Hello, I have ran a md simulation of a amino-acid with solvent mixture. Now i view the trajectory in vmd and see tht the amino-acid moves sometimes toward the edge of the box,sometimes towards the corners and so on... Now how can i centre only the amino-acid to the centre of the box and rest (ie.,solvent mixture) to move as it is..ie., if i view the trajectory in vmd i want to fix only the amino-acid to be in centre,whereas the solvent mixtures to move around during the trajectory... How can i do this,...??
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