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|Cover: The figure shows a 3D model of the second helix of the fourU RNA thermometer from the Salmonella agsA gene. The hairpin structure of this RNA melts at 41.1°C and liberates the Shine-Dalgarno sequence. The global melting process can be followed by CD measurements (back board). By NMR spectroscopy, temperature dependent nucleobase stabilities at base-pair resolution can be obtained (graph on the bottom). This nucleobase stabilities can be mapped onto the secondary structure of the RNA (left board). For the base-pair opening process, enthalpy and entropy values are correlated linearly (equation, left board, bottom). Inserting this into the Gibbs-Helmholtz equation yields the equation on top (left board) which describes the temperature dependence of the base-pair stabilities. Using spectroscopic techniques, the contribution of each basepair on the temperature response for the FourU RNA thermometer can therefore be mapped. The method is generally applicable to determine basepair stabilities for DNA and RNA.|
|For further information, please see the article by Rinnenthal et al., Nuceic Acids Res., 2010, 38, 3834–3847.|