Table 2. Performance of MD Simulations Including gHBfix Termsa.
system | software | no gHBfix | gHBfix19 | gHBfixopt |
---|---|---|---|---|
CAAU (REST2) | AMBER18 | 712 ns/day | 682 ns/day | 682 ns/day |
gcUUCGgc (ST-MetaD) | GROMACS + PLUMED | 358 ns/day | 355 ns/day | 325 ns/day |
AMBER18 simulations were performed using a single core of an Intel(R) Xeon(R) E5-2620 2.10 GHz processor and a NVidia GeForce RTX 2080 Ti card per replica. GROMACS + PLUMED simulations were performed using 8 cores of an Intel(R) Xeon(R) Gold 6130 2.10 GHz processor and a NVidia GeForce GTX1080ti card per replica.