[gmx-users] PRODRG

[Negar Parvizi]

Dear all users,

I am using Protein-Ligand Complex tutorial (Justin Lemkul tutorial). For making .pdb file of ligand, we should use PRODRG(draw molecule with JME Editor).
 Here is my question that when i draw my ligand in JME Editor, which conformer should i select ? because different conformer gives different PRODRG output files.

Thanks in advance,
N.Parvizi