Table 1. Structural Parameters of the Peptide.
Tt/Tra (K/K) | RMSDb (nm) | RMSFc (nm) | nHBPPd | nHBPWe | nHBWWf | rgyrg (nm) | H2Th (nm) | ncl.5%i | ncl.95%j |
---|---|---|---|---|---|---|---|---|---|
700/700 | 0.287 ± 0.001 | 0.29 ± 0.15 | 0.07 ± 0.03 | 9.43 ± 0.01 | 1.17 ± 0.04 | 0.599 ± 0.001 | 1.33 ± 0.01 | 0 | 2855 |
600/600 | 0.279 ± 0.002 | 0.28 ± 0.15 | 0.10 ± 0.04 | 9.90 ± 0.02 | 1.26 ± 0.05 | 0.599 ± 0.002 | 1.28 ± 0.01 | 0 | 1850 |
500/500 | 0.261 ± 0.002 | 0.28 ± 0.15 | 0.20 ± 0.07 | 10.40 ± 0.03 | 1.37 ± 0.05 | 0.561 ± 0.002 | 1.21 ± 0.01 | 0 | 742 |
400/400 | 0.243 ± 0.004 | 0.27 ± 0.14 | 0.36 ± 0.11 | 11.31 ± 0.04 | 1.52 ± 0.05 | 0.548 ± 0.002 | 1.16 ± 0.01 | 2 | 380 |
300/300 | 0.209 ± 0.008 | 0.24 ± 0.14 | 0.71 ± 0.14 | 12.38 ± 0.09 | 1.72 ± 0.06 | 0.526 ± 0.002 | 1.13 ± 0.02 | 4 | 80 |
300/400 | 0.203 ± 0.009 | 0.23 ± 0.13 | 0.84 ± 0.14 | 12.13 ± 0.10 | 1.61 ± 0.06 | 0.520 ± 0.002 | 1.11 ± 0.02 | 4 | 69 |
300/500 | 0.215 ± 0.010 | 0.25 ± 0.13 | 0.85 ± 0.16 | 11.85 ± 0.12 | 1.48 ± 0.08 | 0.520 ± 0.003 | 1.10 ± 0.02 | 5 | 72 |
300/600 | 0.186 ± 0.010 | 0.22 ± 0.12 | 1.25 ± 0.20 | 10.70 ± 0.11 | 1.35 ± 0.07 | 0.501 ± 0.002 | 1.04 ± 0.01 | 5 | 26 |
300/700 | 0.184 ± 0.012 | 0.22 ± 0.12 | 1.54 ± 0.22 | 10.09 ± 0.10 | 1.24 ± 0.07 | 0.493 ± 0.002 | 1.00 ± 0.02 | 5 | 26 |
Translational (Tt) and rotational (Tr) temperatures of the solvent during MD simulation.
Average trajectory root mean square deviation (RMSD) value compared to the experimentally determined peptide reference structure.24,25
Average trajectory root mean square fluctuations (RMSF) of the peptide backbone.
Average number of native structure-forming intrapeptide hydrogen bonds.
Average number of intermolecular hydrogen bonds between the peptide and water molecules.
Average number of intermolecular hydrogen bonds between the water molecules per molecule.
Average peptide radius of gyration.
Average head-to-tail distance of the peptide.
Number of peptide structural clusters that are stable for at least 5% of the simulation time.
Number of structural clusters that encompass 95% of the trajectory.