On Mon, Aug 08, 2011, manikanthan bhavaraju wrote:
> I am trying to prepare prmtop and inpcrd files for uncomplex DNA-22mer using
> xleap of amber10. I have downloaded the pdb file from the protein data bank
> and made required modification. Still xleap is unable to save the files, as
> it is complaining about the atom type. Attached is the modified pdb
> file. I never handled DNA stuff with amber any suggestions.
You file works fine for me. Did you use leaprc.ff10? Here were my commands:
tleap -f leaprc.ff10
x = loadpdb DNA_aptamer.pdb
saveAmberParm x prmtop inpcrd
....dac
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Received on Fri Aug 12 2011 - 07:00:04 PDT
