The complete VS ribozyme in solution studied by small-angle X-ray scattering

Jan Lipfert, Jonathan Ouellet, David G. Norman, Sebastian Doniach, David M. J. Lilley (Lead / Corresponding author)

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    64 Citations (Scopus)

    Abstract

    We have used small-angle X-ray solution scattering to obtain ab initio shape reconstructions of the complete VS ribozyme. The ribozyme occupies an electron density envelope with an irregular shape, into which helical sections have been fitted. The ribozyme is built around a core comprising a near-coaxial stack of three helices, organized by two three-way helical junctions. An additional three-way junction formed by an auxiliary helix directs the substrate stem-loop, juxtaposing the cleavage site with an internal loop to create the active complex. This is consistent with the current view of the probable mechanism of trans-esterification in which adenine and guanine nucleobases contributed by the interacting loops combine in general acid-base catalysis.

    Original languageEnglish
    Pages (from-to)1357-1367
    Number of pages11
    JournalStructure
    Volume16
    Issue number9
    DOIs
    Publication statusPublished - 10 Sep 2008

    Keywords

    • VARKUD SATELLITE RIBOZYME
    • NATURAL HAMMERHEAD RIBOZYME
    • ADVANCED PHOTON SOURCE
    • ACTIVE-SITE LOOP
    • HAIRPIN RIBOZYME
    • BIOLOGICAL MACROMOLECULES
    • TERTIARY STRUCTURE
    • NEUROSPORA
    • RNA
    • CLEAVAGE

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