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. 2020 Mar 31;48(9):5135–5146. doi: 10.1093/nar/gkaa200

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© The Author(s) 2020. Published by Oxford University Press on behalf of Nucleic Acids Research.

This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0/), which permits non-commercial re-use, distribution, and reproduction in any medium, provided the original work is properly cited. For commercial re-use, please contact journals.permissions@oup.com

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Figure 4. — Structural relaxation of curved and twisted DNA origami objects. (A) Structures with programmed bends as characterized by TEM in Ref. 56 (top row) and reconstructed at atomic resolution using mrdna (bottom row). From left-to-right, the structures were designed to have a bend of 0°, 60°, 120° and 180°. (B) Bend angle timeseries during 5-bp/bead mrdna relaxation of the structures shown in panel A starting from an initial configuration of a straight rod. Dashed lines depict the target angles. (C) Dependence of the twist angle on the helical rise imposed by crossovers for honeycomb brick origami structures (56) in 5-bp/bead mrdna simulations and as measured using TEM (56). (D) All-atom models of brick origami structures (left, top and bottom) resulting from mrdna simulations starting from an idealized configuration (left, center). The right column shows the corresponding TEM images. (E) Gear nanostructure (56) before (top; 5 bp/bead) and after (center; atomistic) an mrdna simulation. The gear is depicted using a bead-and-stick representation. The bottom panel depicts the corresponding TEM image. (F) Flask nanostructure (57) before (top; 5 bp/bead) and after (center; atomistic) an mrdna simulation. The top panel shows a bead-and-stick representation including long bonds that span the structure. All TEM images were reproduced from Ref. 56 with permission.