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. 2011 Jun 22;100(12):2964–2973. doi: 10.1016/j.bpj.2011.05.010

Table 1.

Summary of simulations

Name Structure Type Ensemble Atoms Size (Å3) Time (ns)
PIC-eq PT, IQ, CaM EQ NPT/NVT 74,421 94 × 92 × 90 34
PIC-sr-1 PT, IQ, CaM SMD/RE NV/NVT 104,662 206 × 70 × 72 80
PIC-re-1 PT, IQ, CaM RE NVT 104,662 206 × 70 × 72 120
PIC-sr-2 PT, IQ, CaM SMD/RE NV/NVT 104,662 206 × 70 × 72 20
PIC-re-2 PT, IQ, CaM RE NVT 104,662 206 × 70 × 72 100
P-sr PT SMD/RE NV/NVT 83,840 180 × 70 × 70 100
P-re PT RE NVT 83,840 180 × 70 × 70 100

Under the column “Type,” the term “EQ” denotes an equilibrium molecular dynamics simulation, “SMD” denotes constant velocity (2 Å/ns) steered molecular dynamics simulations, and “RE” denotes relaxation simulations. The “Ensemble” column lists the variables held constant during the simulations; “N”, “V”, “P”, and “T” correspond to number of atoms, volume, pressure, and temperature, respectively. Movie S1, Movie S2, and Movie S3 depicting the simulations are provided in the Supporting Material.

Started from the end of simulation PIC-sr-1.

Started from the end of simulation PIC-sr-2.

Started from the end of simulation P-sr.