This sounds like a job for SPASM. We used it to find instances of left-handed
helices in the PDB. See:
- SPASM: http://www.ncbi.nlm.nih.gov/pubmed/9917419
- Left-handed helices: http://www.ncbi.nlm.nih.gov/pubmed/15740737
The database for SPASM hasn't been updated for a few years, but it may g
Dear all,
I have two isomorphous crystals of the same protein. One crystal, let's
call it 'derivative', was soaked with 10 mM CoCl2 whereas the other, let's
call it 'original', was not. Both crystals were otherwise grown under
identical conditions (see below) and treated the same. In the derivati
Thank you for your efforts!
@BR: Yes, I do have anomalous data which indicate that the density stems
from Co(II) or anything else that shows significant anomalous dispersion
at 1.6083 A. I just cannot picture 7 Co(II) ions forming a perfectly
planar hexagonal structure with one Co(II) in the c
Hi,
I have enocountered a similar effect with WO4- derivatives, I found a huge blob
with some little resemblence to icosahedral features, some kind of mini 10 x W
bucky ball.
I was wondering whether there could be any slightly possibility that your
protein may be able of some kind of yet unkno
Hello Joern,
do you have an image of the anomalous difference map as well? Do you see
the same 7 peaks there, or only the central blob?
Filip
On Thu, Nov 1, 2012 at 11:45 AM, Joern Krausze wrote:
> Dear all,
>
> I have two isomorphous crystals of the same protein. One crystal, let's
> call it
@Partha
I have 4 polypeptide chains in the au. The density in the pictures is
located between chain A and C'(symmetry mate of chain C), so it is not
located on a special position
I will prepare and attach a figure of the anomalous map a.s.a.p. In my
memory there was density in all 7 position
Here is a snapshot of the anomalous map:
http://imageshack.us/a/img560/1905/anomalousmap.png
The map is contoured to 2.5sigma. They are the strongest peaks in the map.
Not all 7 positions are equally strong.
J.
**
Address:
Joern Krausze
Molecular Stru
Dear John,
Thanks for pointing to the long-wavelength MX beamline project here at Diamond.
The core wavelength range will be from 3 to 8 keV (1.5 to 4.1 A) and mainly
targeting anomalous phasing experiments from native proteins/DNA/RNA exploiting
anomalous differences from S or P. But of cours
Hi,
I just upgraded from coot 0.6.2 to 0.7 - the stand alone package for
running on mac os x 10.8.
While 0.6.2 is running perfectly well with the XQartz environment 0.7.
totally messes up the graphical display of the model...
Has anyone encountered and maybe solved this problem previously ?
