Good Morning to ALL,
I encountered large gaps between R-factor and R-free, eg. 10% and
11%, during refining several structures with either Refmac or
Phenix.refine.
The data were reduced and scaled at resolution with I/SIGMA higher
than 2.3.
The model fits and density pretty well despit
-BEGIN PGP SIGNED MESSAGE-
Hash: SHA1
Dear Wenhua,
a large gap between R1 and Rfree is often inficative for overfitting.
Take a look at the following:
- - how many water molecules are there in total? Do they all chamically
make sense, do some of them have large B-values? Water molecules
Hi Wenhua
You didn't say what resolution your structure is: that's critical to
deciding how significant is the R-factor difference (or more strictly the
ratio). There are other factors such as solvent content: generally
anything which affects the obs/param ratio (such as NCS restraints) will
also
Well - your R values will probably appear higher than normal - there
will be zones where all reflections are weak..
but the maximum likelihood targets are meant to deal with this reasonably well.
It seems to work and the maps usually look OK! Eleanor
On 25 November 2013 22:31, Niu Tou wrote:
Dear all,
Thanks to all for the information, especially to Jeroen for the detailed
comments and thanks to Kay for the Wiki link, that was really helpful!
So one possible option among others seems to be:
- NVIDIA Quadro K600
- Asus VG278HR
Just to get it right: Although the K600 is listed under
The Industrial Special Interest Group and Young Scientists Special Interest
Group of the American Crystallographic Association will be hosting a scientific
session on Sunday, May 25, 2014 during the ACA Meeting in Albuquerque, New
Mexico which will highlight research by young scientists (undergr
Hi Wenhua,
concerning phenix.refine: just run it again with weights optimization and
it should fix the problem (assuming everything else done right: such as you
are using correct refinement strategy). If using weights optimization does
not help then let me know off list or on Phenix mailing list a
YES!, this new card will work (once
properly set-up under linux). I triple checked the new k600 card
actually has a dual-link DVI and it has. So, no problem linking it
to the VG278HR.
It is listed "windows only" because it lacks the 3-pin
connector...
Thanks!
On Tue, Nov 26, 2013 at 5:03 PM, mesters wrote:
> YES!, this new card will work (once properly set-up under linux). I
> triple checked the new k600 card actually has a dual-link DVI and it has.
> So, no problem linking it to the VG278HR.
>
> It is listed "windows only" because it lacks
Hi folks,
I can not access to SSRL from yesterday. smbnxs1.slac.stanford.edu. or
smbnxs2.slac.stanford.edu
I wonder something is wrong in the server.
Please let me know what happened to the SSRL if you know that.
Thanks to all.
Daniel
I just checked, and am logging on fine.
Oli
On Tue, Nov 26, 2013 at 9:40 AM, Daniel wrote:
> Hi folks,
>
> I can not access to SSRL from yesterday. smbnxs1.slac.stanford.edu. or
> smbnxs2.slac.stanford.edu
> I wonder something is wrong in the server.
> Please let me know what happened to the S
Applications are invited for a postdoctoral position to work on
crystallography of membrane-embedded enzymes. Experience in crystallography
is preferred. In addition, the successful candidate should be well versed
in one or more of the following areas: molecular biology, protein
purification, and m
Hello everyone,
The electron density of my structure displays two alternative traces for the
main chain in a loop region. Is there a way I can refine the structure with
both the alternative main chains in place with 50% occupancy each?
Thanks,
Shy
--
Shyamosree Bhattacharya
4th year Graduate St
I am using Refmac5 to refine my protein structure.
Shy
Hello Hitesh,
please have a look at the following link,
http://ubuntuforums.org/showthread.php?t=1444738 , were it is
described in detail how to get the driver to work under ubuntu.
- Jeroen -
--
Dr. Jeroen R. Mesters
D
15 matches
Mail list logo
