Positive and Negative Design in Stability and Thermal Adaptation of Natural Proteins
Figure 9
Scatter Plots Showing the Dependence of the Elements of the BLOSUM62 Substitution Matrix on Interaction Energies between Amino Acid Residues (Approximated by Miyazawa–Jernigan Parameters [22])
Only nonsynonymous substitutions are presented.
(A) A complete plot showing all 190 possible nonsynonymous pairs. Red lines represent parabolic fit to highlight nonmonotonic nature of the plot. R2 = 0.36, p < 10−4 for the fit and the coefficient at X2 is 0.18 ± 0.02. An alternative linear fit (unpublished data) is highly insignificant: R2 = 0.01, p = 0.89.
(B) Blowup of the right upper corner of (A) with amino acid pairs labeled.