TABLE 1.
Comparison of Dipole Moments for Extended Conformations of Ac–X–NHMe in the Training Set Computed by the B3LYP, EPAC, and GDAC Methodsa
X | confb | μB3LYPc | d | Δe | μEPACf | Δg | μGDACh | Δi |
---|---|---|---|---|---|---|---|---|
Ala | E | 2.92 | 2.97 | 0.05 | 2.95 | 0.03 | 2.41 | 0.51 |
Val | Eg+g+ | 2.76 | 2.62 | 0.14 | 2.75 | 0.00 | 2.28 | 0.47 |
Leu | Eg−t | 2.27 | 2.46 | 0.19 | 2.72 | 0.45 | 2.14 | 0.14 |
Ile | Ett | 2.79 | 2.71 | 0.08 | 2.76 | 0.03 | 2.32 | 0.46 |
Gly | E | 3.25 | 3.13 | 0.12 | 3.18 | 0.07 | 2.62 | 0.62 |
Pro | tCdj | 2.65 | 3.06 | 0.41 | 2.80 | 0.14 | 2.78 | 0.13 |
Cys | Etg+ | 1.72 | 2.52 | 0.80 | 2.55 | 0.83 | 1.32 | 0.39 |
Met | Etg+ | 1.17 | 2.05 | 0.88 | 2.33 | 1.17 | 0.99 | 0.18 |
His(δ)k | Etg+ | 2.74 | 2.39 | 0.35 | 2.24 | 0.50 | 2.25 | 0.48 |
His(ε)k,l | Etg− | 4.55 | 3.83 | 0.72 | 3.55 | 1.00 | 3.29 | 1.25 |
Phe | Etg+ | 2.71 | 2.75 | 0.03 | 2.68 | 0.03 | 2.21 | 0.50 |
Tyr | Eg+g+ | 1.62 | 2.23 | 0.61 | 2.31 | 0.69 | 1.37 | 0.24 |
Trp | Etg− | 4.24 | 2.69 | 1.55 | 2.60 | 1.64 | 3.98 | 0.25 |
Asn | Etg− | 0.82 | 0.84 | 0.02 | 0.77 | 0.05 | 0.97 | 0.14 |
Gln | Eg−g− | 2.88 | 2.87 | 0.01 | 2.51 | 0.37 | 2.39 | 0.49 |
Ser | Etg+ | 1.68 | 1.36 | 0.33 | 1.48 | 0.20 | 1.32 | 0.37 |
Thr | Etg+ | 1.69 | 1.44 | 0.25 | 1.30 | 0.39 | 1.27 | 0.43 |
Lys | Eg+t | 3.99 | 3.98 | 0.01 | 3.97 | 0.02 | 3.61 | 0.38 |
Arg | Etg+ | 5.85 | 4.59 | 1.27 | 4.52 | 1.33 | 4.82 | 1.04 |
Asp | Etc | 2.60 | 2.25 | 0.36 | 2.56 | 0.04 | 2.05 | 0.55 |
Glu | Eg−g− | 2.32 | 2.19 | 0.14 | 2.25 | 0.07 | 1.81 | 0.52 |
Lys+l | Eg−g− | 11.08 | 10.90 | 0.18 | 11.12 | 0.04 | 16.52 | 5.44 |
Arg+l | Eg−g− | 11.99 | 11.43 | 0.56 | 12.37 | 0.38 | 19.90 | 7.91 |
His+l | Eg−g+ | 9.61 | 8.58 | 1.02 | 9.72 | 0.11 | 12.69 | 3.08 |
Asp−l | Ett | 8.70 | 7.98 | 0.72 | 8.76 | 0.06 | 12.57 | 3.88 |
Glu−l | Etg+ | 9.41 | 8.79 | 0.63 | 9.65 | 0.24 | 13.92 | 4.50 |
0.44m | 0.38m | 1.32m | ||||||
0.60n | 0.59n | 2.34n |
Units in Debyes. The 26 representative residues of the training set are listed in Table S4 of the Supporting Information.
Conformational letter codes. Each code represents the backbone expressed by a capital letter depending on its torsion angles Ф and ψ, and two side-chain torsion angles χ1 and χ2. See the text for definition of torsion angles.38,39
Dipole moments calculated directly at the B3LYP/6-31G(d,p)//HF/6-31G(d,p) level.
Dipole moments calculated from atomic charges obtained at the B3LYP/6-31G(d,p)//HF/6-31G(d,p) level.
Absolute differences between and μB3LYP values.
Dipole moments calculated by the EPAC method.
Absolute differences between μEPAC and μB3LYP values.
Dipole moments calculated by the GDAC method of Cho et al.23
Absolute differences between μGDAC and μB3LYP values.
Pro with the trans prolyl peptide bond and the down puckering.
His(δ) and His(ε) are isomers of the His residue depending on its protonation at Nδ and Nε, respectively.
Initial atomic charges were obtained by a trial-and-error procedure starting from the corresponding values in ref 23 to reproduce the B3LYP/6-31G(d,p) atomic charges for only these residues; see Figure S1 of the Supporting Information.
Mean values over all residues.
Rms deviations over all residues.