[gmx-users] implicit solvent system set up

[E. Nihal Korkmaz]

Dear all,

This may sound stupid, but just to make sure that I am right track about
implicit solvent simulations, the set up involves
pdb2gmx
editconf
grompp

I mean, we still need to define the box dimensions by editconf and apply
periodicity, right?
Besides, what type of ensemble would be a good choice (NPT, NVT, etc)?

Best,

-- 
Elif Nihal Korkmaz

Research Assistant
University of Wisconsin - Biophysics
Member of Qiang Cui & Thomas Record Labs
1101 University Ave, Rm. 8359
Madison, WI 53706
Phone:  608-265-3644
Email:   korkmaz at wisc.edu
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