You could look at tutorials for building new residues/molecules, and/or
look for pdb files on the net.
E.g. you could sketch one in xleap, edit the atoms and assign types from
some previous paper, loading the params in a frcmod file (read a
tutorial if this doesn't make sense). That would let you use the
molecule in Amber, but for random placement you would need other
software, and Packmol might do it, find it on the web.
Bill
On 8/23/2015 7:08 AM, mohammad roostaie wrote:
> Hi;
>
> I want to add DOPC lipid molecules randomly to my water-peptide system, but
> I don't know how to do it. I don't have the pdb file of lipid. What should
> I do first?
>
> Thanks, Mohammad.
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Received on Sun Aug 23 2015 - 14:30:04 PDT
