RE: [PyMOL] Zooming in, on an atom

[DeLano, W. <wa...@su...>]

Serge,

	The zoom command in the released version is flaky and sometimes causes =
clipping.  I've fixed this in the development version and will be =
preparing a new release shortly.

	The best thing you can do right now is put a large buffer on the zoom =
command...

zoom all,20

etc.

Cheers,
Warren

--
mailto:wa...@su...
Warren L. DeLano, Ph.D.
Informatics Manager
Sunesis Pharmaceuticals, Inc.
341 Oyster Point Blvd.
S. San Francisco, CA 94080
(650)-266-3606  FAX:(650)-266-3501



> -----Original Message-----
> From: Serge Cohen [mailto:co...@em...]
> Sent: Monday, September 23, 2002 11:43 AM
> To: pym...@li...
> Subject: [PyMOL] Zooming in, on an atom
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> -----BEGIN PGP SIGNED MESSAGE-----
> Hash: SHA1
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> Hi again,
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> This is a different question, I though it was better if I put it in a=20
> different eMail:
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> I'm trying to produce a movie showing a metal binding site in my=20
> protein. I'd like to start from the general (cartoon) view, and then=20
> zoom in (or traveling in) to focus on the metal.
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> So far I used a loop looking like:
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> # Traveling in the site
> diam =3D 30.0
> final =3D 6.0
> step =3D 0.0 + (N.exp((N.log(final) - N.log(diam)) * 1/40))
> for a in range (1, 40):
>    cmd.mdo(a,"zoom ((zn expand %2.9f) & (prot1 or zn)); origin (zn &=20
> i;2)"%(diam))
>    diam =3D diam*step
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> The problem is that because atoms "fall off" the zooming selection un=20
> regularly, the traveling is unstable (wiggly)... Indeed I=20
> have a third=20
> object (not zn neither prot1) in the figure, I had to remove=20
> it from the=20
> zooming because it was only on one side of the site and it was giving=20
> even worse unstabilities...
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> Does anyone knows better ways to do this king of traveling in?
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> Indeed I was first thinking to center each frames on a "moving" point=20
> which get closer to the zinc, and have a "progressive" move z at the=20
> same time. Unfortunately the only command I found to put a given=20
> position in the middle of the screen is to use zoom, and it=20
> also change=20
> the z position... Am I missing some commands?
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> Thanks for any help.
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> Serge.
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> - ----------------------------------------------------
> Serge Cohen
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> GPG Key ID: 1024D/69B1D346
> - ----------------------------------------------------
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