Hi Sudheer, Here is an description of the BIOMT matrix format, which you would add with a text editor: <http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/midas/sym.html#biomt> However, it does not explain how you would figure out what values to put into those lines, which is not simple. I would probably try to find another GroEL PDB that already has the BIOMT matrices in it, then match your structure on to it, save the new coordinates for your structure "relative to" the coordinates of that other PDB, then edit in the BIOMT records copied from that other file. However, I don't know if that is precise enough for what you had in mind, and an even bigger problem may be although there are many structures of GroEL, I don't see any with BIOMT information for reproducing the multimer from a single chain. All the ones I looked at simply had the coordinates for all of the chains. Neverthless, here is more information on... superimposing structures: <http://www.cgl.ucsf.edu/chimera/docs/ContributedSoftware/morph/morph.html#su...
writing coordinates, including "relative to": http://www.cgl.ucsf.edu/chimera/docs/UsersGuide/savemodel.html#pdb Best, Elaine ----- Elaine C. Meng, Ph.D. meng@cgl.ucsf.edu UCSF Computer Graphics Lab (Chimera team) and Babbitt Lab Department of Pharmaceutical Chemistry University of California, San Francisco http://www.cgl.ucsf.edu/home/meng/index.html On Oct 5, 2008, at 8:54 PM, <skmolugu@miners.utep.edu> <skmolugu@miners.utep.edu
wrote: HI, In the symmetric fitting model session that explains about the symmetry generation, i did not understand the method to generate the matrix. I am working on a chaperonin protein called GroEL. It has 14 subunits with seven fold symmetry. can you please explain me how to update the pdb and the matrix values that i need to put in the pdb file. thankyou, sudheer