Jason (or someone else),

Is there way in pymol to look for the following angle in a structure φ=-49o and ψ=-26? Which is the definition of a 310 helix. And yes we'd have to search for a few degrees plus of minus of those angles. They should all appear in tight turns and last for about 3 or 4 amino acids (I don't think there wouldn't be any cartoon helix shown).

I don't think there are any pdbs yet that contain pi helices (because of the loose packing and steric hindrance of the side chains), does anyone know of any?

Thanks 

Adam

On Apr 6, 2011, at 8:16 AM, Jason Vertrees wrote:

Hi Ramiro,

PyMOL doesn't differentiate helices, so it cannot color them
differently.  If you had the residue labels from some other program
you could read them in and then color by type.

Cheers,

-- Jason

On Wed, Apr 6, 2011 at 5:22 AM, Ramiro Téllez Sanz <urcindalo@gmail.com> wrote:
Hi and thanks for reading this.

I have googled for a way to achieve what I want and have gone through
the wiki, to no avail.

I would like to color in a different way the different helix types:
alpha, pi and 310. When you open, for instance, 1pyg into Jmol, you get
distinct colors for each type by default. But if the same pdb file is
open with PyMOL all helices are treated the same way. Can't PyMOL
distinguish helix types?

Thanks in advance,
Ramiro Téllez Sanz
Dept. Physical Chemistry
University of Almeria
Spain

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