From: Ajasja Ljubetič (ajasja.ljubetic_at_gmail.com)
Date: Mon Nov 02 2015 - 16:14:28 CST
You can use VMD's Molefacture plugin
<http://www.ks.uiuc.edu/Research/vmd/plugins/molefacture/> (in particular
the build->protein builder).
I also have good experience with chimera <https://www.cgl.ucsf.edu/chimera/>'s
All the best,
On 2 November 2015 at 22:22, Jessen Lucas <jessenlucas0_at_gmail.com> wrote:
> Dear NAMD users,
> I was reading NAMD Stretching Deca-alanine Tutorial
> and I was curious about how to generate 10 ALA pdb and psf and par files,
> it gives directly. and in my opinion, at least I should have pdb file of 10
> ALA, but how I could get that? I could not find 10ALA in PDB website.
> And also I found that if I use CHAMm to generate 10 ala, the 104 atoms is
> different with 104 atoms provided in NAMD tutorial (maybe last 9 atoms are
> Could anybody help me? is there any setup file and pdb file?
> Best regards,
> J. Lucas
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