Difference between revisions of "YydF"

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(Original publications)
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<pubmed> 23106164</pubmed>
 
<pubmed> 23106164</pubmed>
 
==Original publications==
 
==Original publications==
<big>''Lehnik-Habrink M, Schaffer M, Mäder U, Diethmaier C, Herzberg C, Stülke J''  </big>
+
<pubmed>12884008,,17921301,17921301,21815947</pubmed>
<big>'''RNA processing in ''Bacillus subtilis'': identification of targets of the essential RNase Y.''' </big>
 
<big>Mol Microbiol. 2011 81(6): 1459-1473. </big>
 
[http://www.ncbi.nlm.nih.gov/pubmed/21815947 PubMed:21815947]
 
<pubmed>12884008,,17921301,17921301, </pubmed>
 
  
 
[[Category:Protein-coding genes]]
 
[[Category:Protein-coding genes]]

Revision as of 16:26, 13 July 2013

  • Description: secreted peptide, controls LiaR-LiaS activity

Gene name yydF
Synonyms
Essential no
Product secreted peptide
Function control of LiaR-LiaS activity
Gene expression levels in SubtiExpress: yydF
Interactions involving this protein in SubtInteract: YydF
MW, pI 5 kDa, 9.567
Gene length, protein length 147 bp, 49 aa
Immediate neighbours yydG, fbp
Sequences Protein DNA DNA_with_flanks
Genetic context
YydF context.gif
This image was kindly provided by SubtiList
Expression at a glance   PubMed
500px















Categories containing this gene/protein

transcription factors and their control

This gene is a member of the following regulons

AbrB regulon

The gene

Basic information

  • Locus tag: BSU40180

Phenotypes of a mutant

Database entries

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

Additional information

The protein

Basic information/ Evolution

  • Catalyzed reaction/ biological activity:
  • Protein family:
  • Paralogous protein(s):

Extended information on the protein

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

Database entries

  • Structure:
  • KEGG entry: [3]
  • E.C. number:

Additional information

Expression and regulation

  • Regulation:
    • activated after transition to stationary phase(AbrB) PubMed
  • Regulatory mechanism:
  • Additional information:
    • the mRNA is very stable (half-life > 15 min) PubMed
    • the yydF portion of the mRNA belongs to the most stable mRNAs in B. subtilis PubMed
    • the amount of the mRNA is substantially decreased upon depletion of RNase Y PubMed

Biological materials

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

Labs working on this gene/protein

Your additional remarks

References

Reviews

Original publications

Martin Lehnik-Habrink, Marc Schaffer, Ulrike Mäder, Christine Diethmaier, Christina Herzberg, Jörg Stülke
RNA processing in Bacillus subtilis: identification of targets of the essential RNase Y.
Mol Microbiol: 2011, 81(6);1459-73
[PubMed:21815947] [WorldCat.org] [DOI] (I p)

Bronwyn G Butcher, Yi-Pin Lin, John D Helmann
The yydFGHIJ operon of Bacillus subtilis encodes a peptide that induces the LiaRS two-component system.
J Bacteriol: 2007, 189(23);8616-25
[PubMed:17921301] [WorldCat.org] [DOI] (I p)

G Hambraeus, C von Wachenfeldt, L Hederstedt
Genome-wide survey of mRNA half-lives in Bacillus subtilis identifies extremely stable mRNAs.
Mol Genet Genomics: 2003, 269(5);706-14
[PubMed:12884008] [WorldCat.org] [DOI] (P p)