Thanks to all - got a few!
-Original Message-
From: CCP4 bulletin board [mailto:ccp...@jiscmail.ac.uk] On Behalf Of
Bernhard Rupp (Hofkristallrat a.D.)
Sent: Monday, October 18, 2010 7:05 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] Milch and Minor
Dear All,
my J Appl Cryst collection
Lesenswert !
Worth reading !
http://journals.iucr.org/j/issues/2010/05/02/issconts.html
Could somebody send me the pdf from Bayes 1763 ?
Jürgen
-
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
61
Only once ? I doubt that :-)
-
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry & Molecular Biology
Johns Hopkins Malaria Research Institute
615 North Wolfe Street, W8708
Baltimore, MD 21205
Phone: +1-410-614-4742
Lab: +1-410-614-4894
Fax: +1-410-955
I certainly did not email it to him!
On Mon, Oct 18, 2010 at 19:05, Bernhard Rupp (Hofkristallrat a.D.)
wrote:
> Dear All,
>
> my J Appl Cryst collection does not extend far enough to unearth
>
> J. Appl. Cryst. (1974). 7, 502-505 [ doi:10.1107/S0021889874010284 ]
> The indexing of single-cry
Dear All,
my J Appl Cryst collection does not extend far enough to unearth
J. Appl. Cryst. (1974). 7, 502-505[ doi:10.1107/S0021889874010284 ]
The indexing of single-crystal X-ray rotation photographs
J. R. Milch and T. C. Minor
perhaps someone has a pdf and would certainly not email it to
Did you check your data for twinning and/or pseudo symmetry using
phenix.xtriage or Pointless? If the space group is incorrect, these
programs will also assist you in selecting the correct one. What were the
Z-scores for the rotation and translation functions?
On Mon, Oct 18, 2010 at 7:39 PM, Jy
1. How does the MR map look like ? Do you see features resembling a real
solution or just noise ?
2. If the map looks decent, then try running a rigid body refinement using
Refmac. Does the Rwork/Rfree dro ?
3. At this point you should look at the difference density map in Coot and be
able to
Hi All
I have a dataset at 1.9A, spacegroup-P212121 (unit cell: 37.7, 39.52, 231.72,
90, 90, 90),
I used MR phaser and got a structure solution with LLG= 320 (1copy/a.u) .
During refinement, the R-free (50%) and R-factors (42%) never go down.
I have tried refining in phenix and refmac both, bu
Dear all --
for those interested, we have few good positions opening at the High
Energy Accelerator Research Organization (KEK).
You don't want to miss the chance to come and work in this wonderful
country that is Japan!!!
Please have a look at the links below:
http://www.kek.jp/intra-e/jobs
I think you should look at pubmed id 14604526, it works well for me. You should
obtain the cells if you contact the authors.
Michel.
Le 18 oct. 2010 à 17:27, Daniel Bonsor a écrit :
> Have you looked at the Keio collection. Though they are not compatible with
> T7 promoters, you can use the
Dear all --
for those interested, we have few good positions opening at the High Energy
Accelerator Research Organization (KEK).
You don't want to miss the chance to come and work in this wonderful country
that is Japan!!!
Please have a look at the links below:
http://www.kek.jp/intra-e/jobs/
Kin
Dear all --
for those interested, we have few good positions opening at the High Energy
Accelerator Research Organization (KEK).
You don't want to miss the chance to come and work in this wonderful country
that is Japan!!!
Please have a look at the links below:
http://www.kek.jp/intra-e/jobs/
Kin
Takeda San Diego, Scientist Membrane Protein Chemistry
We are seeking outstanding Membrane Protein Scientist to processes,
express and then highly purify integral membrane proteins (e.g. GPCRs,
ion channels and membrane-associated proteins) and their complexes with
agonists or antagonists for crys
On behalf of Mar Pérez (Head of CNIO Training Office)
Dear colleague,
I would like to draw your attention to the 2010 calls for the
International Ph.D. and Postdoctoral Programmes at the Spanish National
Cancer Research Centre (CNIO). We would greatly appreciate if you could
forward the in
Have you looked at the Keio collection. Though they are not compatible with T7
promoters, you can use the λDE3 Lysogenization Kit to add the T7 polymerase.
A possible source is from Yale http://cgsc.biology.yale.edu/Auxotrophs.php
though of course there are others.
Dan
Does anyone know a commercial source of Cys-auxotroph strain of E. coli to
prepare a doubly (Se-Cys + Se-Met) labeled protein? I would appreciate if
you can share your experience if you have labeled your protein in this way
to improve Se signal for phasing.
Thanks,
-Yogesh
--
--
Hi Mousheng,
[if it gets too SHARP-centric we can also move this discussion also to
sharp-discuss or our developers mailing list sharp-develop]
On Mon, Oct 18, 2010 at 08:33:47AM -0500, Wu, Mousheng wrote:
> my solvent content is supposed to be 65% (one molecule per
> ASU).
which seems to match
Dear Klaus,
With extensive travel in the meantime, we're sorry that it took us so long to
get
back to you on this.
Well, the true answer is that any resolution might be expected on the PX
Scanner.
Thus, sometimes we have observed higher resolutions on the PX Scanner than
observed
Hi, Clemens,
sorry for the confusing and unclear expression of my case.
>Confused ... what program/procedure did you use for what you call "density
>modification" and what for "solvent flattening"?
my solvent content is supposed to be 65% (one molecule per ASU). Sharp
automatically did densit
Dear Mousheng,
as others, I'm also a bit confused about the steps you did:
On Sun, Oct 17, 2010 at 02:29:12PM -0500, Wu, Mousheng wrote:
> Dear All,
>
> I have a MAD dataset at 4Å and shelxD can find clear-cut 10
> solutions (my protein has 12 methionines).
Good.
> I ran autosharp to refine th
On 10/17/10 15:29, Wu, Mousheng wrote:
Dear All,
I have a MAD dataset at 4Å and shelxD can find clear-cut 10 solutions (my
protein has 12 methionines). I ran autosharp to refine them followed by density
modification. After density modification, I ran solvent flattening. Then I
calculated the
Hi Kornelius,
On Mon, Oct 18, 2010 at 02:03:53PM +0200, Kornelius Zeth wrote:
> What I noticed was that the spot profiles in XDS looked not as the
> are supposed to, presumably because the mosaicity of the spots are
> 0.4-0.6 and spot integration may be hampered. Still, merging
> Rfactors are bril
Dear Kornelius,
a few thoughts that come to my mind:
- Are you sure about the space group P6? For proteins, P6_1, P6_2, ...,
P6_5 are more usual.
- Did you try both hands of the Se-sites? In case of space group P6_n,
you have to invert both the handedness of the sites _and_ of the space
gr
Dear all,
we have collected S-SAD data (2x4000 Frames, 0.1 degrees, wedges of 40 Frames,
Rf between 3-5% overall) and received a dataset to 2.5 A which is complete with
a redundancy of 30-40. Space group is P6 and the AU 120 residues, 6 Mets.
Native data are up to 1.9 A Sharp and Phenix both re
Seema,
The problem actually originates from the scaling of the data that
assumes a monomodal distritbution of the intensities. This is not the
case with pseudotranslation and there are two sets of reflections: the
weak, pseudo-absent reflections and the strong reflections. The
scaling
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You dont need to reprocess - just reindex k,l,h or whatever you want to do..
Reprocessing is not necessary if you are keeping the same pointgroup.
There is no change in the expected geometry of the diffraction.If for
example you were changing from pontgroup P222 where all angles are
restrained
Most density modification programs include aspects of solvent flattening
- it is unnecessary and apparently counter-productive to do it again..
Eleanor
On 10/17/2010 08:29 PM, Wu, Mousheng wrote:
Dear All,
I have a MAD dataset at 4Å and shelxD can find clear-cut 10 solutions (my
protein ha
ODD INDEED!
When you get crystals with the same morphology for three different
proteins in same condition
you should start suspecting that they are not protein crystals but
something to do with
a combination of the common buffer for each of the proteins or/and the
precipitant used
Enrico.
How can you have 3 copies and one strong pseudo translation?You probably
need an even number of molecules with pairs related by the translation
vector.
Eleanor
..
On 10/17/2010 05:48 AM, Mike John wrote:
Hi all,
The data is 2.2A, p41212, unit cell has c axis twice longer
than a or b.
Dear colleagues,
many thanks for all of your kind support, following my request about
placing dummy atoms into en EM-map! Here is a short summary:
Frederic Vellieux kindly offered me to use his programs with clever
positioning of atoms in a density.
Paul Emsley pointed to a program "findwaters
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