Thanks, Elaine and Eric. That works. Mingfeng On 2/5/07, Eric Pettersen <pett@cgl.ucsf.edu> wrote:
Hi Mingfeng, Chimera's original PDB-parsing code was quite strict for exact format adherence. Over time, I have made it more forgiving in many ways, but right now you're getting caught by one of it's remaining strictures: according to the PDB format spec, the model number of a MODEL record has to be in columns 11-14. In your example the model numbers start in column 7. This problem will be fixed in the next snapshot, which we will be working on putting out next week. Also, as Elaine pointed out, you need to use ENDMDL records instead of END records.
--Eric
Eric Pettersen
UCSF Computer Graphics Lab
pett@cgl.ucsf.edu
On Feb 5, 2007, at 8:08 AM, Mingfeng Yang wrote:
Dear Chimera users and developers,
I'd like to use chimera to view the motions of a protein. If all the snapshots are to be saved in a single PDB file, what's the correct format for them?
I tried the following, but chimera complained that a single structure is included only.
Thanks, Mingfeng ------------------ MODEL 1 ATOM 1 N ALA 1 -4.564 -7.956 -6.531 1.00 0.00 N ATOM 2 CA ALA 1 -5.237 -8.746 -5.532 1.00 0.00 C ATOM 3 C ALA 1 -4.360 -9.172 -4.378 1.00 0.00 C ... ATOM 81 HN ALA 10 0.195 11.398 3.736 1.00 0.00 H END MODEL 2 ATOM 1 N ALA 1 - 5.031 -8.234 -5.174 1.00 0.00 N .... END _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users