nevermind, I was entering @distance.py instead of run distance.py
On Fri, Oct 13, 2017 at 2:05 PM, Leigh M wrote:
> Hi Jared-
>
> I just use the C-alpha xyz coordinates and use d = math.sqrt(dx**2 +
> dy**2 + dz**2).
> I've been using python alone without pymol...usin
; different state? Or maybe picking the other side of a symmetric side chain
> (e.g. OD1 vs OD2)? If you could share the relevant portion of the script,
> you might get some more useful feedback; right now all we can do is guess!
>
> Cheers,
> Jared
>
>
> On October 12, 2
Colgate University
> 13 Oak Drive
> Hamilton, NY 13346
>
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> email: rrowl...@colgate.edu
>
>
> On 10/12/2017 2:18 PM, Leigh M wrote
Anyone know how pymol calculates distance between two atoms?
I wrote a python script that calculates distance using the distance formula
and the xyz coordinates in the pdb, and it differs from the wizard by ~40%.
Any ideas on what might be going on would be helpdul
Thanks!
Leigh
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