Re: [AMBER] Converting rst to pdb

From: Hai Nguyen <>
Date: Tue, 9 Aug 2016 17:09:46 -0400

On Tue, Aug 9, 2016 at 5:01 PM, Corum, Katharine W <> wrote:

> Hi again,
> I would like to convert my .rst file to a pdb file. I went through some of
> the archived emails and found many old emails with the same commands but
> they did not work for me. I am using Amber16 and AmberTools16. I first
> tried ambpdb.
> <>
> $AMBERHOME/bin/ambpdb -p cram.prmtop <min_qmmm.rst> min_qmmm.rst.pdb
> Error: Could not read restart atoms/time.
it's likely that your file was corrupted. Can you reproduce the tutorial
command with its files?

> Next I tried the cpptraj command and also received an error.
> $AMBERHOME/bin/cpptraj -p cram.prmtop -y min_qmmm.rst -x min_qmmm.rst.pdb
> /home/katie/Documents/software/amber/amber16/bin/cpptraj: error while
> loading shared libraries: cannot open shared object file: No
> such file or directory
 Did you *soure* after install?

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Received on Tue Aug 09 2016 - 14:30:03 PDT
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