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
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 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, transport by YydI-YydJ) 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

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)