[gmx-users] How can I reconstruct the system in CGMD simulation?

rasoul nasiri nasiri1355 at gmail.com
Thu Dec 17 12:00:36 CET 2009

greetings GMX users,

When I use genbox command for filling solvent in CGMD simulation with
Gromacs suit, I must use a larger van der Waals distance to avoid crashes.
when I use default value (0.105nm), system will crash. Which distance is
suitable for performing CGMD simulation. I used  0.15 or 0.2nm as distances.
Are those OK? I have to switch back to the smaller radius afterward, Is it
correct? if yes, How can I do it? I tried with editconf but could not.

Best regards,
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