[BiO BB] distance of molecules

Joe Landman landman at scientificappliance.com
Wed Mar 13 12:41:56 EST 2002


  Depends upon your definition of "distance between".  For center of
mass distance, this should be simple to calculate.  For closest approach
(for an extended molecule with a specific surface), this might require a
bit more effort.

  There are some excellent tools to help you compute/visualize this.
Specifically look at VMD (http://www.ks.uiuc.edu).  There are other
tools you can look at on http://sal.kachinatech.com which might be


On Wed, 2002-03-13 at 11:35, balaji r wrote:
> hi group,
> i have a doubt, does any one has any idea how to get/interpret 
> distance between any two molecules using a PDB co-ordinates eg. 
> when viewed in RASMOL/ any sw like that.. I want to find out 
> distance between A17 and T21 or A17 and C14 to find out which is 
> closer. I want to know is there any way to find out this.
> balaji

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