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Updated: Mar 2, 2026

Self-assembly of Complex Two-dimensional Shapes from Single-stranded DNA Tiles
Published on: May 8, 2015
A new theoretical approach to biological self-assembly
1Institute of Advanced Energy, Kyoto University, Uji, Kyoto, 611-0011, Japan. kinoshit@iae.kyoto-u.ac.jp.
Abstract:
Upon biological self-assembly, the number of accessible translational configurations of water in the system increases considerably, leading to a large gain in water entropy. It is important to calculate the solvation entropy of a biomolecule with a prescribed structure by accounting for the change in water-water correlations caused by solute insertion. Modeling water as a dielectric continuum is not capable of capturing the physical essence of the water entropy effect. As a reliable tool, we propose a hybrid of the angle-dependent integral equation theory combined with a multipolar water model and a morphometric approach. Using our methods wherein the water entropy effect is treated as the key factor, we can elucidate a variety of processes such as protein folding, cold, pressure, and heat denaturating of a protein, molecular recognition, ordered association of proteins such as amyloid fibril formation, and functioning of ATP-driven proteins.
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