Hi Lina,
First, download the one-letter and three-letter amino acid converters
(http://www.pymolwiki.org/index.php/Aa_codes) and run it or copy/paste
it into PyMOL. It's nice to have these in your ~/.pymolrc. Then, try
something like this:
# fetch a protein
fetch 1rx1, async=0
# hide all
hide
# show ball-and-stick for the main chain
preset.ball_and_stick("n. C+O+N+CA")
# hide the solvent
hide everything, solvent
# show the labels
label vis, one_letter[resn]
Cheers,
-- Jason
On Sat, Sep 17, 2011 at 12:48 PM, lina <[email protected]> wrote:
> Hi,
>
> Is it possible to output the sequence roughly following the skeleton of
> protein structure?
>
> Or are there some other good way handling it.
>
> I tried aline (seem this name) before and also manually. It's headache to
> arrange large molecules.
>
> Thanks for any suggestions.
>
> Lina
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--
Jason Vertrees, PhD
PyMOL Product Manager
Schrodinger, LLC
(e) [email protected]
(o) +1 (603) 374-7120
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