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. 2014 Aug 7;10(8):e1003756. doi: 10.1371/journal.pcbi.1003756

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© 2014 Chou et al

This is an open-access article distributed under the terms of the Creative Commons Attribution License, which permits unrestricted use, distribution, and reproduction in any medium, provided the original author and source are properly credited.

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(A) Plot of calculated link vs. bead rotation in DNA simulation with 7 pN stretching force and no link constraint. The red line is the function y = x. The link is folded into the range of 0 to 1 turn for better comparison. RMSD of the calculated link is 5.7°. (B) Plot of Fuller writhe vs. exact writhe in DNA simulation with 0.1 pN stretching force and no link constraint. The separation of two turns between parallel traces demonstrates that Fuller writhe is only correct modulo 4π in this criteria. (C) RMSD for Fuller writhe at different stretching forces with no link constraint. Black: DNA; Red: dsRNA. (D) RMSD for Fuller writhe at different link constraints in simulations at 7 pN stretching force.