You could shift the reference angle by pi, which changes the sign of the cosine.
Best,
Erik
15 nov 2012 kl. 14.25 skrev Laura Leay:
> All,
>
> I would like to parameterise the Dreiding force field for use with Gromacs.
> One thing I am not sure about is how to parameterise the dihedrals
>
> The Dreiding paper has the form;
>
> E= 0.5k { 1 - cos[ n( phi - phi_o)]}
>
> However I cannot find this form in the Gromacs manual. The closest I can find
> in the Gromacs manual is:
>
> E = k [ 1 + cos(n*phi - phi_s) ]
>
>
> Does anyone know of a way to use the Dreiding form in Gromacs, or to convert
> to a form that is more suitable for use with Gromacs?
>
> Many thanks,
> Laura
> --
> gmx-users mailing list [email protected]
> http://lists.gromacs.org/mailman/listinfo/gmx-users
> * Please search the archive at
> http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
> * Please don't post (un)subscribe requests to the list. Use the
> www interface or send it to [email protected].
> * Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
-----------------------------------------------
Erik Marklund, PhD
Dept. of Cell and Molecular Biology, Uppsala University.
Husargatan 3, Box 596, 75124 Uppsala, Sweden
phone: +46 18 471 6688 fax: +46 18 511 755
[email protected]
http://www2.icm.uu.se/molbio/elflab/index.html
--
gmx-users mailing list [email protected]
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use the
www interface or send it to [email protected].
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
