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Blocks are the selected portions of amino acids. They have been used effectively to represent amino acids in distinguishing the native conformation from the decoys. Although many statistical energy functions exist, most of them rely on the distances between two or more amino acids. In this study, the authors have developed a pairwise energy function “DOKB” that is both distance and orientation dependent,...
The accuracy of the secondary structure element (SSE) identification from volumetric protein density maps is critical for de‐novo backbone structure derivation in electron cryo‐microscopy (cryoEM). It is still challenging to detect the SSE automatically and accurately from the density maps at medium resolutions (∼5–10 Å). We present a machine learning approach, SSELearner, to automatically identify...
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