Hi Francesco, command: delete element.H (or menu: Select... Chemistry... element... H, Actions... Atoms/ Bonds... delete ) 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 Feb 27, 2009, at 10:12 AM, Francesco Pietra wrote:

Hi:

Is it possible to remove all hydrogens by command, without intervening manually on the pdb file?

I have to rmsd the starting (no H) pdb with the final structure after MD (with H). AddH command to the starting structure would place H not optimized, while MD has also changed the C-backbone conformation.

Thanks

francesco pietra _______________________________________________ Chimera-users mailing list Chimera-users@cgl.ucsf.edu http://www.cgl.ucsf.edu/mailman/listinfo/chimera-users