energy drift in NVE

From: Victor Ovchinnikov (ovchinnv_at_MIT.EDU)
Date: Sun Aug 19 2007 - 15:21:22 CDT

Dear all

I my NVE simulations of a solvated protein system done at 298K (about
110,000 atoms), the temperature increases by 4 degrees over 12 ns; K.E.
increases by 700 kcal/mol; total energy increases by 2200 kcal/mol;

a snippet from my script is at the end of this message;

1)The integrator used in NAMD is Verlet, which is energy conservative,
correct?
2)How is the total energy expected to vary in practice?
3)Is conservation affected by rattle/shake,
4)Is conservation affected by Timestep splitting?
5) Which of the script parameters could affect stability the most in
this case (dt, stepspercycle, fullElectFrequency) ?
 
Thanks for any feedback,
Victor

This archive was generated by hypermail 2.1.6 : Wed Feb 29 2012 - 15:45:07 CST