Difference between revisions of "YlmE"

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(Database entries)
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* '''Description:''' amino acid racemase, production of D-amino acids, control of [[biofilm formation]] <br/><br/>
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* '''Description:''' putative amino acid racemase, production of D-amino acids, control of [[biofilm formation]] <br/><br/>
  
 
{| align="right" border="1" cellpadding="2"  
 
{| align="right" border="1" cellpadding="2"  
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|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|style="background:#ABCDEF;" align="center"| '''Essential''' || no  
 
|-
 
|-
|style="background:#ABCDEF;" align="center"| '''Product''' || amino acid racemase  
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|style="background:#ABCDEF;" align="center"| '''Product''' || putative amino acid racemase  
 
|-
 
|-
 
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
 
|style="background:#ABCDEF;" align="center"|'''Function''' || control of [[biofilm formation]]
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=== Additional information===
 
=== Additional information===
 
 
  
  
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* '''Catalyzed reaction/ biological activity:'''  
 
* '''Catalyzed reaction/ biological activity:'''  
 +
** while the protein was described as an amino acid racemase important for biofilm formation {{PubMed|24097949}}, no racemase activity was detected in in vitro assays with a functionally active protein {{PubMed|24097949}}
  
 
* '''Protein family:''' UPF0001 family (according to Swiss-Prot)
 
* '''Protein family:''' UPF0001 family (according to Swiss-Prot)
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* '''Kinetic information:'''
 
* '''Kinetic information:'''
  
* '''Domains:'''  
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* '''[[Domains]]:'''  
  
 
* '''Modification:'''
 
* '''Modification:'''

Revision as of 18:37, 21 December 2013

  • Description: putative amino acid racemase, production of D-amino acids, control of biofilm formation

Gene name ylmE
Synonyms
Essential no
Product putative amino acid racemase
Function control of biofilm formation
Gene expression levels in SubtiExpress: ylmE
MW, pI 25 kDa, 5.546
Gene length, protein length 690 bp, 230 aa
Immediate neighbours ylmD, sepF
Sequences Protein DNA DNA_with_flanks
Genetic context
YlmE context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
YlmE expression.png















Categories containing this gene/protein

biofilm formation

This gene is a member of the following regulons

Spo0A regulon

The gene

Basic information

  • Locus tag: BSU15380

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
    • while the protein was described as an amino acid racemase important for biofilm formation PubMed, no racemase activity was detected in in vitro assays with a functionally active protein PubMed
  • Protein family: UPF0001 family (according to Swiss-Prot)
  • Paralogous protein(s):

Extended information on the protein

  • Kinetic information:
  • Modification:
  • Effectors of protein activity:

Database entries

  • Structure: 1W8G (the structure of YggS from E. coli 33% identity, 61% similarity)
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
    • repressed under conditions that trigger sporulation (Spo0A) PubMed
  • Regulatory mechanism:
  • Additional information:

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Tomokazu Ito, Jumpei Iimori, Sayuri Takayama, Akihito Moriyama, Ayako Yamauchi, Hisashi Hemmi, Tohru Yoshimura
Conserved pyridoxal protein that regulates Ile and Val metabolism.
J Bacteriol: 2013, 195(24);5439-49
[PubMed:24097949] [WorldCat.org] [DOI] (I p)

Ilana Kolodkin-Gal, Diego Romero, Shugeng Cao, Jon Clardy, Roberto Kolter, Richard Losick
D-amino acids trigger biofilm disassembly.
Science: 2010, 328(5978);627-9
[PubMed:20431016] [WorldCat.org] [DOI] (I p)

Leendert W Hamoen, Jean-Christophe Meile, Wouter de Jong, Philippe Noirot, Jeff Errington
SepF, a novel FtsZ-interacting protein required for a late step in cell division.
Mol Microbiol: 2006, 59(3);989-99
[PubMed:16420366] [WorldCat.org] [DOI] (P p)

Virginie Molle, Masaya Fujita, Shane T Jensen, Patrick Eichenberger, José E González-Pastor, Jun S Liu, Richard Losick
The Spo0A regulon of Bacillus subtilis.
Mol Microbiol: 2003, 50(5);1683-701
[PubMed:14651647] [WorldCat.org] [DOI] (P p)