Dear Carsten, dear Tarun
are you sure HKL can process the unwarped images? As far as I
understand, the distortion is detector specific, i.e. each detector has
its own undistortion description. As Kay pointed out, reading sfrm is
not a problem, it is very well documented (and a neat format).
Once
Thank you Jacob and Ethan!
I haven't put water molecules into the density blob, which aren't many out
there, but I fitted the ligands in already. Molbrobity statistics are not
yet great, since there are 13.5% rotamer outliers.
Will adjust the models manually, and try refmac and TLS refinement.
T
On Wednesday, 10 June, 2015 17:35:25 Mengbin Chen wrote:
> Hello everyone,
>
> I am refining a 2.5 angstrom structure whose phase is solved by molecular
> replacement with a search probe determined by SAD with 3 angstrom
> resolution. While I am able to see densities of a bunch of water molecules
I say try going to lower symmetry, see what the twin fractions are. Also,
perhaps try refmac, where twin fractions are automatically defined/refined.
JPK
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Mengbin
Chen
Sent: Thursday, June 11, 2015 12:35 AM
To: CCP4BB@JISCMAIL
Hello everyone,
I am refining a 2.5 angstrom structure whose phase is solved by molecular
replacement with a search probe determined by SAD with 3 angstrom
resolution. While I am able to see densities of a bunch of water molecules
and ligands in the MR solved structure, which means that the phase
I would like to draw your attention to a postdoctoral position in Amgen San
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http://careers.amgen.com/en/jobs/descriptions/postdoctoral-fellow-molecular-engineering-south-san-francisco-job-5461195
Xiaoshan Min
Molecular Structure
Amgen San Fra
Your Figure 1 suggest a secret message - or at least I view it that way.
The early steps “basic research” seems to be funded by Euros, while the in
silico part is funded in Dollars.
Or was that unintentional ?
Jürgen
..
Jürgen Bosch
Johns Hopkins University
Bloomberg School
Hi Tarun,
Carsten is right the Proteum2 software is really good. I can send you
some introduction pdfs and for SADABS (scaling) I am currently writing
an SOP, the manual is also well written.
Besides this the program to unwarp and convert images, is in the
instrument tab.
Best regards, G
of course, Kay is right; I just assumed that the frames were "warped", or not
corrected for spatial distortion. Mosflm does require "unwarped" data from the
Bruker CCD detectors. I haven't seen images from their CMOS detectors which may
not require unwarping (but probably will...).
Harry
--
Dr
Tarun,
in my group we used to have a Proteum6000 CCD from Bruker. With the right
detector descriptions from the HKL folks we able to use HKL2000, talk to the
hkl folks, you may also need another license covering that detector though.
Alternatively Bruker provides the Proteum suite (I think that
I don't think the .sfrm ending means that the data can or can not be read by
non-Bruker software.
The crucial difference is between "warped" and "unwarped" data, if I understand
correctly. XDS (and I think MOSFLM) can only process "unwarped" data. As Harry
says, there is an "unwarping" utility
Hi Harry,
We have tried the frm2frm sofware but it didn't work out for as.
On Wednesday, 10 June 2015 12:54 PM, Harry Powell
wrote:
hi
If you pre-process the images with the Bruker utility "frm2frm"* you should be
able to transform them into a format that Mosflm can process.
* it
hi
If you pre-process the images with the Bruker utility "frm2frm"* you should be
able to transform them into a format that Mosflm can process.
* it used to be called frm2frm, but may now be called something else - someone
from Bruker should be able to help you!
Harry
--
Dr Harry Powell, MRC L
Dear All, We havecollected the data from a Bruker x-ray machine, it was in
.sfrm format which isnot readable by mosflm and hkl2000. Can you people help me
how to workout this problemby mosflm or any other suitable software .
Thanks in advance
It works again now. Sorry for the inconvenience.
--Gerard
On Tue, 9 Jun 2015, Xiao Lei wrote:
Hi All,
I am trying to get electron density map of some pdb structures, I know
there is a database called "Electron density server" (EDS
http://eds.bmc.uu.se/eds). But somehow these days I can not c
Dear all,
MoRDa is a pipeline for molecular replacement protein structure
solution with X-ray data. MoRDa is based upon its own domain database.
The software package contains a database and a set of programs
for structure solution.
The package is available for Mac or Linux.
You can find more i
I think the Zalman's are not available anymore. When our last one died we
bought the Asus VG23AH (also passive 3D). Works similar to the Zalman for
Coot and Pymol,
Best,
Daniel
On Wed, Jun 10, 2015 at 5:00 AM, Peng GONG <
055a9db99734-dmarc-requ...@jiscmail.ac.uk> wrote:
> Hi Tom,
>
> I think
Dear all,
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The aim is to provide MX users with sufficient training to be able to operate
any of the Diamond MX b
Dear all,
I just learned that the attached PDF was not passed to the BB.
Here is the add.
Best,
Xavier
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Hi Fellows,
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Let's hope it has some positive effect.
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Dear Dusan,
Following up on Gerard's comment, we also read your nice paper with great
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sets with less than 1000 reflections in total. It imp
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