Difference between revisions of "Sandbox"

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−
* '''Description:''' D-alanine transfer from Dcp to undecaprenol-phosphate <br/><br/>
+
* '''Description:''' enolase, glycolytic/ gluconeogenic enzyme, [[universally conserved protein]]<br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
 
|style="background:#ABCDEF;" align="center"|'''Gene name'''
−
|''dltB''
+
|''eno''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''ipa-4r ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
+
|style="background:#ABCDEF;" align="center"| '''Essential''' || no
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || D-alanine transfer from Dcp to undecaprenol-phosphate
+
|style="background:#ABCDEF;" align="center"| '''Product''' || enolase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || biosynthesis of teichoic acid
+
|style="background:#ABCDEF;" align="center"|'''Function''' || enzyme in glycolysis/ gluconeogenesis
−
acid (D-alanyl transfer from Dcp to undecaprenol-phosphate)
 
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46 kDa, 9.944 
+
|colspan="2" style="background:#FAF8CC;" align="center"| '''Interactions involving this protein in [http://cellpublisher.gobics.de/subtinteract/startpage/start/ ''Subt''Interact]''': [http://cellpublisher.gobics.de/subtinteract/interactionList/2/Eno Eno]
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1185 bp, 395 aa
+
|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]'''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[dltA]]'', ''[[dltC]]''
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 46,4 kDa, 4.49
 
|-
 
|-
−
|colspan="2" style="background:#FAF8CC;" align="center"|'''Get the DNA and protein [http://srs.ebi.ac.uk/srsbin/cgi-bin/wgetz?-e+&#91;EMBLCDS:CAB15877&#93;+-newId sequences] <br/> (Barbe ''et al.'', 2009)'''
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 1290 bp, 430 amino acids
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:dltB_context.gif]]
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[yvbK]]'', ''[[pgm]]''
 +
|-
 +
|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)'''
 +
|-
 +
|colspan="2" | '''Genetic context''' <br/> [[Image:eno_context.gif]]
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
 
  <div align="right"> <small>This image was kindly provided by [http://genolist.pasteur.fr/SubtiList/ SubtiList]</small></div>
−
|-
+
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=eno_3476555_3477847_-1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:eno_expression.png|500px]]
−
|colspan="2" |'''[http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dltB_3953783_3954970_1 Expression at a glance]'''&#160;&#160;&#160;{{PubMed|22383849}}<br/>[[Image:dltB_expression.png|500px]]
 
 
|-
 
|-
 
|}
 
|}
 +
 +
<br/><br/><br/><br/>
  
 
__TOC__
 
__TOC__
Line 38: Line 42:
  
  
−
<br/><br/>
+
 
 +
 
 +
<br/><br/><br/><br/>
 +
 
  
 
= [[Categories]] containing this gene/protein =
 
= [[Categories]] containing this gene/protein =
−
{{SubtiWiki category|[[cell wall synthesis]]}},
+
{{SubtiWiki category|[[carbon core metabolism]]}},
−
{{SubtiWiki category|[[transporters/ other]]}},
+
{{SubtiWiki category|[[membrane proteins]]}},
−
{{SubtiWiki category|[[biosynthesis of cell wall components]]}},
+
{{SubtiWiki category|[[phosphoproteins]]}},
−
{{SubtiWiki category|[[cell envelope stress proteins (controlled by SigM, V, W, X, Y)]]}},
+
{{SubtiWiki category|[[universally conserved proteins]]}}
−
{{SubtiWiki category|[[membrane proteins]]}}
 
  
 
= This gene is a member of the following [[regulons]] =
 
= This gene is a member of the following [[regulons]] =
−
{{SubtiWiki regulon|[[SigD regulon]]}},
+
{{SubtiWiki regulon|[[CggR regulon]]}}
−
{{SubtiWiki regulon|[[SigM regulon]]}},
 
−
{{SubtiWiki regulon|[[SigX regulon]]}},
 
−
{{SubtiWiki regulon|[[Spo0A regulon]]}},
 
−
{{SubtiWiki regulon|[[stringent response]]}},
 
−
{{SubtiWiki regulon|[[YvrHb regulon]]}}
 
  
 
=The gene=
 
=The gene=
  
 
=== Basic information ===
 
=== Basic information ===
−
 
+
* '''Locus tag:''' BSU33900
−
* '''Locus tag:''' BSU38510
 
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
* no growth on LB, requires glucose and malate
 +
* essential according to Kobayashi et al. on LB  [http://www.ncbi.nlm.nih.gov/pubmed/12682299 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/dltABCDE.html]
+
* '''DBTBS entry:''' [http://dbtbs.hgc.jp/COG/prom/cggR-gapA-pgk-tpiA-pgm-eno.html]
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10550]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG10899]
  
 
=== Additional information===
 
=== Additional information===
−
 
−
 
−
 
  
 
=The protein=
 
=The protein=
Line 78: Line 77:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''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
  
−
* '''Protein family:''' membrane-bound acyltransferase family (according to Swiss-Prot)
+
* '''Protein family:''' enolase family (according to Swiss-Prot)
  
 
* '''Paralogous protein(s):'''
 
* '''Paralogous protein(s):'''
Line 86: Line 85:
 
=== Extended information on the protein ===
 
=== Extended information on the protein ===
  
−
* '''Kinetic information:'''
+
* '''Kinetic information:''' reversible Michaelis-Menten [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]
  
 
* '''Domains:'''  
 
* '''Domains:'''  
 +
** substrate binding domain (366–369)
  
−
* '''Modification:'''
+
* '''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]
  
−
* '''Cofactor(s):'''
+
* '''Cofactor(s):''' Mg2+
  
 
* '''Effectors of protein activity:'''
 
* '''Effectors of protein activity:'''
 +
** Inhibited by EDTA [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]
  
 
* '''[[SubtInteract|Interactions]]:'''
 
* '''[[SubtInteract|Interactions]]:'''
 +
** forms octamers {{PubMed|22198292}}
 +
** part of the [[RNA degradosome]]  {{PubMed|19193632}}
 +
** [[Eno]]-[[PfkA]] {{PubMed|19193632}}, K(D) of the interaction: 40 nM {{PubMed|22198292}}
 +
** [[Eno]]-[[Rny]] {{PubMed|19193632,21803996}}, K(D) of the interaction: 100 nM {{PubMed|22198292}}
 +
** [[Eno]]-[[CshA]] {{PubMed|20572937}}
  
−
* '''[[Localization]]:'''  
+
* '''[[Localization]]:'''
−
** membrane associated [http://www.ncbi.nlm.nih.gov/pubmed/18763711 PubMed]
+
** cytoplasm [http://www.ncbi.nlm.nih.gov/sites/entrez/16479537 PubMed]
 +
** membrane associated [http://www.ncbi.nlm.nih.gov/sites/entrez/18763711 PubMed]
 +
** exported, this requires a long, unbent α-helix (from A108 to L126)  {{PubMed|15003462,21856851}}
  
 
=== Database entries ===
 
=== Database entries ===
  
−
* '''Structure:'''
+
* '''Structure:'''  
 +
** [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=4A3R 4A3R] {{PubMed|22198292}}
 +
** [http://www.rcsb.org/pdb/cgi/explore.cgi?pdbId=1W6T 1W6T] (from ''Streptococcus pneumoniae'') {{PubMed|15476816}}
  
−
* '''UniProt:''' [http://www.uniprot.org/uniprot/P39580 P39580]
+
* '''UniProt:''' [http://www.uniprot.org/uniprot/P37869 P37869]
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU38510]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu:BSU33900]
  
−
* '''E.C. number:'''
+
* '''E.C. number:''' [http://www.expasy.org/enzyme/4.2.1.11 4.2.1.11]
  
 
=== Additional information===
 
=== Additional information===
 +
* Enolase is a [[moonlighting proteins|moonlighting protein]]. [http://www.ncbi.nlm.nih.gov/sites/entrez/19193632 PubMed]
 +
* There are indications that this enzyme is an octamer [http://www.ncbi.nlm.nih.gov/sites/entrez/25885 PubMed]
 +
* [[universally conserved protein]]
 +
* extensive information on the structure and enzymatic properties of Eno can be found at [http://www.proteopedia.org/wiki/index.php/Enolase Proteopedia]
  
 
=Expression and regulation=
 
=Expression and regulation=
−
* '''Operon:''' ''[[dltA]]-[[dltB]]-[[dltC]]-[[dltD]]-[[dltE]]'' {{PubMed|7797557}}
 
  
−
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=dltB_3953783_3954970_1 dltB] {{PubMed|22383849}}
+
* '''Operon:'''  
 +
** ''[[cggR]]-[[gapA]]-[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]'' {{PubMed|11489127}}
 +
** ''[[pgk]]-[[tpiA]]-[[pgm]]-[[eno]]'' {{PubMed|11489127}}  
  
−
* '''Sigma factor:''' [[SigD]] {{PubMed|7797557}}, [[SigM]] {{PubMed|18179421}}, [[SigX]] {{PubMed|14762009}}
+
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=eno_3476555_3477847_-1 eno] {{PubMed|22383849}}
 +
 
 +
* '''Expression browser:''' [http://genome.jouy.inra.fr/cgi-bin/seb/viewdetail.py?id=eno_3476555_3477847_-1 eno] {{PubMed|22383849}}
 +
 
 +
* '''Sigma factor:''' [[SigA]] {{PubMed|11489127}}  
  
 
* '''Regulation:'''  
 
* '''Regulation:'''  
−
** [[RelA]] dependent downregulation (Class I) during stringent response {{PubMed|11948165}}
+
** expression activated by glucose (3.3 fold) [http://www.ncbi.nlm.nih.gov/pubmed/12850135 PubMed] 
−
** repressed under conditions that trigger sporulation ([[Spo0A]]) {{PubMed|7797557}}
+
** ''[[cggR]]'': induced by glycolytic substrates [[CggR]] {{PubMed|11489127}}
−
** expression is reduced in a [[SigV]] mutant {{PubMed|21926231}}
+
** ''[[pgk]]'': constitutive {{PubMed|11489127}}
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' transcription repression by [[CggR]] {{PubMed|11489127}}
−
** activated by [[YvrHb]] [http://www.ncbi.nlm.nih.gov/sites/entrez/16306698 PubMed]
 
−
** [[Spo0A]]: transcription repression {{PubMed|7797557}}
 
  
 
* '''Additional information:'''
 
* '''Additional information:'''
Line 133: Line 150:
 
=Biological materials =
 
=Biological materials =
  
−
* '''Mutant:'''
+
* '''Mutant:'''  
 +
** GP594 (''eno''::''cat''), available in [[Stülke]] lab
 +
** GP599 (''eno''::''erm''), available in [[Stülke]] lab
 +
** GP698 (''eno''-''[[pgm]]''::''cat''), available in [[Stülke]] lab
 +
 
 +
* '''Expression vector:'''
 +
** pGP1426 (expression of ''[[eno]]'' in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab
 +
** pGP1500 (expression of ''[[pgm]]'' and ''[[eno]]'' in ''B. subtilis'', in [[pBQ200]]), available in [[Stülke]] lab
 +
** pGP563 (N-terminal His-tag, in [[pWH844]]), available in [[Stülke]] lab
 +
** pGP1276 (N-terminal Strep-tag, purification from ''E. coli'', in [[pGP172]]), available in [[Stülke]] lab
 +
** pGP93 (N-terminal Strep-tag, purification from ''B. subtilis'', for [[SPINE]], in [[pGP380]]), available in [[Stülke]] lab
 +
** GP1215 (''eno''-''Strep'' ''(spc)''), purification from ''B. subtilis'', for [[SPINE]], available in [[Stülke]] lab
  
−
* '''Expression vector:'''
 
−
       
 
 
* '''lacZ fusion:'''
 
* '''lacZ fusion:'''
 +
** see ''[[pgk]]''
 +
 +
* '''GFP fusion:''' pHT315-yfp-eno, available in [[Mijakovic]] lab
  
−
* '''GFP fusion:'''
+
* '''two-hybrid system:''' ''B. pertussis'' adenylate cyclase-based bacterial two hybrid system ([[BACTH]]), available in [[Stülke]] lab
  
−
* '''two-hybrid system:'''  
+
* '''FLAG-tag construct:''' GP1214 (spc, based on [[pGP1331]]), available in the [[Stülke]] lab
  
−
* '''Antibody:'''
+
* '''Antibody:''' available in [[Stülke]] lab
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Stülke|Jörg Stülke]], University of Göttingen, Germany
 +
[http://wwwuser.gwdg.de/~genmibio/stuelke.html Homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
  
 
=References=
 
=References=
−
'''Additional publications:''' {{PubMed|21856855,21926231}}
+
==Reviews==
−
<pubmed>14762009,12028417 ,7797557,18763711, </pubmed>
+
<pubmed> 8994873 </pubmed>
 +
==Subcellular localization of enolase==
 +
'''Additional publications:''' {{PubMed|21856851}}
 +
<pubmed> 16479537 18763711 15003462 20497499 </pubmed>
 +
 
 +
==Other original publications==
 +
<pubmed> 17726680, 17218307, 12850135, 19193632, 11489127, 8021172, 17505547, 25885, 20572937 15476816 9988532 ,21803996 22198292 </pubmed>
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 11:39, 18 April 2012

Gene name eno
Synonyms
Essential no
Product enolase
Function enzyme in glycolysis/ gluconeogenesis
Interactions involving this protein in SubtInteract: Eno
Metabolic function and regulation of this protein in SubtiPathways:
Central C-metabolism
MW, pI 46,4 kDa, 4.49
Gene length, protein length 1290 bp, 430 amino acids
Immediate neighbours yvbK, pgm
Get the DNA and protein sequences
(Barbe et al., 2009)
Genetic context
Eno context.gif
This image was kindly provided by SubtiList
 Expression at a glance   PubMed
Eno expression.png
































Categories containing this gene/protein

carbon core metabolism, membrane proteins, phosphoproteins, universally conserved proteins

This gene is a member of the following regulons

CggR regulon

The gene

Basic information

  • Locus tag: BSU33900

Phenotypes of a mutant

  • no growth on LB, requires glucose and malate
  • essential according to Kobayashi et al. on LB PubMed

Database entries

  • DBTBS entry: [1]
  • SubtiList entry: [2]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: 2-phospho-D-glycerate = phosphoenolpyruvate + H2O (according to Swiss-Prot) 2-phospho-D-glycerate = phosphoenolpyruvate + H(2)O
  • Protein family: enolase family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information: reversible Michaelis-Menten PubMed
  • Domains:
    • substrate binding domain (366–369)
  • Modification: phosphorylation on Thr-141 AND Ser-259 AND Tyr-281 AND Ser-325 PubMed, PubMed, PubMed
  • Cofactor(s): Mg2+
  • Effectors of protein activity:

Database entries

  • KEGG entry: [3]

Additional information

Expression and regulation

  • Regulatory mechanism: transcription repression by CggR PubMed
  • Additional information:

Biological materials

  • Mutant:
    • GP594 (eno::cat), available in Stülke lab
    • GP599 (eno::erm), available in Stülke lab
    • GP698 (eno-pgm::cat), available in Stülke lab
  • Expression vector:
    • pGP1426 (expression of eno in B. subtilis, in pBQ200), available in Stülke lab
    • pGP1500 (expression of pgm and eno in B. subtilis, in pBQ200), available in Stülke lab
    • pGP563 (N-terminal His-tag, in pWH844), available in Stülke lab
    • pGP1276 (N-terminal Strep-tag, purification from E. coli, in pGP172), available in Stülke lab
    • pGP93 (N-terminal Strep-tag, purification from B. subtilis, for SPINE, in pGP380), available in Stülke lab
    • GP1215 (eno-Strep (spc)), purification from B. subtilis, for SPINE, available in Stülke lab
  • lacZ fusion:
  • GFP fusion: pHT315-yfp-eno, available in Mijakovic lab
  • two-hybrid system: B. pertussis adenylate cyclase-based bacterial two hybrid system (BACTH), available in Stülke lab
  • FLAG-tag construct: GP1214 (spc, based on pGP1331), available in the Stülke lab
  • Antibody: available in Stülke lab

Labs working on this gene/protein

Jörg Stülke, University of Göttingen, Germany Homepage

Your additional remarks

References

Reviews

Subcellular localization of enolase

Additional publications: PubMed

Carsten Jers, Malene Mejer Pedersen, Dafni Katerina Paspaliari, Wolfgang Schütz, Christina Johnsson, Boumediene Soufi, Boris Macek, Peter Ruhdal Jensen, Ivan Mijakovic
Bacillus subtilis BY-kinase PtkA controls enzyme activity and localization of its protein substrates.
Mol Microbiol: 2010, 77(2);287-99
[PubMed:20497499] [WorldCat.org] [DOI] (I p)

Hannes Hahne, Susanne Wolff, Michael Hecker, Dörte Becher
From complementarity to comprehensiveness--targeting the membrane proteome of growing Bacillus subtilis by divergent approaches.
Proteomics: 2008, 8(19);4123-36
[PubMed:18763711] [WorldCat.org] [DOI] (I p)

Jean-Christophe Meile, Ling Juan Wu, S Dusko Ehrlich, Jeff Errington, Philippe Noirot
Systematic localisation of proteins fused to the green fluorescent protein in Bacillus subtilis: identification of new proteins at the DNA replication factory.
Proteomics: 2006, 6(7);2135-46
[PubMed:16479537] [WorldCat.org] [DOI] (P p)

Grégory Boël, Vianney Pichereau, Ivan Mijakovic, Alain Mazé, Sandrine Poncet, Sylvie Gillet, Jean-Christophe Giard, Axel Hartke, Yanick Auffray, Josef Deutscher
Is 2-phosphoglycerate-dependent automodification of bacterial enolases implicated in their export?
J Mol Biol: 2004, 337(2);485-96
[PubMed:15003462] [WorldCat.org] [DOI] (P p)


Other original publications

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