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Ligand- and pH-Induced Conformational Changes of RNA Domain Helix 69 Revealed by 2-Aminopurine Fluorescence


  • We thank D. Rueda for providing access to the fluorometer. This project was supported by the NIH (GM087596).


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Loop conformation: The loop of the RNA domain helix 69 (H69) was modified with the fluorescent analogue 2-aminopurine (2AP), thus showing different conformational states under various conditions. The application of this model RNA reveals the unique impact of aminoglycoside neomycin, which differs from the effects of structurally related compounds paromomycin and gentamicin, on the H69 loop conformation in solution (see picture).

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