I believe you need to use the 'parmed' command 'addpdb' to add the
original pdb information into the topology file. Then programs like
ambpdb and cpptraj will use the original pdb residue numbering.
-Dan
On Fri, Mar 24, 2017 at 10:15 AM, Thakur, Abhishek <axt651.miami.edu> wrote:
> Hi
>
>
> I don't know that it is correct platform to ask this question.
>
> I have done MD with amber and when I have made pdb file for complex it seems that amber has renumbered it.
>
> I want to know is there any way to renumber it again to the crystal structure reported? I need to add 11 to each residue number.
>
>
>
> Thanking you,
>
> -AT
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--
-------------------------
Daniel R. Roe
Laboratory of Computational Biology
National Institutes of Health, NHLBI
5635 Fishers Ln, Rm T900
Rockville MD, 20852
https://www.lobos.nih.gov/lcb
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Received on Fri Mar 24 2017 - 08:30:02 PDT
