[Chimera-users] fit into map global

[Dieter Blaas]

sorry for the previous truncated message: I simply could not find out 
how to specify the parameters like r or N. How would a command line look 
like to simulate a map e.g. at 10 A and run 2000 trials?

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Dieter Blaas,
Max Perutz Laboratories
Medical University of Vienna,
Inst. Med. Biochem., Vienna Biocenter (VBC),
Dr. Bohr Gasse 9/3,
A-1030 Vienna, Austria,
Tel: 0043 1 4277 61630,
Mobile: 0043 699 1942 1659
e-mail: dieter.blaas at meduniwien.ac.at
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On 11.10.2022 18:23, Elaine Meng wrote:
> Hi Dieter,
> The global option is in the "fitmap" command only (not the dialog).  See "fitmap" with global search options:
>
> <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html>
> <https://www.rbvi.ucsf.edu/chimera/docs/UsersGuide/midas/fitmap.html#global>
>
> There is also a video tutorial linked to that section.
> I hope this helps,
> Elaine
> -----
> Elaine C. Meng, Ph.D.
> UCSF Chimera(X) team
> Department of Pharmaceutical Chemistry
> University of California, San Francisco
>
> P.S. ChimeraX has the same fitting as Chimera, if you ever want to switch.  The command syntax is (slightly) different but methodology the same:
> <https://rbvi.ucsf.edu/chimerax/docs/user/commands/fitmap.html>
>
>> On Oct 11, 2022, at 1:55 AM, Dieter Blaas via Chimera-users <chimera-users at cgl.ucsf.edu> wrote:
>>
>> Hi,
>>
>>      I am struggling to fit a model of a single protomer into a viral cryo-EM map. I usually succeed after a very long process of manually positioning the model approximately and then running 'fit into map' that arranges it in the best way.  I filtered the map to low resolution and used the option to generate a density map of the pdb file which makes it easier but it is still complicated. However, I believe that there is a routine to globally fit that does not require the very cumbersome first manual fitting. Can anybody please give me a hint?
>>
>> Thanks a lot, Dieter
>>