VMD-L Mailing List

From: Steve Ding (steve.ding_at_yale.edu)
Date: Thu Aug 11 2005 - 18:10:13 CDT

Hi all,
I was trying to follow thread
(http://www.ks.uiuc.edu/Research/vmd/mailing_list/vmd-l/2621.html) that
tried to explain how to use use the "BIOMT" function, but I couldn't
follow. I'm new to using VMD, so please have some patience. The PDB file
I have displays a dimer, but I would like for it to display a tetramer
(PDB 1I1R). Below is the REMARK 350:
REMARK 350
        
REMARK 350 BIOMOLECULE: 1
        
REMARK 350 APPLY THE FOLLOWING TO CHAINS: A, B
        
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 74.19668
        
REMARK 350 BIOMT2 2 0.000000 1.000000 0.000000 0.00000
        
REMARK 350 BIOMT3 2 0.000000 0.000000 -1.000000 71.18338
        

Is it that the first three lines of BIOMT are for chain A and the second
three lines are for chain B? I tried to use the commands listed in the
previous thread in the Tk console, but all I got was an error. Any help
would be greatly appreciated.

Steve