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. 2023 Sep 6;14:5478. doi: 10.1038/s41467-023-41237-2

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© This is a U.S. Government work and not under copyright protection in the US; foreign copyright protection may apply 2023

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Fig. 2 — A An MSA suitable for coevolutionary analysis is pruned by the identity of its sequences to the query sequence (yellow), removing distantly related sequences from the dataset and generating subfamily-specific MSAs. B Each MSA (original + all pruned) is used as input for coevolutionary analysis. C Predictions from all MSAs are superimposed on a single contact map. D A clustering algorithm filters noise, leaving dense clusters of predicted amino acid contacts. Contacts unique to the dominant/alternative folds are light gray/black; common contacts are light gray; experimentally consistent predictions are teal circles; incorrect predictions (noise) are translucent teal diamonds. Figure 1 provides an explanation of the dual-fold contact maps used here. Source data are provided as a Source Data file.