Thanks Tsjerk! Looks like it is working!
Quoting Tsjerk Wassenaar <[email protected]>:
Hi Nisha,
For building you can also use pymol if you have it installed. On the
command line you can issue:
pymol -qcd
'editor.build_peptide("GGG");cmd.save("triglycine.pdb","not hydro")'
Hope it helps,
Tsjerk
On Mon, Mar 28, 2011 at 6:05 PM, <[email protected]> wrote:
Hello,
I want to simulate n-glycines (diglycine, triglycine..etc) I tried to get
the structure from PRODRG, but the program adds H's on the N-terminal
instead of on C- terminal. Is there another program I could use, or a site
where I could get the structure of oligoglycines? For example, diglycine
(NH2-CH2-CO-NH-CH2-COOH), but PRODRG gives me ((NH3-CH2-CO-NH-CH2-COO)
Thanks!
Nisha P
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Tsjerk A. Wassenaar, Ph.D.
post-doctoral researcher
Molecular Dynamics Group
* Groningen Institute for Biomolecular Research and Biotechnology
* Zernike Institute for Advanced Materials
University of Groningen
The Netherlands
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