Hi Máire,
PyMOL requires the other mainchain atoms to be present in order to
generate a nice cartoon representation. The only exception to this is if
you're willing to work with a simple tube, in which case you can enable the
cartoon_trace setting ("set cartoon_trace,on"), followed by "cartoon loop"
or "cartoon tube".
Unfortunately, there is no good workaround to this at present...
Cheers,
Warren
--
mailto:war...@delanoscientific.com
Warren L. DeLano, Ph.D.
Principal Scientist
DeLano Scientific LLC
Voice (650)-346-1154
Fax (650)-593-4020
> -----Original Message-----
> From: pymol-users-ad...@lists.sourceforge.net
> [mailto:pymol-users-ad...@lists.sourceforge.net] On Behalf Of
> maire.a.conv...@gsk.com
> Sent: Thursday, May 27, 2004 9:06 AM
> To: pymol-users@lists.sourceforge.net
> Subject: [PyMOL] Cartoons from ca co-ordinates only
>
> Hi,
> I'm trying to create a movie showing mainchain and sidechain
> movements between two different states of a protein.
> I've generated the intermediate files, but they contain only
> the ca positions and not the other mainchain atom positions
> of the residues which are moving.
> I've specified the ss, but can not get a cartoon
> representation in pymol.
> Is not having the n, c and o the problem and is there a work round?
>
> Máire Convery
> Protein Structure Section
> Computational and Structural Sciences
> Stevenage
>
>
>
>
>
>
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