U.S. flag

An official website of the United States government

Format

Send to:

Choose Destination

yafQ ribosome-dependent mRNA interferase toxin YafQ [ Escherichia coli str. K-12 substr. MG1655 ]

Gene ID: 944911, updated on 26-Mar-2025
Official Symbol
yafQ
Official Full Name
ribosome-dependent mRNA interferase toxin YafQ
Primary source
ECOCYC:G6109
Locus tag
b0225
See related
ASAP:ABE-0000761
Gene type
protein coding
RefSeq status
PROVISIONAL
Organism
Escherichia coli str. K-12 substr. MG1655 (strain: K-12, substrain: MG1655)
Lineage
Bacteria; Pseudomonadota; Gammaproteobacteria; Enterobacterales; Enterobacteriaceae; Escherichia
Also known as
ECK0226
Summary
YafQ is homologous to the RelE toxin, which inhibits translation as a sequence-specific mRNA endoribonuclease. [More information is available at EcoGene: EG13154]. The YafQ-DinJ toxin-antitoxin system was identified by its similarity to the RelE-RelB toxin-antitoxin system . [More information is available at EcoCyc: G6109].
NEW
Try the new Gene table
Try the new Transcript table
Sequence:
NC_000913.3 (245961..246239, complement)

NC_000913.3Genomic Context describing neighboring genes Neighboring gene D-sedoheptulose 7-phosphate isomerase Neighboring gene putative glutamine amidotransferase YafJ Neighboring gene peptidoglycan meso-diaminopimelic acid protein amidase A Neighboring gene antitoxin/DNA-binding transcriptional repressor DinJ Neighboring gene NlpC/P60 family protein YafL

Genomic Sequence:
NC_000913.3

Go to nucleotide: Graphics FASTA GenBank

Related articles in PubMed

  1. Toxin YafQ increases persister cell formation by reducing indole signalling. Hu Y, et al. Environ Microbiol, 2015 Apr. PMID 25041421
  2. The chromosomal toxin gene yafQ is a determinant of multidrug tolerance for Escherichia coli growing in a biofilm. Harrison JJ, et al. Antimicrob Agents Chemother, 2009 Jun. PMID 19307375, Free PMC Article
  3. Molecular basis of ribosome recognition and mRNA hydrolysis by the E. coli YafQ toxin. Maehigashi T, et al. Nucleic Acids Res, 2015 Sep 18. PMID 26261214, Free PMC Article
  4. Mechanisms of toxin inhibition and transcriptional repression by Escherichia coli DinJ-YafQ. Ruangprasert A, et al. J Biol Chem, 2014 Jul 25. PMID 24898247, Free PMC Article
  5. Characterization of Escherichia coli dinJ-yafQ toxin-antitoxin system using insights from mutagenesis data. Armalyte J, et al. J Bacteriol, 2012 Mar. PMID 22247505, Free PMC Article

See all (24) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. The findings demonstrate the plasticity of ribosome-dependent toxin active site residues by the E. coli YafQ toxin and further our understanding of which toxin residues are important for function.
    Title: Molecular basis of ribosome recognition and mRNA hydrolysis by the E. coli YafQ toxin.
  2. YafQ increases persistence by reducing indole, and toxin/antitoxin systems are related to cell signalling.
    Title: Toxin YafQ increases persister cell formation by reducing indole signalling.
  3. The endoribonuclease activity of YafQ was inhibited in the complex with DinJ antitoxin in vitro.
    Title: Characterization of Escherichia coli dinJ-yafQ toxin-antitoxin system using insights from mutagenesis data.
  4. YafQ endoribonuclease expression resulted in translation, but not transcription or replication defects.
    Title: Bacterial toxin YafQ is an endoribonuclease that associates with the ribosome and blocks translation elongation through sequence-specific and frame-dependent mRNA cleavage.
  5. Acts as toxin in active toxin-antitoxin module with DinJ. Structure modelling suggests that it might act as a sequence-specific mRNA endoribonuclease.
    Title: Escherichia coli dinJ-yafQ genes act as a toxin-antitoxin module.
Submit: New GeneRIF Correction
Products Interactant Other Gene Complex Source Pubs Description

Homology

Gene Ontology Provided by EcoCyc

Function Evidence Code Pubs
enables DNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA binding IEA
Inferred from Electronic Annotation
more info
  
enables RNA endonuclease activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables RNA endonuclease activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables RNA endonuclease activity, producing 3'-phosphomonoesters IDA
Inferred from Direct Assay
more info
 PubMed 
enables endonuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables hydrolase activity IEA
Inferred from Electronic Annotation
more info
  
enables nuclease activity IEA
Inferred from Electronic Annotation
more info
  
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables ribosome binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in mRNA catabolic process IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within mRNA catabolic process IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in negative regulation of DNA-templated transcription IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of growth NAS
Non-traceable Author Statement
more info
 PubMed 
acts_upstream_of_or_within response to antibiotic IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in single-species biofilm formation IDA
Inferred from Direct Assay
more info
 PubMed 
acts_upstream_of_or_within single-species biofilm formation IMP
Inferred from Mutant Phenotype
more info
 PubMed 
involved_in translational termination IBA
Inferred from Biological aspect of Ancestor
more info
  
acts_upstream_of_or_within translational termination IDA
Inferred from Direct Assay
more info
 PubMed 
Component Evidence Code Pubs
part_of toxin-antitoxin complex IPI
Inferred from Physical Interaction
more info
 PubMed 
Preferred Names
ribosome-dependent mRNA interferase toxin YafQ

NEW Try the new Transcript table

Genome Annotation

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference assembly

Genomic

  1. NC_000913.3 Reference assembly

    Range
    245961..246239 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. NP_414760.1 ribosome-dependent mRNA interferase toxin YafQ [Escherichia coli str. K-12 substr. MG1655]

    See identical proteins and their annotated locations for NP_414760.1

    Status: PROVISIONAL

    UniProtKB/TrEMBL
    A0A8S7RG15, A0A8T6A7D3
    Conserved Domains (1) summary
    COG3041
    Location:3 → 91
    YafQ; mRNA-degrading endonuclease (mRNA interferase) YafQ, toxin component of the YafQ-DinJ toxin-antitoxin module [Translation, ribosomal structure and biogenesis]
Nucleotide Protein
Heading Accession and Version

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.