temperature 300.0 firststep 0 numsteps 100 cellsize 10.0 outputfreq 1 restartfreq 10 seed 1234 posfile bpti.pdb psffile bpti.psf parfile bpti.par usecharmm28parfile no finpdbposfile bpti.out.pos.pdb finpdbvelfile bpti.out.vel.pdb #dcdfile bpti.out.dcd allenergiesfile bpti.out.energy restartfile bpti.out boundaryConditions Normal cellManager Cubic Integrator { level 0 Leapfrog { timestep 1 force Improper force Dihedral force Bond force Angle force Coulomb -algorithm NonbondedCutoff -switchingFunction C1 -cutoff 10.0 force LennardJones -algorithm NonbondedCutoff -switchingFunction C2 -cutoff 10.0 -switchon 0.1 } }