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. 2020 Oct 13;27(10):1495–1508. doi: 10.1089/cmb.2020.0120

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© Robert C. Penner, 2020; Published by Mary Ann Liebert, Inc.

This Open Access article is distributed under the terms of the Creative Commons Attribution Noncommercial License (http://creativecommons.org/licenses/by-nc/4.0/) which permits any noncommercial use, distribution, and reproduction in any medium, provided the original author(s) and the source are cited.

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FIG. 1. — Two peptide groups, P_i, P_j, are depicted on the left, participating in a hydrogen bond with donor P_i and acceptor P_j. The planes of these peptide groups are illustrated in gray. There is a unique 3d rotation $A_{P_{i}}$ carrying the (oriented) xz plane to the gray plane for P_i and sending the positive x-axis to the ray $\vec{C_{i} N_{i + 1}}$ , and likewise $A_{P_{j}}$ for P_j. The composition $A_{P_{i}}^{- 1} A_{P_{j}}$ illustrated on the right is the rotation in SO(3) associated to the pair P_i, P_j. See Section 5.2. for details.