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. Author manuscript; available in PMC: 2016 Aug 1.
Published in final edited form as: Biopolymers. 2015 Aug;103(8):438–448. doi: 10.1002/bip.22601

Figure 2.

Figure 2

SHAPE chemistry monitors local nucleotide dynamics and non-canonical interactions. (A) Mechanism of RNA SHAPE chemistry to form 2'-O-adducts at flexible nucleotides. (B) Core set of useful SHAPE reagents. (C) Structural contexts for nucleotides exhibiting NMIA (green) and 1M6 (blue) enhancements superimposed on a model for the TPP riboswitch aptamer domain; the bound ligand shown in gray. Structure illustrations for the TPP riboswitch are based on 2gdi.30