Dear all,
Please guide me on right track in weired confusion. I
have model structure(available in pdb) and a structure solved by molecular
replacement as a dimer . Our structure does not giving correct tetramer by
symmetry mates. Strangely when i am aligning our structure on
I think we need more information.
Are the cells and space groups similar
What are the transformations which fit your coordinates to the model structure?
Have you submitted your coordinates to the PISA server at the EBI - that will
suggest possible tetramers?
Eleanor
On 28 Oct 2012, at 07:31,
Hi Acoot,
Here are some examples you can look at:
PDB: 1X0I (crystal structure of bacteriorhodopsin (acid blue form) at pH 2)
PDB: 1X0K (crystal structure of bacteriorhodopsin at pH 10)
PDB: 2W2E (crystal structure of aquaporin at pH 3.5)
PDB: 1YMG (crystal structure of aquaporin at pH 10)
On 28 Oct 2012, at 14:07, Appu kumar wrote:
transformation matrix.pptx
Hmm - once you have transformed your co-ordinates by that matrix which is
non-crystallographic they are no longer aligned in your unit cell, so you can't
apply your symmetry operators to them .
I don't think what you are doing is valid, but to be sure I would need to know
more about the 2
Appu kumar wrote:
Dear all,
Please guide me on right track in weired confusion. I have
model structure(available in pdb)
and a structure solved by molecular replacement as a dimer . Our structure
does not giving correct tetramer by
symmetry mates. Strangely when i am
Hi Francois,
instead of addressing the problem from the PDB side, you could take a look at
the embed feature in Pymol. It allows embedding structural information into a
special command script. It ties you down to PyMol, but on the other hand you
don't need to worry about extending the PDB
On 10/27/2012 05:32 AM, Pete Meyer wrote:
Just out of curiosity, why use PDB format instead of converting PDB into
a format readable by a more general 3d graphics program and combining
with your cube/sphere/line segment there?
I want to interact with the scene.
Rotate, view, zoom, change
For those interested, I think I'll go for Chimera and its support for
.bild files.
And that will be the end of this not so much xtal-related topic. ;)
Sorry for the noise.
Regards,
F.
On 10/29/2012 09:47 AM, Francois Berenger wrote:
On 10/27/2012 05:32 AM, Pete Meyer wrote:
Just out of
Dear Folks,
I have collected 360 image anomalous data in home source and integrated
using automar. These images that show the mosaicity value is 0.05. But,
mosaicity value 0.073 has shown when i integrated the 1-180 images data.
Why 180 image data mosaicity value is higher than 360 image? and
180 better than 360 is because you killed your crystal.
Over exposure is a common thread to solving a structure.
Jürgen
On Oct 28, 2012, at 10:25 PM, Vijayakumar.B wrote:
Dear Folks,
I have collected 360 image anomalous data in home source and integrated using
automar. These images that show
Here, I show some information about my data and input files of XDS.
Wavelength (A) 1.
Raster size (mm) 0.10240 (default)
Raster size (mm) 0.10240 (default)
Film width (mm) 209.72 (default)
Film length (mm) 209.72 (default)
Record length (pixels) 2048 (default)
Number
12 matches
Mail list logo
