CCL: Modify PDB file of DNA-Protein complexes

From: "Elaine Meng" <meng*_*cgl.ucsf.edu>
Subject: CCL: Modify PDB file of DNA-Protein complexes
Date: Sun, 9 May 2010 13:13:01 -0400

 Sent to CCL by: "Elaine  Meng" [meng||cgl.ucsf.edu]
 Hi Deepangi,
 You can do it with the "swapna" command in Chimera.
 Chimera homepage:
 http://www.cgl.ucsf.edu/chimera/index.html
 Chimera manual:
 http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/index.html
 manual page for "swapna":
 http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/swapna.html
 Example commands:
 open 1d86
 nuc side atoms
 swapna t :24.b
 (that would open PDB 1d86, show all atoms of bases,
 and change the base of residue 24 in chain B to T)
 Best,
 Elaine
 -----
 Elaine C. Meng, Ph.D.
 UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab
 Department of Pharmaceutical Chemistry
 University of California, San Francisco