Dear Vitaly:
1. No problem at all in vacuo? That with a 1 fs timestep and the sd
integrator? Strange then that your molecule is ok and the water is ok,
but they are unstable together. Perhaps your'e not getting any LJ
interactions (or not correct ones) between your solute and water? That's
where I would focus my efforts if I was you. I suppose it could also be
solute-solute LJ problems...
2. Certainly not. You can't simply remove parameters just because it
crashes when you have them.
-- original message --
> 1. put a single solute in a large vacuum box and use the sd
> integrator. Can you reproduce the problem?
No problem in vacuo found.
> 2. Remove the dihedral parameters entirely. Can you reproduce the
problem?
The problem appeared between carbon and hydrogen 1-4 atoms... Would
you advise to remove them from [pairs] section?
Vitaly
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