[gmx-users] Translation motion during MD
meetnahren at yahoo.com
Thu Nov 11 15:48:12 CET 2010
Dear Gromacs Users,
I am simulating a Membrane protein, the extracellular domain alone (since the structure of only extracellular domain is solved). So I will have to simulate the protein in such a way that only the translational motion is allowed but the rotational motions are prevented (which would mimic the behavior of the protein attached to the membrane).
The protein is expected to former dimer and multimers on the cell surface, so I want to restrict motion only to 2D. This would give an idea as to how the protein clusters on the membrane surface (studying this multimerization looks too ambitious, but want to make an attempt).
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