YydF

• 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
MW, pI	5 kDa, 9.567
Gene length, protein length	147 bp, 49 aa
Immediate neighbours	yydG, fbp
Get the DNA and protein sequences (Barbe et al., 2009)
Genetic context 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

Database entries

• DBTBS entry: [1]

• SubtiList entry: [2]

The protein

Basic information/ Evolution

• Catalyzed reaction/ biological activity:

• Protein family:

• Paralogous protein(s):

Extended information on the protein

• Kinetic information:

• Domains:

• Modification:
  • modified by YydG PubMed

• Cofactor(s):

• Effectors of protein activity:

• Interactions:
  • YydF-YydG PubMed
  • YydF-YydH PubMed

• Localization:
  • extracellular (processing requires YydH) PubMed

Database entries

• Structure:

• UniProt: Q45596

• KEGG entry: [3]

• E.C. number:

Expression and regulation

• Operon: yydF-yydG-yydH-yydI-yydJ PubMed

• Expression browser: yydF PubMed

• Sigma factor: SigA PubMed

• Regulation:
  • activated after transition to stationary phase(AbrB) PubMed

• Regulatory mechanism:
  • AbrB: transcription repression PubMed

• 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:

References

Reviews

Susanne Gebhard
ABC transporters of antimicrobial peptides in Firmicutes bacteria - phylogeny, function and regulation.
Mol Microbiol: 2012, 86(6);1295-317
[PubMed:23106164] [WorldCat.org] [DOI] (I p)

Original publications

Lehnik-Habrink M, Schaffer M, Mäder U, Diethmaier C, Herzberg C, Stülke J  
RNA processing in Bacillus subtilis: identification of targets of the essential RNase Y. 
Mol Microbiol. 2011 81(6): 1459-1473. 
PubMed:21815947

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)