Amino‐Acid Properties and Consequences of Substitutions

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3D deep convolutional neural networks for amino acid environment similarity analysis (2017, background): “Instead, serine, threonine, and alanine are substituted for one another frequently by our 3DCNN, likely due to their small sizes [52].”
Predict impact of single amino acid change upon protein structure (2012, background): “We considered six different structural and biochemical propensities: mass, volume [26], hydrophobicity [27], C-beta branching [28], helix breaker (only proline) and electric charge of side chain.”
Deep learning improves antimicrobial peptide recognition (2018, background): “Tryptophan (W), slightly separated on the right, has a preference for hydrophobic cores and a bulky indole side chain that is involved in aromatic stacking interactions (Betts and Russell, 2003).”