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Table 3 List of predicted mutations for the bacteriophage T4 lysozyme (PDB ID: 2LZM)

From: Proteus: An algorithm for proposing stabilizing mutation pairs based on interactions observed in known protein 3D structures

Predicted Experimental
Mutations suggested Template ΔΔGp Mutation validated ΔΔGea Source
PDB/chain R1 R2
S44K/K48N 3lk4-W K237 N241 − 0.432 S44K − 0.2 [25]
K147E/T151Y 3ub9-A E48 Y52 −0.415 K147E −0.1 [26]
N40R/S44W 1w35-A R163 W167 − 0.41 S44W − 0.05 [25]
S44Q/K48Y 1c27-A Q130 Y134 −0.201 S44Q −0.27 [25]
  1. Mutations predicted by Proteus (left). Mutations with experimental evidence (right). R1: first amino acid residue from the template where the mutation pair was extracted; R2: second amino acid residue from the template where the mutation pair was extracted; ΔΔG: Gibbs free energy variation (ΔΔGp: predicted; ΔΔGe: experimental). The predicted mutations are available at http://proteus.dcc.ufmg.br/result/id/SYLX52 (details were included in the supplementary material: Tables S6 and S11). a ΔΔGe was multiplied for − 1 because of ProTherm uses a different ΔΔG definition when compared to MAESTRO. ProTherm considers positive values of ΔΔG as stabilizing, while MAESTRO considers negative values of ΔΔG as stabilizing. While one of them uses ΔG = Gfolded-Gunfolded, the other uses ΔG = Gunfolded-Gfolded