[gmx-users] How to view evolution of secondary structure in a trajectory?

[ms]

On 16/06/10 19:07, Chris Neale wrote:
> http://www.ks.uiuc.edu/Research/vmd/script_library/scripts/sscache/

Thanks a lot! I'll give it a spin ASAP.

cheers,
m.

> -- original message --
>
> Hi,
>
> I am trying -with no avail- to have a way to view a movie of a GROMACS
> trajectory with the secondary structure being updated automatically
> frame by frame (that is, changing colour and/or appearance accordingly
> during the trajectory).
>
> If I view the trajectory with VMD, even if I turn on "Update colour
> every frame", the secondary structure is always that of the frame where
> I turn its colour on first. With PyMol, it would require secondary
> structure within the PDB, but I've found no way to include, say, DSSP
> information within the PDB frames (I've googled and seen a few scripts
> linked, but links seem dead).
>
> Do you have any hint on where to look for this?
> thanks!
> m.
>
>