; Run parameters integrator = md nsteps = 5000000 ; 10 ns dt = 0.002 ; 2 fs ; Output control nstxout = 100 nstvout = 100 nstenergy = 100 nstlog = 100 ns_type = grid nstlist = 5 rlist = 1 rcoulomb = 1 rvdw = 1 ; Electrostatics coulombtype = PME pme_order = 4 fourierspacing = 0.15 ewald_rtol = 1e-05 optimize_fft = yes ; Temperature coupling is on tcoupl = V-rescale tc-grps = System tau_t = 0.1 ref_t = 298 pbc = xyz ; Method for doing Van der Waals vdw-type = Cut-off gen_vel = yes gen_temp = 298 gen_seed = -1 ; OPTIONS FOR BONDS constraints = all-bonds ; Type of constraint algorithm constraint-algorithm = Lincs ; Highest order in the expansion of the constraint coupling matrix lincs-order = 4. lincs-iter = 1 lincs-warnangle = 30 ; Electric fields E-z = 1 0.0000001 0 ;100 v/cm