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. 2022 Jul 26;7(31):27755–27768. doi: 10.1021/acsomega.2c03942

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
a

Torsion angles (°) are listed in Table 3.

b

The definition of conformations are noted in footnotes be of Table 7.

c

Each H-bond type nm 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.

d

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.

e

Relative electronic energies in kcal mol–1.

f

Relative enthalpies in kcal mol–1 at 25 °C.

g

Relative Gibbs free energies in kcal mol–1 at 25 °C and 1 atm.