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. Author manuscript; available in PMC: 2013 Aug 15.
Published in final edited form as: J Am Chem Soc. 2012 Aug 1;134(32):13160–13163. doi: 10.1021/ja304027m

Figure 5.

Figure 5

Differential SHAPE reactivities as a function of the extent of stable RNA structure. Differential SHAPE reactivity analysis of the (A) ligand-free and (B) ligand-free, no added ion (no Mg2+/Na+) states of the TPP riboswitch. Nucleotides that showed significant reagent-specific enhancements (as defined in Figure 2) are highlighted. Reagent enhancements superimposed on secondary structure models for the (C) ligand-bound, (D) ligand-free, and (E) no added ion states of the TPP riboswitch.