[gmx-users] Visualize Protein ligand complex

Sainitin Donakonda saigro16 at gmail.com
Thu Jun 27 16:48:36 CEST 2013


I simulated protein ligand complex for 20 ns  now i want to visualize this
complex after simulation in pymol.To look ligand interactions with protein
binding site

I tried trjconv to convert .xtc trajectory to .pdb but xtc file is too huge
with solvent molecules so pymol couldnot visualize complex

Can anybody tell me command how to visualize protein ligand complex
trajectory in pymol


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