[gmx-users] topology for c-alpha protein model

[Diego Nolasco]

After pdb2gmx of the whole structure, make an index file and them run
another pdb2gmx choosing the c-alpha group. I hope it helps.

2008/6/20, Lillian Chong <ltchong42 at gmail.com>:
>
> Dear Gromacs Users,
>
> I would like to generate a topology for a protein in which each
> residue is represented only by its C-alpha atom (a Go-type model).
> What would be the most straightforward way of creating this topology
> file?
>
> Thanks in advance,
> Lillian
> _______________________________________________
> gmx-users mailing list    gmx-users at gromacs.org
> http://www.gromacs.org/mailman/listinfo/gmx-users
> Please search the archive at http://www.gromacs.org/search before posting!
> Please don't post (un)subscribe requests to the list. Use the
> www interface or send it to gmx-users-request at gromacs.org.
> Can't post? Read http://www.gromacs.org/mailing_lists/users.php
>
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://maillist.sys.kth.se/pipermail/gromacs.org_gmx-users/attachments/20080620/7f6a699e/attachment.html>