''' BSU00550<br />
<br />
===Phenotypes of a mutant ===<br />
<br />
In an ''mfd'' knock-out, the cell's ability to accumulate adaptive mutations in stationary phase is depressed. [http://www.pubmed.com/16950921 PubMed]<br />
<br />
=== Database entries ===<br />
<br />
* '''DBTBS entry:''' no entry<br />
<br />
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10118]<br />
<br />
=== Additional information===<br />
<br />
<br />
=The protein=<br />
<br />
=== Basic information/ Evolution ===<br />
<br />
* '''Catalyzed reaction/ biological activity:''' <br />
<br />
* '''Protein family:'''<br />
<br />
* '''Paralogous protein(s):''' [[RecG]]<br />
<br />
=== Extended information on the protein ===<br />
<br />
* '''Kinetic information:''' <br />
<br />
* '''Domains:''' <br />
<br />
* '''Modification:'''<br />
<br />
* '''Cofactor(s):'''<br />
<br />
* '''Effectors of protein activity:'''<br />
<br />
* '''Interactions:'''<br />
<br />
* '''Localization:'''<br />
<br />
=== Database entries ===<br />
<br />
* '''Structure:''' [http://www.proteopedia.org/wiki/index.php/2eyq 2EYQ] (Mfd from ''E. coli'') {{PubMed|16469698}} <br />
<br />
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37474 P37474]<br />
<br />
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU00550]<br />
<br />
* '''E.C. number:'''<br />
<br />
=== Additional information===<br />
<br />
=Expression and regulation=<br />
<br />
* '''Operon:''' <br />
<br />
* '''[[Sigma factor]]:''' [[SigF]] {{PubMed|15699190}}<br />
<br />
* '''Regulation:''' <br />
<br />
* '''Regulatory mechanism:''' <br />
<br />
* '''Additional information:''' <br />
<br />
=Biological materials =<br />
<br />
* '''Mutant:''' GP1167 (ermC), GP1168 (aphA3, ermC, cat), GP1169 (spec, ermC) available in [[Stülke]] lab<br />
<br />
* '''Expression vector:'''<br />
<br />
* '''lacZ fusion:'''<br />
<br />
* '''GFP fusion:'''<br />
<br />
* '''two-hybrid system:''' <br />
<br />
* '''Antibody:'''<br />
<br />
=Labs working on this gene/protein=<br />
<br />
=Your additional remarks=<br />
<br />
=References=<br />
==Reviews==<br />
<pubmed>17239578 15063847 17917874 8811173 7968917 15720542 </pubmed><br />
<br />
==Original Articles==<br />
<pubmed>8594198,,104170,16950921,9535092, 16469698 </pubmed><br />
<br />
[[Category:Protein-coding genes]]</div>
BFreytag