VMD-L Mailing List

From: Leandro Martínez (leandromartinez98_at_gmail.com)
Date: Mon Feb 12 2007 - 12:39:29 CST

This problem is quite well studied, several packages are available
for doing that. See for, example, LovoAlign, DALI,
Combinatorial Extension, for example.
All of them have on-line servers which you can find with google.
Leandro.

On 2/12/07, JC Gumbart <gumbart_at_ks.uiuc.edu> wrote:
>
> No, it doesn't, and I am not sure if such a problem is well-defined
> even. Your best bet would be to make selections of a certain subset
> of relevant atoms of the same number and then align based on those.
>
> On Feb 12, 2007, at 11:53 AM, namd vmd wrote:
>
> > Does VMD allow structural alignment of two proteins with different
> > number of residues ?
>
>