Difference between revisions of "Sandbox"

From SubtiWiki
Jump to: navigation, search
Line 1: Line 1:
−
* '''Description:''' two-component response regulator <br/><br/>
+
* '''Description:''' lactate catabolic enzyme <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'''
−
|''yvfU''
+
|''lutA''
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || '' ''
+
|style="background:#ABCDEF;" align="center"| '''Synonyms''' || ''yvfV''
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Product''' || two-component response regulator
+
|style="background:#ABCDEF;" align="center"| '''Product''' || lactate oxidase
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Function''' || unknown
+
|style="background:#ABCDEF;" align="center"|'''Function''' || lactate utilization
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 22 kDa, 5.079  
+
|style="background:#ABCDEF;" align="center"| '''MW, pI''' || 26 kDa, 6.25  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 600 bp, 200 aa  
+
|style="background:#ABCDEF;" align="center"| '''Gene length, protein length''' || 714 bp, 238 aa  
 
|-
 
|-
−
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[lutA]]'', ''[[yvfT]]''
+
|style="background:#ABCDEF;" align="center"|'''Immediate neighbours''' || ''[[lutB]]'', ''[[yvfU]]''
 
|-
 
|-
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|colspan="2" style="background:#FAF8CC;" align="center"|'''Hier soll was neues rein'''
 
|-
 
|-
−
|colspan="2" | '''Genetic context''' <br/> [[Image:yvfU_context.gif]]
+
|colspan="2" | '''Genetic context''' <br/> [[Image:yvfV_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>
 
|-
 
|-
Line 38: Line 38:
  
 
===Phenotypes of a mutant ===
 
===Phenotypes of a mutant ===
 +
 +
no growth with lactate as the single carbon source [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
  
 
=== Database entries ===
 
=== Database entries ===
Line 43: Line 45:
 
* '''DBTBS entry:''' no entry
 
* '''DBTBS entry:''' no entry
  
−
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12446]
+
* '''SubtiList entry:''' [http://genolist.pasteur.fr/SubtiList/genome.cgi?gene_detail+BG12447]
  
 
=== Additional information===
 
=== Additional information===
Line 52: Line 54:
 
=== Basic information/ Evolution ===
 
=== Basic information/ Evolution ===
  
−
* '''Catalyzed reaction/ biological activity:'''  
+
* '''Catalyzed reaction/ biological activity:''' oxidation of lactate to pyruvate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
  
 
* '''Protein family:'''
 
* '''Protein family:'''
Line 80: Line 82:
 
* '''Swiss prot entry:'''
 
* '''Swiss prot entry:'''
  
−
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU34060]
+
* '''KEGG entry:''' [http://www.genome.jp/dbget-bin/www_bget?bsu+BSU34050]
  
 
* '''E.C. number:'''
 
* '''E.C. number:'''
Line 88: Line 90:
 
=Expression and regulation=
 
=Expression and regulation=
  
−
* '''Operon:'''  
+
* '''Operon:''' ''[[lutA]]-[[lutB]]-[[lutC]]'' [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
  
−
* '''[[Sigma factor]]:'''  
+
* '''Sigma factor:'''  
  
−
* '''Regulation:'''  
+
* '''Regulation:''' induction by lactate [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
  
−
* '''Regulatory mechanism:'''  
+
* '''Regulatory mechanism:''' dual repression by [[LutR]] (inducer lactate) and [[SinR]] [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
  
 
* '''Additional information:'''  
 
* '''Additional information:'''  
Line 113: Line 115:
  
 
=Labs working on this gene/protein=
 
=Labs working on this gene/protein=
 +
 +
[[Richard Losick]], Harvard Univ., Cambridge, USA [http://www.mcb.harvard.edu/Losick/ homepage]
  
 
=Your additional remarks=
 
=Your additional remarks=
Line 118: Line 122:
 
=References=
 
=References=
  
 +
# Chai Y, Kolter R, Losick R. (2009) A WIDELY CONSERVED GENE CLUSTER REQUIRED FOR LACTATE UTILIZATION IN BACILLUS SUBTILIS AND ITS INVOLVEMENT IN BIOFILM FORMATION. ''J Bacteriol.'' '''Feb 6.''' Epub ahead of print [http://www.ncbi.nlm.nih.gov/sites/entrez/19201793 PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]
 
# Author1, Author2 & Author3 (year) Title ''Journal'' '''volume:''' page-page. [http://www.ncbi.nlm.nih.gov/sites/entrez/PMID PubMed]

Revision as of 17:43, 15 April 2009

  • Description: lactate catabolic enzyme

Gene name lutA
Synonyms yvfV
Essential no
Product lactate oxidase
Function lactate utilization
MW, pI 26 kDa, 6.25
Gene length, protein length 714 bp, 238 aa
Immediate neighbours lutB, yvfU
Hier soll was neues rein
Genetic context
YvfV context.gif
This image was kindly provided by SubtiList



The gene

Basic information

  • Coordinates:

Phenotypes of a mutant

no growth with lactate as the single carbon source PubMed

Database entries

  • DBTBS entry: no entry
  • SubtiList entry: [1]

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity: oxidation of lactate to pyruvate PubMed
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Domains:
  • Modification:
  • Cofactor(s):
  • Effectors of protein activity:
  • Interactions:
  • Localization:

Database entries

  • Structure:
  • Swiss prot entry:
  • KEGG entry: [2]
  • E.C. number:

Additional information

Expression and regulation

  • Sigma factor:
  • Regulation: induction by lactate PubMed
  • Regulatory mechanism: dual repression by LutR (inducer lactate) and SinR PubMed
  • Additional information:

Biological materials

  • Mutant:
  • Expression vector:
  • lacZ fusion:
  • GFP fusion:
  • two-hybrid system:
  • Antibody:

Labs working on this gene/protein

Richard Losick, Harvard Univ., Cambridge, USA homepage

Your additional remarks

References

  1. Chai Y, Kolter R, Losick R. (2009) A WIDELY CONSERVED GENE CLUSTER REQUIRED FOR LACTATE UTILIZATION IN BACILLUS SUBTILIS AND ITS INVOLVEMENT IN BIOFILM FORMATION. J Bacteriol. Feb 6. Epub ahead of print PubMed
  2. Author1, Author2 & Author3 (year) Title Journal volume: page-page. PubMed
Retrieved from "http://subtiwiki.uni-goettingen.de/wiki//index.php?title=Sandbox&oldid=54681"