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(A) A 5-site two base pair elementary DNA unit where the central particle (green) approximates the pentose and base atoms of DNA and the four negatively charged particles (orange-red) are the phosphate groups at the positions of idealized B-form double helix. (B) Coarse-grained model of double helical DNA with bonds and angles set to maintain the B-form conformation (for details see the “DNA” section of Methods).
