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. 2022 Nov 11;20:6120–6137. doi: 10.1016/j.csbj.2022.11.007

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© 2022 The Authors. Published by Elsevier B.V. on behalf of Research Network of Computational and Structural Biotechnology.

This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).

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Fig. 6 — Base pair prediction for 70S ribosome (PDB 6CAE, chain 1Y) by (A) CentroidAlifold [PR = 95, SN = 67], (B) SPOT-RNA [PR = 93, SN = 83], and (C) SPOT-RNA2 [PR = 94, SN = 97], compared to (D) the native as labelled. All false positives are shown in red. Tertiary base pairs (noncanonical base pairs in orange and pseudoknots in green) are the most visible improvement from the traditional folding algorithm (CentroidAlifold, limited to canonical base pairs in blue) to SPOT-RNA without evolution information and SPOT-RNA2 with evolution information. Copyright (2021) Oxford University Press.