<HTML><HEAD><META content="text/html; charset=x-user-defined" http-equiv="Content-Type"><style type="text/css"><!--.MailHeader { font-family: "Arial"; font-size: 8pt; color: #000000; font-style: normal; font-weight: normal; text-decoration: none; }//--></style></HEAD><BODY>Dear all,<br>
I have structure with defined Na ions in it. I have
a .pdb file of that structure and I want to convert it to .gro and .top
files. When I tried it on PRODRG website it gave me error that Na+ is
not supported. Then I defined all the atoms in .rtp file also Na. But
it's not working. What can I do for this? I have included "ions.itp"
file in the .top file. Do I need to delete the Na+ entry in the .top
file. I can't delete them from .gro file because their coordinates are
specified. What Should I do?<br>
Thanking you in advance.<br>
<br>
Rahul Karyappa<br>
NCL, India<br>
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