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. 2017 Jul 19;8:15959. doi: 10.1038/ncomms15959

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Copyright © 2017, The Author(s)

Open Access This article is licensed under a Creative Commons Attribution 4.0 International License, which permits use, sharing, adaptation, distribution and reproduction in any medium or format, as long as you give appropriate credit to the original author(s) and the source, provide a link to the Creative Commons license, and indicate if changes were made. The images or other third party material in this article are included in the article’s Creative Commons license, unless indicated otherwise in a credit line to the material. If material is not included in the article’s Creative Commons license and your intended use is not permitted by statutory regulation or exceeds the permitted use, you will need to obtain permission directly from the copyright holder. To view a copy of this license, visit http://creativecommons.org/licenses/by/4.0/

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Collective motions were measured using principal component analysis over the last 400 ns of the capsid trajectory. (a) Cumulative contribution to variance from all the principal components. Inset: cumulative contribution to variance from the first 100 principal components. (b) Collectiveness of the first 800 principal components according to their participation number⁴⁴. (c,d) Projection of the displacement patterns for the first principal component, the direction of the displacement is represented by the direction of the arrow; similarly, the magnitude of the displacement is represented by the length of the arrow. Locations of pentamers are highlighted in green.