I see the same thing with Autobuster structures.
-----Original Message----- From: Mailing list for users of COOT Crystallographic Software [mailto:[email protected]] On Behalf Of Pedro M. Matias Sent: Thursday, January 17, 2013 6:16 AM To: [email protected] Subject: Re: Problem with Coot Density Fit Analysis with PHENIX map coefficients Hi, Bernhard, To clarify my previous e-mail, in both cases the maps are being calculated from weighted coefficients from an MTZ file output by the program. I tried calculating a weighted 2Fo-Fc map in CCP4i using the PHENIX MTZ file and the end-result (red bars) was the same. Pedro. At 09:23 17-01-2013, Bernhard Lohkamp wrote: >Hi Pedro, > >this is due to the map sampling (which seems different between the >two programs). Anyway, for now you can change the weighting manually: > >Extensions->Refinement->Set Density Fit Graph Weight > >B > >On 17/01/2013 10:11, Pedro M. Matias wrote: >>Hi, >> >>I encountered a strange problem while running the "Density Fit Analysis" >>widget on a structure refined with PHENIX. All residues are represented >>with a red bar (see picture) with low CC. >> >>Using the same input coordinate and MTZ file in REFMAC produces normal >>"Density Fit Analysis" graphs (see picture). >> >>I am at a loss to understand why this is happening... >> >>This happens with both 0.6.2 and 0.7 versions of Coot. >> >>Best regards, >> >>Pedro. >> >> >>Industry and Medicine Applied Crystallography >>Macromolecular Crystallography Unit >>___________________________________ >>Phones : (351-21) 446-9100 Ext. 1669 >> (351-21) 446-9669 (direct) >> Fax : (351-21) 441-1277 or 443-3644 >> >>email : [email protected] >> >>http://www.itqb.unl.pt/research/biological-chemistry/industry-and-medicine-applied-crystallography >> >>http://www.itqb.unl.pt/labs/macromolecular-crystallography-unit >> >>Mailing address : >>Instituto de Tecnologia Quimica e Biologica >>Apartado 127 >>2781-901 OEIRAS >>Portugal > >-- >*************************************************** > >Dr. Bernhard Lohkamp >Assistant Professor >Div. Molecular Structural Biology >Dept. of Medical Biochemistry and Biophysics (MBB) >Karolinska Institutet >S-17177 Stockholm >Sweden > >phone: (+46) 08-52487651 >fax: (+46) 08-327626 >email: [email protected] Industry and Medicine Applied Crystallography Macromolecular Crystallography Unit ___________________________________ Phones : (351-21) 446-9100 Ext. 1669 (351-21) 446-9669 (direct) Fax : (351-21) 441-1277 or 443-3644 email : [email protected] http://www.itqb.unl.pt/research/biological-chemistry/industry-and-medicine-applied-crystallography http://www.itqb.unl.pt/labs/macromolecular-crystallography-unit Mailing address : Instituto de Tecnologia Quimica e Biologica Apartado 127 2781-901 OEIRAS Portugal Notice: This e-mail message, together with any attachments, contains information of Merck & Co., Inc. (One Merck Drive, Whitehouse Station, New Jersey, USA 08889), and/or its affiliates Direct contact information for affiliates is available at http://www.merck.com/contact/contacts.html) that may be confidential, proprietary copyrighted and/or legally privileged. It is intended solely for the use of the individual or entity named on this message. If you are not the intended recipient, and have received this message in error, please notify us immediately by reply e-mail and then delete it from your system.
