I am working on the simulation of Protein - ligand complex for which I have generated pdb file. But while simulating it I am getting errors.
Could you tell what's the error? Refer the tutorial
http://www.mdtutorials.com/gmx/complex/01_pdb2gmx.html
Define force field parameters for the ligand.
You need to add topology and atom coordinates of your ligand. This addtional step depends on the force field used. More details could be found here: http://www.mdtutorials.com/gmx/complex/02_topology.html
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