Tiger,
Unfortunately I don't have much experience with this procedure. But one
thing came to mind, you can manually assign secondary structure within
DEEPVIEW/SWISS PDB Viewer [EDIT]. Not sure how many pdb files you have
generated for the morph, but if nothing else works, you could try manually
assigning secondary structures and see how that works out. Yep, a huge pain
in the buttocks I know, but it should work, in theory.
Best of Luck.
Cheers,
Nick
----- Original Message -----
From: "Geng Tian" <gengt...@hotmail.com>
To: <pymol-users@lists.sourceforge.net>
Sent: Tuesday, April 18, 2006 6:24 AM
Subject: [PyMOL] another question about ca trace model.
Hi, there:
I am trying to make a movie following the intruction at
http://ginsberg.med.virginia.edu/~dcoop/Help/morph.html
From Lsqman, I got a serial of PDB files morphing between two
conformations. These PDB files contain only alpha carbon and non-hydrogen
side-chain atoms. Then I used DSSP to include the secondary structure
information ito the PDB files. In the pymol, after set cartoon_trace, 1
the helix and loop showed up nicely. But all the strands are missing. I
tried several setting about cartoon but just can't get them out. Do you
have any idea how to solve this problem.
Thank you.
Tiger
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