Dear Maria,
I can see that others have suggested how to manually change the
secondary structure, but I have one comment:
If a secondary structure detection algorithm doesn't assign those
residues as 'strand' then this is probably (bugs notwithstanding) a
feature of your model and you should also take care to look that the
local structure (hydrogen bonding etc) makes sense at that point.
While we shouldn't blindly accept the output of computer programs,
altering their output to fit our preconceptions isn't necessarily a good
idea either.
Cheers,
Charlie
protein.chemist protein.chemist wrote:
> Dear All,
>
> I have a question about PYMOL.
>
> I am trying to make a cartoon diagram of my protein showing the
> secondary structural elements. However for some reasons it is not
> showing the N terminal strand and showing that as a loop. Is there any
> command for selecting a range of residues and showing them as a strand
> or helix.
>
> Thanks for helping.
>
> Mariah
>
> --
> Mariah Jones
> Department of Biochemistry
> University of Florida
--
Charlie Bond
Professorial Fellow
University of Western Australia
School of Biomedical, Biomolecular and Chemical Sciences
M310
35 Stirling Highway
Crawley WA 6009
Australia
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+61 8 6488 4406
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