[phenixbb] Cryo_fit

[Kim, Doo Nam]

Hi Reza,



Can anyone suggest a resolution to low pass filter the map to? Or is this value empirically determined by screening through a number of resolutions?

==>

Yes, this is somehow empirically determined.



I think that my predecessors of cryo_fit used to use 15 A, 10 A, 5 A resolution cryo-EM maps successively to avoid being trapped in local minima when they fit ribosome atomic structure into these.





Relevant references:



https://www.phenix-online.org/documentation/faqs/cryo_fit2_FAQ.html#how-can-i-provide-gaussian-filtered-maps



cascade mdff in https://elifesciences.org/articles/16105


best,
Doo Nam

From: <phenixbb-bounces at phenix-online.org> on behalf of Reza Khayat <rkhayat at ccny.cuny.edu>
Date: Tuesday, February 9, 2021 at 11:51 AM
To: "phenixbb at phenix-online.org" <phenixbb at phenix-online.org>
Subject: [phenixbb] Cryo_fit

Check twice before you click! This email originated from outside PNNL.


Hi,



The gaussian filter used to prepare cryo-EM maps for cryo_fit is equivalent to a low pass filter. Can anyone suggest a resolution to low pass filter the map to? Or is this value empirically determined by screening through a number of resolutions? Thanks.



Best wishes,

Reza


Reza Khayat, PhD
Associate Professor
City College of New York
Department of Chemistry and Biochemistry
New York, NY 10031
-------------- next part --------------
An HTML attachment was scrubbed...
URL: <http://phenix-online.org/pipermail/phenixbb/attachments/20210209/06c8e5e4/attachment.htm>