RE: [PyMOL] How to get a suurface on small molecule in active site?

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

By default, PyMOL doesn't surface PDB HETATMs.

To surface all atoms,

set surface_mode=3D1

To surface all atoms except hydrogens,

set surface_mode=3D2

Cheers,
Warren



> -----Original Message-----
> From: Kersey Black [mailto:kb...@js...]
> Sent: Wednesday, October 30, 2002 3:09 PM
> To: pym...@li...
> Cc: Kersey Black
> Subject: [PyMOL] How to get a suurface on small molecule in=20
> active site?
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>=20
> Hi Pymolers,
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> I am trying to show a surface on a small molecule in the=20
> active site. =20
> I can create surfaces on protein residues  without any problem, but I=20
> can not get a surface around the small organic structure.  I=20
> have tried=20
> this on an SGI and using the 0.84beta on OS X.
> I am obviously missing something.  Any help out there would be great.
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> After loading the hapten, I try things like ...
>    show surface, hap
>    set transparency=3D0.5, hap
> But I do not get a surface, with or without the transparency
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> Cheers,
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> Kersey
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>=20
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