What is the resolution?
Breaks can be caused by anisotropic data - but that map does not look
right.
Is that picture taken from COOT ?

Eleanor


On 1 December 2016 at 14:37, Reza Khayat <rkha...@ccny.cuny.edu> wrote:

> 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
>

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