The conformation of a conserved stem-loop structure in ribosomal RNA

Journal of Biomolecular Structure & Dynamics
P H Van Knippenberg, H A Heus

Abstract

The RNA of small ribosomal subunits contains a conserved stem-loop structure near the 3' end. Characteristics for the hairpins are: (a) a nine-basepairs stem: (b) a conserved A-UU-G junction in the stem: (c) a conserved sequence Gm6(2)AM6(2)A sequence in the loop (except yeast mitochondria and mutants from bacteria). We are using UV-optics, micro-calorimetry and 500 MHz-NMR to investigate fragments of about 50 nucleotides cleaved from the 3' ends of small ribosomal subunit RNA's by bacteriocins. Our preliminary conclusions are: (1) Dimethylation of the adenines in the loop destabilizes the hairpin because of an increased stacking; (2) melting of the hairpin starts at the ends as well as in the middle at the A-UU-G junction; (3) basepair substitutions have an unexpectedly large effect on thermal stability.

References

Mar 1, 1977·Proceedings of the National Academy of Sciences of the United States of America·R A BaanL Bosch
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Apr 24, 1982·Nucleic Acids Research·W Traub, J L Sussman

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Citations

Mar 26, 1984·Nucleic Acids Research·P H Van KnippenbergH A Heus
Nov 25, 1985·Nucleic Acids Research·J G Nadeau, P T Gilham
May 11, 1990·Biochemistry·J D PuglisiI Tinoco
Aug 1, 1987·Journal of Biomolecular Structure & Dynamics·M KelveE Raukas

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