[PyMOL] secondary structure and movie

[Alan W. S. da S. <al...@la...>]

Hi List!

I did a polyalanine in helix ss.
I tested:
1: dss (ok)
2: run stride_ss.py, stride2pymol (ok)
3: dssp (from rtools) (???)

Case (1) differs a little bit from (2) in N term.

Case (3) seems not to work. Or, maybe, I do not know how to use it.
Tried via menu and via command dssp.  Got the same thing: two new objects=
=20
(helix and sheet) that show nothing!

In a crystallographic protein (HIV protease), (1) gave-me a better (and
faster) result than (2).  (3) still gave-me nothing (except the ref to=20
Dssp, which is properly installed in my box).
I really want to see dssp working.

Anyway, all that said, what I want to do is loading a multi-pdb file and
see dss calculating different ss for each frame.  How could I do it?

Cheers,
-=20
--------------------------
Alan Wilter Sousa da Silva
--------------------------
B.Sc. - Dep. F=EDsica - UFPA
M.Sc. - Dep. F=EDsica - PUC/RJ
D.Sc. - IBCCF/UFRJ
Bolsista Pesquisador LAC-INPE
S=E3o Jos=E9 dos Campos (SP), Brasil
www.lac.inpe.br/~alan