Hi Francesco, Thanks for your kind words! Yes, you can view AMBER trajectories in Chimera. Just start "MD Movie" (under Tools... MD/Ensemble Analysis) and in the resulting dialog, there are several choices for trajectory format, including Amber. The MD Movie tool and input formats are described here: http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/movie/ framemovie.html and are used in this tutorial: http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/tutorials/ ensembles2.html The trajectory input types are not listed in the general "file open" dialog, partly because some formats include more than one file. Also, the more specific MD Movie dialog allows you to specify other parameters, such as the range of frames you want to load. I hope this helps, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Oct 1, 2007, at 6:22 AM, Francesco Pietra wrote:
Having installed DOCK6.1/DMS (debian Linux parallel amd64) and Chimera 1.2422 (scp-linked desktop Debian Linux i386), may I ask:
1) Can I use Chimera for Amber9 in place of VMD, which I currently use?
2) Being superficially familiar with VMD, I was looking in Chimera for *.prmtop and *.inpcrd file types, as well as rst file, etc.. I suppose I was unable to turn Chimera to use with Amber9.
That said, I was very much impressed by Chimera at the first touch. Thanks francesco pietra