This is interesting! I noticed that for omit maps (the only maps for which I make pictures) I had to use much lower contour levels as in the past. I thought it was due to the maximum likelihood programs, but now it seems that the contouring in Pymol is to blame.
Best,
Herman
-----Ursprüngliche Nachricht-----
Von: CCP4 bulletin board [mailto:[log in to unmask]] Im Auftrag von Emilia C. Arturo (Emily)
Gesendet: Montag, 20. Juli 2015 21:30
An: [log in to unmask]
Betreff: Re: [ccp4bb] off-topic: pymol map
This is a hot topic, and the answer is not straightforward. It was recently discussed on this BB (and on the PyMOL users list); see:
[log in to unmask]" target="_blank">https:[log in to unmask]
Hope this helps,
Emily.
On Mon, Jul 20, 2015 at 9:57 AM, Jurgen Bosch <[log in to unmask]> wrote:
> Dear Almudena,
>
> isomesh map, mymap.map, 2.0, site, carve=1.6
>
> the 2.0 sets the sigma level of your map.
> See also here:
> http://www.pymolwiki.org/index.php/Display_CCP4_Maps
>
> Jürgen
> ......................
> Jürgen Bosch
> Johns Hopkins University
> Bloomberg School of Public Health
> Department of Biochemistry & Molecular Biology Johns Hopkins Malaria
> Research Institute
> 615 North Wolfe Street, W8708
> Baltimore, MD 21205
> Office: +1-410-614-4742
> Lab: +1-410-614-4894
> Fax: +1-410-955-2926
> http://lupo.jhsph.edu
>
> On Jul 20, 2015, at 9:48 AM, Almudena Ponce Salvatierra
> <[log in to unmask]> wrote:
>
> Dear all,
>
> I have a pymol session in which I generated a map (isomesh... ) over
> my structure. Does any of you know how to display of find out at which
> sigma cutoff was it generated?
>
> Thanks a lot in advance.
>
> Best wishes,
>
> Almudena
>
> --
> Almudena Ponce-Salvatierra
> Macromolecular crystallography and Nucleic acid chemistry Max Planck
> Institute for Biophysical Chemistry Am Fassberg 11 37077 Göttingen
> Germany
>
>
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