Re: [ccp4bb] Pymol movie ration along any axis

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

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Subject: Re: Pymol movie ration along any axis
From: Juergen Bosch jbosch {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-08-02

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Subject: Re: Pymol movie ration along any axis
From: James Stroud jstroud {- at -} MBI {- dot -} UCLA {- dot -} EDU
Date: 2008-08-02

I just realized a simplification wherein you can skip quaternions. My
guess is you just want a rigid body to sit there and rotate without
defined starting and ending orientations. Here is what you do: you
decide how fast you want it to rotate, in terms of frames, then you
figure out the rotation per frame. You can think of this as an
incremental axis and angle rotation. Then you describe that increment
as a 3x3 rotation matrix. This conversion is not that difficult. Scipy
I think can do this without any thought from the programmer. This 3x3
rotation transformation can get plugged straight into the pymol
"transformation matrix". Then, between frames, you just keep applying
that transformation and it will rotate dutifully.

If the axis doesn't intersect the origin (e.g. your rigid body is not
centered at the origin, etc) you apply the transformation to center
it, apply the rotation, then move the rigid body back, then take the
frame. Repeat.

Probably such a thing would be trivial to add to emovie since its open
sourced. The parameters would be (x0,y0,z0) and (x1,y1,z1) describing
the arbitrary rotation axis, and d, describing the number of degrees
to rotate per frame. The bigger the d, the faster.

James

On Aug 1, 2008, at 2:06 PM, Jerry McCully wrote:

> Hi , all:
>
> Sorry for this off-topic question.
>
> When you make movies, Pymol usually allows you rotate molecules
> along x, y, or z axis.
>
> The view point is always from Z axis.
>
> Does anyone have this experience of rotating molecules along any
> other specified axis and keeping the same view point as usual?
>
> Thanks a lot.
>
> Jerry
>
> Use video conversation to talk face-to-face with Windows Live
> Messenger. Get started.

--
James Stroud
UCLA-DOE Institute for Genomics and Proteomics
611 Charles E. Young Dr. S.
Los Angeles, CA 90095

http://www.jamesstroud.com

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CCP4bb <-- 1999 <-- November 1999 <-- 30 November 1999

Previous message:
Subject: Re: Pymol movie ration along any axis
From: Juergen Bosch jbosch {- at -} U {- dot -} WASHINGTON {- dot -} EDU
Date: 2008-08-02

Next message:
Subject: Re: chromophore in GFP
From: Artem Evdokimov artem {- at -} XTALS {- dot -} ORG
Date: 2008-08-02