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. Author manuscript; available in PMC: 2016 Mar 4.
Published in final edited form as: Methods Enzymol. 2015 Feb 7;553:215–234. doi: 10.1016/bs.mie.2014.10.061

Figure 5.

Figure 5

Comparison between experiment and simulation of SHAPE probing data of SAM-I riboswitch aptamer domain. Dashed horizontal lines with points are normalized activity from SHAPE reactivity measurements. Bars are activities computed from structure-based molecular dynamics simulations before optimization of the potential. (a)- in the presence of SAM and (b)- in the absence of it.