James Stroud wrote:
... What is the
operation to reindex such that real space is rotated 180 about z? These
are in P212121.
Isn't that the 21 along z in your orthorhomic space group? Just apply it
to your MR solution instead, and add an affine normaliser if needed to
superpose the solutions
Hello All,
I have two crystals (that I'll call "data set 1" and "data set 2")
that seem to be isomorphic, but y and z are transposed between the two
data sets. Reindexing data set 2 with the operators
h => -h
k => l
l => k
makes the axes match data set 1, but running MR with the prev
Dear all,
I want to pull out the sugar binding proteins from the pdb, however, there
are so many different names for the ligand ( GAL, GLC, RIP... ) and it's not
easy to get a complete list. If I want to pull out some fragments based on a
specific geometry ( for instance, the glucose has C1 C2 C3 C
Hi, everyone
I have a question about HKL2000 too. During scaling, there is a check
option call absorption correction. I processed the data with and
without it checked. With absorption correction checked, my rejection
file is only 0.4%. When I leave it out, the rejection file is 0.8%.
I read throu
> I don't think many job interviews for **crystallographers** these days
include a question on how to calculate the angle between two vectors.
I'd change that to **Structural biologists**. If you call yourself a
bona fide crystallographer, probably a good idea to have the
basic math handy. Won'
Lawrence Berkeley National Laboratory (Berkeley Lab) offers a unique
postdoctoral position to be involved in the development and use of soft
and hard x-ray scattering applied to material science.
This is an exciting opportunity to work at the world-renowned Advanced
Light Source (ALS), a nat
Just an update, I ended up downloading binaries per Axel, and
everything appears to be happy.
Leonard Thomas Ph. D.
Macromolecular Crystallography Laboratory Manager
University of Oklahoma
Department of Chemistry and Biochemistry
620 Parrington Oval
Norman, OK 73019
lmtho...@ou.edu
http://bar
Leiman Petr wrote:
Every other week this question comes up!
This is Geometry 101 or beginner's geometry!!!
http://www.euclideanspace.com/maths/algebra/vectors/angleBetween/index.htm
I am not sure if it possible to understand _anything_ in crystallography if it is not clear how to calculate an a
What are you doing?
Write this as an iPhone App! Charge $0.99 and you will be set! :-)
Of course, I will need my $0.02 per App comission for giving the idea out.
Thanks,
Chris
On Thu, 16 Apr 2009, Clemens Vonrhein wrote:
>>>Hi,
>>>
>>>And if you want a simple and trivial awk script (based o
Hi,
And if you want a simple and trivial awk script (based on that
google'ing that Charlie described): save attached file in your path,
make it executable and run it e.g. as
% vecang 1.23 3.45 6.78 9.87 7.65 5.43
Cheers
Clemens
PS: sorry it isn't in python/scheme or something similarly mode
I've previously done it by using the centroids of the Calphas from the
first 4 residues and last 4 residues of the helix to define the vector
(7 residues might be better if the helix is long enough). It seemed to
work well enough by eye.
From then on it is simple vector algebra (google 'dot p
I suspect that PCA will only give you a good estimate of the helix
direction with a long helix. I've done it (less elegantly perhaps) by
superimposing an ideal helix which has its axis along z, then
extracting angles from the superposition matrix. However I'm afraid
I've not packaged this s
On Apr 16, 2009, at 2:29 AM, James Stroud wrote:
On Apr 16, 2009, at 1:18 AM, Leiman Petr wrote:
I am not sure if it possible to understand _anything_ in
crystallography if it is not clear how to calculate an angle
between two vectors!
More difficult is deciding exactly how to define said v
On Apr 16, 2009, at 1:18 AM, Leiman Petr wrote:
I am not sure if it possible to understand _anything_ in
crystallography if it is not clear how to calculate an angle between
two vectors!
More difficult is deciding exactly how to define said vectors in the
first place, especially when one i
recently I have had much success stopping pesky proteins sticking to
my SEC columns by sticking 10% galactose in my buffer.
cheers
andy
2009/4/16 conancao :
> Hi:
>
>I have seen some protocols(IMPACT from New England Lab etc.) which can
> overexpress protein with a tag then cut or displace th
Every other week this question comes up!
This is Geometry 101 or beginner's geometry!!!
http://www.euclideanspace.com/maths/algebra/vectors/angleBetween/index.htm
I am not sure if it possible to understand _anything_ in crystallography if it
is not clear how to calculate an angle between two vec
16 matches
Mail list logo
