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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 5.

Figure 5

Molecular graphics of representative structures from 15 clustering of straight coordinate running averaged trajectories over different time intervals for all atoms in the DNA 18-mer helix. Running averages over the ENS trajectory were performed over different time intervals (50 ns, 100 ns, 1 μs, 3 μs and 6 μs, side and top view) and the derived trajectory was clustered using CPPTRAJ with the average-linkage algorithm into 15 clusters omitting the terminal base pairs using a sieve of 250 frames. The structures of the representative member of the 15 clusters over each time interval are shown colored by atom.