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. Author manuscript; available in PMC: 2016 May 1.
Published in final edited form as: Biochim Biophys Acta. 2014 Sep 16;1850(5):1041–1058. doi: 10.1016/j.bbagen.2014.09.007

Figure 12.

Figure 12

Base opening events in relation to ion binding. Top: most populated structure from clustering analysis of Anton2 using average-linkage algorithm into 10 clusters. The 5x bulk K+ ion density is shown, only base-pair steps 1 through 3. Bottom: second most populated representative structure with an opening event and the K+ grid using the same ion density. Coloring of the grids are based on closeness to the center of the grid: red is closer, yellow is farther.