Table 8. Type of H-bond, β-Bend, and Thermodynamic Properties of Local Minima for the Zwitterionic Leu-EnK Optimized from the Structures Obtained by X-ray Diffraction, MD Simulation, and Molecular Docking at the DSD-PBEP86-D3BJ/def2-TZVP//M06-2X/6-31+G(d) Level of Theory in Watera.
| conf.b | H-bond typec | β-bendd | ΔEwe | ΔHwf | ΔGwg |
|---|---|---|---|---|---|
| LENKPH11 | 1 → 4, 4 → 1 | βI′23 | 5.75 | 5.22 | 4.55 |
| GEWWAG | 4 → 1, 5 → 2 | βI23, βI34 | 4.61 | 4.25 | 4.57 |
| BIXNIF10 | ext | 14.07 | 13.95 | 8.05 | |
| FABJEX | ext | 14.67 | 14.25 | 8.75 | |
| MD-AA1 | OH1 → 3, 2 → 5 | 4.58 | 5.11 | 5.91 | |
| MD-AA2 | OH1 → 4 | 7.71 | 7.79 | 3.90 | |
| MD-AA3 | OH1 → 4, 2 → 5, 3 → 5 | 3.47 | 4.08 | 3.60 | |
| Docking1 | 5 → 3 | 16.59 | 16.92 | 16.14 | |
| Docking2 | ext | 12.66 | 12.12 | 8.39 | |
| Docking2-c | ext | 18.93 | 15.70 | 13.22 |
Each H-bond type n → m stands for the H-bond between the H donor (e.g., the amide H atom for backbone) of the residue n and the H acceptor (e.g., the carbonyl O atom for backbone) of the residue m. In addition, OH1 represents the hydroxyl H atom of the side chain of the Tyr1 residue.
βI23 and βI′23 stand for the type I and I′ β-bend at the Gly2–Gly3 sequence, which are stabilized by the 4 → 1 H-bond. βI34 stands for the type I β-bend at the Gly3–Phe4 sequence, which is stabilized by the 5 → 2 H-bond.
Relative electronic energies in kcal mol–1.
Relative enthalpies in kcal mol–1 at 25 °C.
Relative Gibbs free energies in kcal mol–1 at 25 °C and 1 atm.