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Spatial arrangement of functional domains in OxyS stress response sRNA

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  • Additional Information
    • Publication Information:
      Cold Spring Harbor Laboratory, 2023.
    • Publication Date:
      2023
    • Abstract:
      Small noncoding RNAs are an important class of regulatory RNAs in bacteria, often regulating responses to changes in environmental conditions. OxyS is a 110 nt, stable,trans-encoded small RNA found inEscherichia coliand is induced by an increased concentration of hydrogen peroxide. OxyS has an important regulatory role in cell stress response, affecting the expression of multiple genes. In this work, we investigated the structure of OxyS and the interaction withfhlAmRNA using nuclear magnetic resonance spectroscopy, small-angle X-ray scattering, and unbiased molecular dynamics simulations. We determined the secondary structures of isolated stem–loops and confirmed their structural integrity in OxyS. Unexpectedly, stem–loop SL4 was identified in the region that was predicted to be unstructured. Three-dimensional models of OxyS demonstrate that OxyS adopts an extended structure with four solvent-exposed stem–loops, which are available for interaction with other RNAs and proteins. Furthermore, we provide evidence of base-pairing between OxyS andfhlAmRNA.
    • File Description:
      text/url; application/pdf
    • ISSN:
      1469-9001
      1355-8382
    • Accession Number:
      10.1261/rna.079618.123
    • Rights:
      CC BY NC
      URL: http://creativecommons.org/licenses/by-nc/4.0/This article is distributed exclusively by the RNA Society for the first 12 months after the full-issue publication date (see http://rnajournal.cshlp.org/site/misc/terms.xhtml). After 12 months, it is available under a Creative Commons License (Attribution-NonCommercial 4.0 International), as described at http://creativecommons.org/licenses/by-nc/4.0/ (http://creativecommons.org/licenses/by-nc/4.0/) .
      URL: http://creativecommons.org/licenses/by-nc/4.0/deed.sl
    • Accession Number:
      edsair.doi.dedup.....ae38bf4e4fee5a86ea1147448f89c8f6