I would have to agree with Tim. I'm a little surprised that your R/Rf is 27/32. Are the images representative of the entire model/map fits, or a small section of it?
Best wishes, Reza Reza Khayat, PhD Assistant Professor Department of Chemistry City College of New York 85 Saint Nicholas Terrace, CDI 2.318 New York, NY 10031 http://www.khayatlab.org/ 212-650-6070 -----Original Message----- From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Tim Gruene Sent: Thursday, December 01, 2016 9:19 AM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] visible side-chains but breaks in main-chain Dear V, your map still looks quite poor and disconnected. Maybe you could improve your overall model before you worry about such detailed questions like main chain vs. side chain density. If your resolution is not too poor, you could try rebuilding your model with shelxe, or buccanner, or phenix, or ... Regards, Tim On Thursday, December 01, 2016 02:35:21 PM Veronica Fiorentino wrote: > Dear bb-ers, > Is it uncommon to see side-chains for PHE/ARG visible in density but > the main-chain density breaking (say within a beta-strand)? I have > attached 1.FEM (map) 2&3. Experimental phase map. If I refine the > model as Poly-ala, the side-chains appear green in difference map. I > therefore assume that my sequence assignments are correct(?). Is this > symptomatic of some big mistake? > > R/Rfree are around 27/32 % respectively. The phase problem was solved > by SeMet phasing. > > Many thanks > V[image: Inline images 1] > > [image: Inline images 2] > > [image: Inline images 3] -- -- Paul Scherrer Institut Dr. Tim Gruene - persoenlich - Principal Investigator Biology and Chemistry OFLC/102 CH-5232 Villigen PSI Phone: +41 (0)56 310 5297 GPG Key ID = A46BEE1A
