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Computed Three-Dimensional Atomic Force Microscopy Images of Biopolymers Using the Jarzynski Equality 炭竈, 享司 宮澤, 佳甫 福間, 剛士 30579412 Sumikama, Takashi Canova, Filippo Federici Gao, David Z. Penedo, Marcos 40845525 Miyazawa, Keisuke Foster, Adam S. 90452094 Fukuma, Takeshi Copyright © 2022 The Authors. Published by American Chemical Society Three-dimensional atomic force microscopy (3D-AFM) has resolved three-dimensional distributions of solvent molecules at solid–liquid interfaces at the subnanometer scale. This method is now being extended to the imaging of biopolymer assemblies such as chromosomes or proteins in cells, with the expectation of being able to resolve their three-dimensional structures. Here, we have developed a computational method to simulate 3D-AFM images of biopolymers by using the Jarzynski equality. It is found that some parts of the fiber structure of biopolymers are indeed resolved in the 3D-AFM image. The dependency of 3D-AFM images on the vertical scanning velocity is investigated, and optimum scanning velocities are found. It is also clarified that forces in nonequilibrium processes are measured in 3D-AFM measurements when the dynamics of polymers are slower than the scanning of the probe. Embargo Period 12 months / CC BY-NC-ND 4.0 金沢大学ナノ生命科学研究所 American Chemical Society 2022-06-09 2022-06-16 eng journal article VoR https://doi.org/10.24517/00066469 http://hdl.handle.net/2297/00066469 https://kanazawa-u.repo.nii.ac.jp/records/60218 10.24517/00066469 10.1021/acs.jpclett.2c01093 https://pubs.acs.org/doi/10.1021/acs.jpclett.2c01093 https://pubs.acs.org/doi/10.1021/acs.jpclett.2c01093 https://pubs.acs.org/journal/jpclcd https://pubs.acs.org/journal/jpclcd http://pubs.acs.org/ http://pubs.acs.org/ 1948-7185 Journal of Physical Chemistry Letters 13 23 5365 5371 https://kanazawa-u.repo.nii.ac.jp/record/60218/files/NA-PR-SUMIKAMA-T-2c01093.pdf application/pdf 5.4 MB 2023-06-10