Table 13. Mean Absolute Errors of the Interaction Energies (kcal/mol) for the A24-CHNOF, S66, S66a8, JSCH-2005-CHNOF, S7L, and S30L-CHNOF Sets and of the Folding Enthalpies and Energies (kcal/mol) for the AF6 Set, Calculated at the Reference Geometries Using PM7 and OMx-Dn.
method |
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---|---|---|---|---|---|---|---|---|
OM2 |
OM3 |
|||||||
subset | N | PM7 | D2 | D3 | D3T | D2 | D3 | D3T |
A24-CHNOF | ||||||||
overall | 21 | 1.10 | 0.56 | 0.56 | 0.56 | 0.69 | 0.67 | 0.67 |
overall*a | 20 | 0.64 | 0.43 | 0.43 | 0.43 | 0.49 | 0.47 | 0.46 |
H-bonded | 5 | 2.66 | 1.39 | 1.40 | 1.40 | 1.36 | 1.32 | 1.32 |
H-bonded*a | 4 | 0.73 | 0.97 | 0.95 | 0.95 | 0.52 | 0.46 | 0.46 |
mixed | 10 | 0.49 | 0.19 | 0.17 | 0.17 | 0.41 | 0.34 | 0.34 |
dispersion | 6 | 0.84 | 0.47 | 0.52 | 0.52 | 0.61 | 0.67 | 0.67 |
S66 | ||||||||
overall | 66 | 0.79 | 1.02 | 0.82 | 0.85 | 1.05 | 0.82 | 0.81 |
electrostatic | 23 | 0.95 | 1.91 | 1.80 | 1.80 | 1.99 | 1.75 | 1.75 |
mixed | 20 | 0.71 | 0.39 | 0.26 | 0.27 | 0.64 | 0.37 | 0.39 |
dispersion | 23 | 0.70 | 0.68 | 0.32 | 0.39 | 0.45 | 0.27 | 0.23 |
S66a8 | ||||||||
overall | 528 | 0.78 | 0.77 | 0.60 | 0.61 | 0.80 | 0.62 | 0.60 |
electrostatic | 184 | 0.84 | 1.44 | 1.34 | 1.34 | 1.52 | 1.33 | 1.33 |
mixed | 160 | 0.60 | 0.32 | 0.22 | 0.22 | 0.48 | 0.26 | 0.26 |
dispersion | 184 | 0.86 | 0.50 | 0.20 | 0.21 | 0.36 | 0.22 | 0.18 |
JSCH-2005-CHNOF | ||||||||
overall | 134 | 1.93 | 2.27 | 1.72 | 1.81 | 1.86 | 1.33 | 1.37 |
overall*b | 128 | 1.83 | 2.07 | 1.52 | 1.61 | 1.62 | 1.10 | 1.13 |
H-bonded base pairs | 31 | 2.62 | 3.50 | 3.11 | 3.05 | 3.12 | 2.53 | 2.47 |
interstrand base pairs | 32 | 2.46 | 0.99 | 0.72 | 0.72 | 0.90 | 0.70 | 0.70 |
stacked base pairs | 54 | 1.15 | 2.11 | 1.25 | 1.50 | 1.32 | 0.64 | 0.75 |
amino acid pairs | 17 | 2.19 | 2.95 | 2.51 | 2.55 | 3.08 | 2.56 | 2.62 |
amino acid pairs*b | 11 | 1.17 | 1.01 | 0.65 | 0.65 | 0.96 | 0.49 | 0.52 |
S7L | ||||||||
overall | 7 | 4.91 | 3.19 | 2.25 | 2.38 | 1.97 | 0.66 | 0.79 |
π–π | 5 | 4.79 | 4.39 | 2.05 | 2.72 | 2.63 | 0.29 | 0.95 |
S30L-CHNOF | ||||||||
overall | 24 | 15.44 | 6.69 | 5.32 | 5.01 | 4.90 | 4.36 | 3.59 |
π–π stacking | 7 | 18.54 | 6.13 | 3.58 | 3.04 | 4.20 | 5.08 | 3.17 |
H-bondedc | 8 | 13.17 | 6.93 | 6.95 | 6.49 | 5.84 | 4.49 | 4.62 |
charged complexesc | 8 | 21.76 | 9.55 | 9.46 | 8.41 | 5.71 | 6.38 | 4.56 |
AF6 | ||||||||
folding enthalpies | 6 | 1.18 | 0.20 | 0.45 | 0.34 | 0.79 | 0.76 | 1.00 |
folding energies | 6 | 1.05 | 0.18 | 0.44 | 0.34 | 0.96 | 0.93 | 1.17 |
Without the HF···HF complex, see text.
Without the complexes of charged amino acids, see text.
Two complexes correspond to both H-bonded and charged complexes subsets; see ref (49).