Comparative gel electrophoresis analysis of helical junctions in RNA

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    5 Citations (Scopus)

    Abstract

    Comparative gel electrophoresis provides information on the relative angles subtended between helical arms at a branchpoint in RNA. It is based upon the comparison of electrophoretic mobility in polyacrylamide gels of species containing two long arms, with the remaining one(s) being significantly shorter. Although the method currently lacks a really well-established basis of physical theory, it is very powerful, yet simple to apply. It has had a number of significant successes in RNA, DNA and DNA-protein complexes, and in all cases to date the results have stood the test of time and eventual comparison with crystallographic analysis.

    Original languageEnglish
    Title of host publicationBiophysical, chemical, and functional probes of RNA structure, interactions and folding
    Subtitle of host publicationPart B
    EditorsDaniel Herschlag
    Place of PublicationSan Diego
    PublisherAcademic Press
    Pages143-157
    Number of pages15
    ISBN (Print)9780123809223
    DOIs
    Publication statusPublished - 2009

    Publication series

    NameMethods in Enzymology
    PublisherAcademic Press
    Volume469

    Keywords

    • KINK-TURN RNA
    • 4-WAY DNA JUNCTION
    • HOLLIDAY JUNCTION
    • HAIRPIN RIBOZYME
    • CRYSTAL-STRUCTURE
    • GLOBAL STRUCTURE
    • REPTATION MODEL
    • T7 ENDONUCLEASE
    • NUCLEIC-ACIDS
    • BRANCHED DNA

    Cite this

    Lilley, D. M. J. (2009). Comparative gel electrophoresis analysis of helical junctions in RNA. In D. Herschlag (Ed.), Biophysical, chemical, and functional probes of RNA structure, interactions and folding : Part B (pp. 143-157). (Methods in Enzymology; Vol. 469). Academic Press. https://doi.org/10.1016/S0076-6879(09)69007-8