Hi Gloria, I agree that ChimeraX is the easiest starting point for this. After that, the CCP-EM suite has a variety of rigid and flexible fitting methods that you can try (including em_placement in the latest). Also many validation functions, which are kind of important 😊 Our annual Icknield workshop covers these techniques, look e.g. at https://www.ccpem.ac.uk/training/icknield_2023/icknield_2023.php
HTH m -----Original Message----- From: CCP4 bulletin board <[email protected]> On Behalf Of Randy John Read Sent: 27 November 2024 08:40 To: ccp4bb <[email protected]> Subject: Re: [ccp4bb] cryoEM molecular replacement Hi Gloria, Guillaume already mentioned emplace_local, so I’ll just mention that if you get a recent nightly build of Phenix and the latest version of ChimeraX (plus the Phenix UI plugin from the toolshed), you can tell it your map has symmetry, place a monomer, and then it will detect the symmetry and place all the symmetry-related copies of the monomer. (That’s assuming you imposed the symmetry during the reconstruction.) It’s still under rapid development: another new feature is to be able to account for a part of the model you’ve already placed when placing a new component. To come: something much more highly automated, like Phaser, in placing multiple copies of multiple components all in one job. Best wishes, Randy > On 26 Nov 2024, at 23:50, Gloria Borgstahl <[email protected]> wrote: > > Hello Friends, > We are finally using cryoEM when the crystallography got too hard! We have a > crystal structure for the hexamer. What is the easiest software tool to > swing a monomer or hexamer into the cryoEM density? > Thank you, Gloria > > To unsubscribe from the CCP4BB list, click the following link: > https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 ----- Randy J. Read Department of Haematology, University of Cambridge Cambridge Institute for Medical Research Tel: +44 1223 336500 The Keith Peters Building Hills Road E-mail: [email protected] Cambridge CB2 0XY, U.K. www-structmed.cimr.cam.ac.uk ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list hosted by www.jiscmail.ac.uk, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/
