Table 1. Differences in the Molecular Mechanics (MM) Energy Components for 628 Conformations of Various Dipeptides after Optimization by MM or MP2/6-31++Ga.
dipeptide | bond | angle | 1–4 LJ | 1–4 elec | other LJ | other elec | bonded sumb | nonbonded sumc |
---|---|---|---|---|---|---|---|---|
Ash | 2.99 ± 0.34 | 0.66 ± 0.98 | 0.96 ± 0.17 | 2.20 ± 1.25 | 0.28 ± 0.41 | –1.88 ± 1.00 | 3.65 ± 1.15 | 1.57 ± 1.06 |
Asn | 2.08 ± 0.45 | 0.56 ± 0.90 | 0.93 ± 0.15 | 4.16 ± 1.28 | 0.24 ± 0.40 | –2.88 ± 1.25 | 2.64 ± 2.06 | 2.45 ± 1.01 |
Asp | 1.92 ± 0.38 | 1.08 ± 0.55 | 0.88 ± 0.16 | 2.60 ± 1.01 | 0.58 ± 0.34 | –1.98 ± 1.16 | 3.00 ± 0.65 | 2.08 ± 0.48 |
Cys | 1.63 ± 0.24 | 1.46 ± 0.77 | 0.46 ± 0.26 | 2.71 ± 0.89 | 0.43 ± 0.14 | –2.45 ± 0.80 | 3.09 ± 0.83 | 1.15 ± 0.44 |
Hid | 3.21 ± 0.33 | 3.02 ± 1.03 | 0.83 ± 0.17 | 2.27 ± 0.81 | 0.24 ± 0.31 | –2.06 ± 0.75 | 6.23 ± 1.05 | 1.28 ± 0.53 |
Hie | 2.93 ± 0.26 | 2.62 ± 1.04 | 0.92 ± 0.17 | 2.71 ± 0.79 | 0.34 ± 0.31 | –2.32 ± 0.75 | 5.55 ± 1.05 | 1.65 ± 0.47 |
Hip | 3.17 ± 0.45 | 2.99 ± 1.17 | 1.10 ± 0.16 | 3.43 ± 0.95 | 0.70 ± 0.46 | –2.61 ± 0.90 | 6.16 ± 1.42 | 2.61 ± 1.06 |
Ile | 1.36 ± 0.29 | 0.89 ± 0.61 | 0.89 ± 0.17 | 2.20 ± 0.62 | 0.62 ± 0.58 | –2.04 ± 0.49 | 2.25 ± 0.70 | 1.67 ± 0.72 |
Leu | 1.47 ± 0.30 | 1.13 ± 0.59 | 0.64 ± 0.14 | 3.23 ± 0.89 | 0.31 ± 0.45 | –2.78 ± 0.73 | 2.60 ± 0.70 | 1.40 ± 0.56 |
Phe | 1.77 ± 0.26 | 0.92 ± 0.69 | 1.73 ± 0.18 | 2.34 ± 0.76 | 0.45 ± 0.52 | –2.21 ± 0.65 | 2.69 ± 0.76 | 2.32 ± 0.62 |
Ser | 1.59 ± 0.26 | 0.48 ± 0.33 | 0.95 ± 0.36 | 2.04 ± 0.73 | 0.49 ± 0.09 | –1.83 ± 0.67 | 2.07 ± 0.42 | 1.64 ± 0.49 |
Thr | 1.59 ± 0.27 | 0.46 ± 0.33 | 0.99 ± 0.42 | 2.84 ± 0.99 | 0.47 ± 0.12 | –2.30 ± 0.86 | 2.05 ± 0.43 | 2.00 ± 0.63 |
Trp | 2.39 ± 0.28 | 2.85 ± 1.02 | 1.64 ± 0.19 | 2.64 ± 0.78 | 0.48 ± 0.80 | –2.31 ± 0.79 | 5.24 ± 1.07 | 2.44 ± 0.81 |
Tyr | 2.16 ± 0.26 | 1.36 ± 0.70 | 1.88 ± 0.18 | 2.37 ± 0.76 | 0.43 ± 0.59 | –2.39 ± 0.66 | 3.52 ± 0.79 | 2.29 ± 0.70 |
Val | 1.42 ± 0.25 | 0.75 ± 0.25 | 0.70 ± 0.13 | 2.71 ± 0.54 | 0.40 ± 0.12 | –2.32 ± 0.46 | 2.17 ± 0.30 | 1.48 ± 0.28 |
Each difference is given as an average ± standard deviation, in kcal/mol.
Includes bond and angle contributions.
Includes Lennard–Jones (LJ) and electrostatic (elec) contributions.