I feel that is rather severe for ML refinement - sometimes for instance
it helps to use all the data from the images, integrating right into the
corners, thus getting a very incomplete set for the highest resolution
shell. But for exptl phasing it does not help to have many many weak
reflectio
Hi folks
The latest release of iMosflm (the new Mosflm GUI) is available now.
The major development is a native MS-Windows version. Beta-testing
indicates that this is at least as reliable as the other versions.
For further details, including those for download and installation, see:
ht
When youu run scalepack2mtz the GUI always follows this by TRUNCATE to
convert Is to Fs
At that stage there is an attempt to put the data on roughly an absolute
scale, either using the NRES you gave as input or if that is not set, I
think assuming 50% of the cell volume is protein.
Anyway the
Hi,
You can read both files back into scalepack and scale them. Better
still, if you have the .x files from denzo, read both sets into
scalepack. Scenarios both in the manual.
Johan
yang li wrote:
Hi:
I have two set of data from the same crystal with the names 1.sca and
2.sca,
they hav
A less convoluted method is to read both .sca files into xprep, scale
them together and write out the combined .sca file.
George
Prof. George M. Sheldrick FRS
Dept. Structural Chemistry,
University of Goettingen,
Tammannstr. 4,
D37077 Goettingen, Germany
Tel. +49-551-39-3021 or -3068
Fax. +49-5
Beamline Design Workshop
Macromolecular Crystallography at PETRA III
EMBL-Hamburg Outstation, April 23 to 25, 2007
Starting in 2007, the PETRA storage ring in Hamburg, Germany,
will be converted into a 3rd generation source for synchrotron
radiation. The new PETRA III storage ring
Yes -
and actually Johan's suggestion is the best - one should not merge two
sets of already merged data,
better is to scale and merge all together in scalepack..
Eleanor
George M. Sheldrick wrote:
A less convoluted method is to read both .sca files into xprep, scale
them together and write o
I will agree with Ulrich. Even at 3.0 A, it is
possible to have a structure with reasonable accuracy
which can explain the biological function/ or is
consistent with available biochemical data.
Ranvir
--- Ulrich Genick <[EMAIL PROTECTED]> wrote:
> Here are my 2-3 cents worth on the topic:
>
> Th
There are journals that have specific specifications for these parameters,
so it matters where you publish. I've seen restrictions that the highest
resolution shell has to have I/sig > 2 and completeness > 90%. Your
mileage may vary.
I typically process my data to a maximum I/sig near 1, and compl
A programme is now available for the
EMBO Workshop on THE CHEMISTRY AND BIOCHEMISTRY OF CATALYSIS BY BIOLOGICAL
SYSTEMS - 20 - 22 June 2007, EMBL Hamburg
Please visit our website for workshop and registration details:
http://www.embl-hamburg.de/workshops/2007/catalysis/
or contact: [EMAIL PRO
I have a question about how the experimental sigmas are affected when
one includes resolution shells containing mostly unobserved
reflections. Does this vary with the data reduction software being
used?
One thing I've noticed when scaling data (this with d*trek (Crystal
Clear) since it's
> I typically process my data to a maximum I/sig near 1, and
> completeness in
> the highest resolution shell to 50% or greater. It
What about maps computed of very incomplete datasets at high resolution? Don't
you get a false sense of details when the missing reflections are filled in
with DFc
Postdoctoral Position in Structural Biology / Biochemistry
We are looking for a highly motivated Postdoc for our laboratory at the
Institute for Physiological Chemistry at Ruhr-University Bochum, Germany.
Our work involves biochemical and structural studies on cellular signaling
systems with
I have observed something similar myself using Saint in a Bruker
Smart6K detector and using denzo in lab and syncrotron detectors.
First the I over sigma never really drops to zero, no mater how much
over your real resolution limit you integrate.
Second, if I integrate to the visual resolution
My guess is that the integration is roughly the same, unless the profiles
are really poorly defined, but that the scaling that is suffering from
using a lot of high-resolution weak data. We've integrated data to say
I/sig = 0.5, and sometimes seem more problems with scaling. I then cut
back to I/si
Hi Citizens:
Does anyone use an uninterruptible power supply for their X-ray
generator? Here at UCDIY, the electricity supply is pretty sketchy,
and it is hammering our X-ray generator every time someone forgets to
feed the hamster or grease his wheel. If so, how much does such a
thing c
On Thu, March 22, 2007 3:46 pm, William Scott wrote:
> Hi Citizens:
>
> Does anyone use an uninterruptible power supply for their X-ray
> generator? Here at UCDIY, the electricity supply is pretty sketchy,
> and it is hammering our X-ray generator every time someone forgets to
> feed the hamster o
Hi,
I'm trying to get the difference map by subtracting the native electron
density map from the complex electron density map. MAPMASK has a function
of ADD/MULT, but I don't know how to use it?
Any other ways to attack this problem in real space?
Thanks in advance,
Qing
On Thu, 2007-03-22 at 16:06 -0500, Qing Xie wrote:
> I'm trying to get the difference map by subtracting the native electron
> density map from the complex electron density map. MAPMASK has a function
> of ADD/MULT, but I don't know how to use it?
> Any other ways to attack this problem in real s
CCP4 bulletin board wrote on 03/22/2007 04:46:35
PM:
> Hi Citizens:
>
> Does anyone use an uninterruptible power supply for their X-ray
> generator? Here at UCDIY, the electricity supply is pretty sketchy,
> and it is hammering our X-ray generator every time someone forgets to
> feed the hamster
Frankly, Bill, this is what you need:
http://ce.eng.usf.edu/pharos/wonders/Modern/itaipu.html
Yours,
Bob
On Thu, 22 Mar 2007, [EMAIL PROTECTED] wrote:
CCP4 bulletin board wrote on 03/22/2007 04:46:35
PM:
Hi Citizens:
Does anyone use an uninterruptible power supply for their X-ray
genera
On Thu, 2007-03-22 at 18:54 -0400, [EMAIL PROTECTED] wrote:
> I never considered getting a UPS for my generator, even though our building
> has no backup power and Con Ed also forgets to feed their hamsters
> occasionally. What I did get was a UPS for my cryostream - I figured that
> the data col
Why not simply scale the two data sets, and subtract corresponding Fs
from one another and then
calculate a map from those Fs.
If you want to an error-weighted map, you should also perform
error propagation on your sigF. Assuming that the two errors are
independent of one another
the formula
Mapman (Uppsala software factory) allows you to subtract maps
if they are on the same grid. You may need to multiply one
map by a factor (again in mapman) to make the background flat
in the regions you believe to be identical.
Linearity of the Fourier Transform implies you could get
the same resu
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