Jenna,

Use PyMOL to download the biological unit:

fetch 1b8e, type=pdb1

split the states out (you'll notice it's a two-state object)

split_states 1b8e

You can also create symmetry expansion via,  A > Generate > Symmetry Mates > within X A, from your original object.

Cheers,

-- Jason

On Tue, Apr 6, 2010 at 12:36 AM, JiangJiang Liu <jliu37@uwo.ca> wrote:
 
Hello all,
 
             When I open the  pdb file 1B8E (a homodimer protein) through pymol I can only see a monomer shown in the screen. Now I know the biological dimer is produced through crystallographic symmetry operations in pymol. To generate the dimer, I think I need to convert these remark comands (list below) to be a readable commands by the pymol program. Does anyone know how to do this conversion? Or what's the commands for crystal symmetry operation?
Thank you very much!
 
Sincerely
Jenna Liu
PS:
REMARK 350 BIOMOLECULE: 1                                                      
REMARK 350 AUTHOR DETERMINED BIOLOGICAL UNIT: DIMERIC                          
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A                                    
REMARK 350   BIOMT1   1  1.000000  0.000000  0.000000        0.00000           
REMARK 350   BIOMT2   1  0.000000  1.000000  0.000000        0.00000           
REMARK 350   BIOMT3   1  0.000000  0.000000  1.000000        0.00000           
REMARK 350   BIOMT1   2 -1.000000  0.000000  0.000000        0.00000           
REMARK 350   BIOMT2   2  0.000000  1.000000  0.000000        0.00000           
REMARK 350   BIOMT3   2  0.000000  0.000000 -1.000000       33.43000         
 


------------------------------------------------------------------------------
Download Intel&#174; Parallel Studio Eval
Try the new software tools for yourself. Speed compiling, find bugs
proactively, and fine-tune applications for parallel performance.
See why Intel Parallel Studio got high marks during beta.
http://p.sf.net/sfu/intel-sw-dev
_______________________________________________
PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net



--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC

(e) Jason.Vertrees@schrodinger.com
(o) +1 (603) 374-7120