Re: [PyMOL] Generating peptides with structure in Pymol

[Jason V. <jas...@sc...>]

Hi Joel,

That looks like it needs correcting. Please post this on the
open-source tracker (http://sourceforge.net/tracker/?group_id=4546).
I'll update the case there when it's fixed.

Cheers,

-- Jason

On Wed, Aug 10, 2011 at 11:49 PM, Joel Tyndall <joe...@ot...> wrote:
> Hi all,
>
>
>
> I just wanted to raise an issue a colleague pointed out recently. When you
> generate an ideal peptide in the form of an alpha helix using the builder
> function in Pymol, the intra-molecular H-bonds that characterise an alpha
> helix (I to i+4) are too close (2.2 Angstrom O-N). If you generate such a
> peptride, save it then reopen in Pymol, extra bonds are drawn between N-H
> and O= indicating the close proximity. Whilst I realise Pymol is not
> currently designed to “Model” structures, could this be updated.
>
>
>
> Cheers
>
> Joel
>
>
>
> _________________________________
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> Joel Tyndall, PhD
>
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-- 
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC

(e) Jas...@sc...
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