Table 1.
Molecular Composition and Basic Statistics of the Simulated Systems
Exp. | ff99SB | ff14SB | ff14ipq | C36 | ff14SB_solv | |
---|---|---|---|---|---|---|
Protein molecule | — | 12 | 12 | 12 | 12 | 1 |
Force field | Amber ff99SB | Amber ff14SB | Amber ff14ipq | Charmm 36 | Amber ff14SB | |
Solvent model | — | tip3p | tip4p‐ew | tip4p‐ew | tip3p | tip4p‐ew |
Water (H2O) | 55.5M | 3358 | 3358 | 3278 | 3268 | 9375 |
Acetate (CH3COO−) | 100 mM | 39 | 39 | 39 | 39 | ‐ |
Nitrate ( ) | 250 mM | 91 | 91 | 91 | 91 | ‐ |
Sodium (Na+) | 250 mM | 22 | 22 | 22 | 22 | 8(Cl‐) |
Total atoms | — | 34,265 | 34,265 | 34,025 | 33,995 | 39,468 |
Density (g/cm3) | 1.281 | 1.281 | 1.274 | 1.273 | 1.019 | |
Equilib. length (ns) | — | 176 | 176 | 196 | 196 | 28 |
Production length (ns) | — | 3000 | 3000 | 1000 | 1000 | 1000 |
Mean press. (bar) | 1 | 129 ± 323 | −25 ±322 | −22 ± 304 | 82 ± 310 | 0.8 ± 141 |
Mean trajectory RMSD (Å) | — | 0.75/1.27 | 0.65/1.15 | 0.76/1.25 | 0.78/1.37 | 0.95/1.47 |
Last line provides the mean instantaneous backbone atom/all heavy atom RMSD after optimal alignment to the deposited model as a reference over the course of each trajectory.