On Jun 23, 2009, at 2:25 PM, Thiruvarangan Ramaraj wrote:
Hi,
I tried to create two surfaces, one for the Antibody and one for the Antigen for an Antibody-Antigen complex (1A14.pdb). I am able to create two surfaces as two models in one session. But when I try to save this session it gives me an warning "Cannot save surfaces without associated structure. Surface will not be saved."
This happens when you close the structure that a surface is based on. Sessions don't store vertex/triangle information for surfaces (which would be voluminous) but instead just the parameters that were used to generate the surface -- and the surface is regenerated when the session is restored. But if the underlying structure is gone then that won't work.
Then when I try to open the saved session there is only surface that I could see.
Is there any way that I could have both surfaces saved in one session.
Any help would be greatly appreciated.
Well, obviously one approach is to not close the underlying structure. FYI, you can get separate surfaces on the antigen/antibody without using multiple copies of the structure. You need to get the antigen and antibody into separate "surface categories" (as described here: http://www.cgl.ucsf.edu/chimera/current/docs/UsersGuide/midas/msms.html ). Here is a sequence of commands (Favorites->Command Line) that gets the antigen (chain N) into its own surface category named "antigen" and then surfaces both the antigen and antibody: surfcat antigen :.n; surf antigen; surf --Eric Eric Pettersen UCSF Computer Graphics Lab http://www.cgl.ucsf.edu