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    rnlA RNase LS, toxin of the RnlAB toxin-antitoxin system [ Escherichia coli str. K-12 substr. MG1655 ]

    Gene ID: 947107, updated on 3-Dec-2024

    Summary

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    Official Symbol
    rnlA
    Official Full Name
    RNase LS, toxin of the RnlAB toxin-antitoxin system
    Primary source
    ECOCYC:G7365
    Locus tag
    b2630
    See related
    ASAP:ABE-0008659
    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
    ECK2626; std; yfjN
    Summary
    RnlA is responsible for the rapid degradation of T4 late genes in T4 dmd mutants. [More information is available at EcoGene: EG13200]. RNase LS is an endoribonuclease that cleaves bacteriophage T4 late mRNA in dmd mutant strains . [More information is available at EcoCyc: G7365].
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    Genomic context

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    Sequence:
    NC_000913.3 (2765918..2766991)

    NC_000913.3Genomic Context describing neighboring genes Neighboring gene putative helicase YfjK Neighboring gene anti-bacteriophage protein Neighboring gene protein YfjM Neighboring gene antitoxin RnlB Neighboring gene putative GTP-binding protein YfjP Neighboring gene DUF932 domain-containing protein YfjQ

    Genomic regions, transcripts, and products

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    Genomic Sequence:
    NC_000913.3

    Go to nucleotide: Graphics FASTA GenBank

    Bibliography

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    Related articles in PubMed

    1. Structure-function studies of Escherichia coli RnlA reveal a novel toxin structure involved in bacteriophage resistance. Wei Y, et al. Mol Microbiol, 2013 Dec. PMID 24112600
    2. A novel endoribonuclease, RNase LS, in Escherichia coli. Otsuka Y, et al. Genetics, 2005 Jan. PMID 15677746, Free PMC Article
    3. RNA cleavage linked with ribosomal action. Yamanishi H, et al. Genetics, 2005 Oct. PMID 16020788, Free PMC Article
    4. Opposite roles of the dmd gene in the control of RNase E and RNase LS activities. Kanesaki T, et al. Genes Genet Syst, 2005 Aug. PMID 16284417
    5. Alternative dimerization is required for activity and inhibition of the HEPN ribonuclease RnlA. Garcia-Rodriguez G, et al. Nucleic Acids Res, 2021 Jul 9. PMID 34139012, Free PMC Article

    See all (21) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. Alternative dimerization is required for activity and inhibition of the HEPN ribonuclease RnlA.
      Title: Alternative dimerization is required for activity and inhibition of the HEPN ribonuclease RnlA.
    2. RNase HI recruits RnlB to RnlA through N-repeated domain for inhibiting RnlA toxicity and thus plays two contrary roles in the regulation of RnlA-RnlB system.
      Title: RnlB Antitoxin of the Escherichia coli RnlA-RnlB Toxin-Antitoxin Module Requires RNase HI for Inhibition of RnlA Toxin Activity.
    3. Here, authors provide the evidence that RNase HI is an essential factor for activation of RnlA.
      Title: RNase HI stimulates the activity of RnlA toxin in Escherichia coli.
    4. Results suggest that RnlA functions as a toxin with mRNA endoribonuclease activity and is inhibited after binding to T4 antitoxin Dmd protein through its Dmd-binding domain.
      Title: Structure-function studies of Escherichia coli RnlA reveal a novel toxin structure involved in bacteriophage resistance.
    5. RNase LS regulates Crp-cAMP concentration by degrading the cyaA transcripts.
      Title: Post-transcriptional control of Crp-cAMP by RNase LS in Escherichia coli.
    6. Fractionation of the RNase LS activity in a cell extract showed that it sedimented through a sucrose density gradient as a 1000-kDa complex that included RnlA. Pull-down experiments revealed more than 10 proteins associated with His-tagged RnlA.
      Title: A role of RnlA in the RNase LS activity from Escherichia coli.
    7. RNase LS cleaves soc RNA in a manner dependent on translation termination.
      Title: RNA cleavage linked with ribosomal action.
    Submit: New GeneRIF Correction

    General gene information

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    Homology

    Gene Ontology Provided by EcoCyc

    Function Evidence Code Pubs
    enables RNA endonuclease activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    enables RNA endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables endonuclease activity IEA
    Inferred from Electronic Annotation
    more info
    		  
    enables protein binding IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 
    enables protein homodimerization activity IDA
    Inferred from Direct Assay
    more info
    		 PubMed 
    Process Evidence Code Pubs
    involved_in defense response to virus IEA
    Inferred from Electronic Annotation
    more info
    		  
    acts_upstream_of_or_within mRNA catabolic process IMP
    Inferred from Mutant Phenotype
    more info
    		 PubMed 
    involved_in regulation of DNA-templated transcription NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in regulation of growth NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    involved_in single-species biofilm formation NAS
    Non-traceable Author Statement
    more info
    		 PubMed 
    Component Evidence Code Pubs
    located_in cytoplasm IEA
    Inferred from Electronic Annotation
    more info
    		  
    part_of toxin-antitoxin complex IPI
    Inferred from Physical Interaction
    more info
    		 PubMed 

    General protein information

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    Preferred Names
    RNase LS, toxin of the RnlAB toxin-antitoxin system

    NCBI Reference Sequences (RefSeq)

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    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
      2765918..2766991
      Download
      GenBank, FASTA, Sequence Viewer (Graphics)

    mRNA and Protein(s)

    1. NP_417119.1 RNase LS, toxin of the RnlAB toxin-antitoxin system [Escherichia coli str. K-12 substr. MG1655]

      See identical proteins and their annotated locations for NP_417119.1

      Status: PROVISIONAL

      UniProtKB/Swiss-Prot
      P52129
      Conserved Domains (3) summary
      cd14794
      Location:7 → 97
      RNLA_N_1; N-terminal repeat domain of toxin RnlA; first out of two repeats
      cd14795
      Location:99 → 184
      RNLA_N_2; N-terminal repeat domain of toxin RnlA; second out of two repeats
      pfam19034
      Location:203 → 325
      RnlA-toxin_C; RNase LS, bacterial toxin C terminal
    Nucleotide Protein
    Heading Accession and Version

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