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 Khayat, PhD
Assistant Professor
Department of Chemistry
City College of New York
85 Saint Nicholas Terrace, CDI 2.318
New York, NY 10031

-----Original Message-----
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Tim Gruene
Sent: Thursday, December 01, 2016 9:19 AM
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 ...


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
CH-5232 Villigen PSI

Phone: +41 (0)56 310 5297


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