From: Asfa Ali <>
Date: Fri, 5 Mar 2010 10:54:15 +0530


Ya, I have tried using leaprc.rna.ff99. I want to simulate RNA quadruplex
structure which is a pure RNA and involves no protein.

When I am loading the pdb,after creating new atoms, it is showing :

*Leap added all 52 missing atoms according to residue templates,
                       52 H/ lone pairs

The file contained 52 atoms not in residue templates
Since added/missing = extra, there is a high probabilty of atoms
with 'incorrect' names; you want to
use addPdbAtomMap to map these names or change in files

*But the atoms should be there in leaprc.rna.ff99. How to solve this?

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Received on Thu Mar 04 2010 - 21:30:02 PST
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