[Chimera-users] write selected command

Edward Brignole brignole at scripps.edu
Wed Apr 1 13:02:46 PDT 2009

Elaine and co,

I have a mess of models that I'm opening, repositioning a ligand using match to various positions in each model. No problem there. For each model and ligand position I select the correct chains from that model with the repositioned ligand models but can't manage to save coordinates. Obviously there's the save pdb dialog but for all these models and ligands this will be more convenient scripted into chimera commands. I've got it all working except this:

select #6:.a-p #8 #9
write selected relative 0 #6,8,9 /path/to/file.pdb

The part it doesn't like is the model_numbers and I've tried various permutations without success. The only way I can get it to work is if I only specify one model number.

Can you please help me figure out how to phrase this command correctly? An example or two on that commands page might make the syntax easier to decipher.

Thank you for your excellent program and support.


Edward Brignole
NIH Kirschstein Postdoctoral Fellow
Francisco Asturias Lab, CB227
Center for Integrative Molecular Biosciences
The Scripps Research Institute

brignole at scripps.edu
443-653-2070 (cell)
858-784-8598 (lab)

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