If by "it was truncated at 5A for clarity" you really mean you truncated all low-resolution data from 5A and lower then I am not surprised you see funny densities all over or don't see density where it is expected. Why? Consult a textbook for the answer.
All the best, Pavel On Fri, Nov 3, 2017 at 3:10 AM, Abhishek Anan <rendezvous.a...@gmail.com> wrote: > Dear Prof Schreuder > > Here are another couple of perspectives from coot. The density is too far > and isolated from the peptide chain to be an alternate conformation or > conformational change. The density of the peptide chain does not look good > because it was truncated at 5A for clarity. > > Best regards > Abhishek > > On Fri, Nov 3, 2017 at 9:33 AM, <herman.schreu...@sanofi.com> wrote: > >> Dear Abhishek, >> >> >> >> To me, it looks like an alternative conformation of the peptide chain or >> maybe even a conformational change with respect to the starting model. The >> peptide chain does not look too well defined, despite high resolution >> electron density. >> >> >> >> Best, >> >> Herman >> >> >> >> *Von:* CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] *Im Auftrag >> von *Abhishek Anan >> *Gesendet:* Freitag, 3. November 2017 09:26 >> *An:* CCP4BB@JISCMAIL.AC.UK >> *Betreff:* [EXTERNAL] [ccp4bb] another unknown density problem >> >> >> >> Hi all, >> >> I have an "unknown" density in the map. I have tried to fit it to PEG but >> it doesn't fit very well. I was wondering if there are other PEG-related or >> other molecules I could try. >> >> The crystal grew in TRIS-HCl and PEG MME 2K. >> >> Thank you >> >> Abhishek >> > >
