Dear all,
I am risking life and limb here, and possibly wining a first row seat
to 'Morten's Inferno' for modelers!
I want a software that will do some docking of a flexible ligand to a
rigid protein model. Consensus google search suggested me to
use AutoDock 4/Vina. (I am looking for
Described at:
http://www.ccp4.ac.uk/dist/html/refmac5/keywords/xray-principal.html#scal
Simple scaling doesn't take into account the bulk solvent at all, whereas
Babinet is a simple fix. A more sophisticated treatment of bulk solvent is
given by the SOLVENT keyword:
Hi everybody,
sorry for my off-topic question. I got small initial crystals in 200mM NaSulfat
and 20% PEG 3350.
There is no buffer in this condition. How can I optimize these crystals? Just
vary the PEG concentration? Or should I add a buffer; or vary the pH of the
buffer the proteinsolution
Forgot to hit the Reply all button (sorry :-( )
---BeginMessage---
Katja Schleider wrote:
Hi everybody,
sorry for my off-topic question. I got small initial crystals in 200mM
NaSulfat and 20% PEG 3350.
There is no buffer in this condition. How can I optimize these
crystals? Just vary the PEG
Hi Katja,
Sodium sulphate forms a solution of neutral pH in water.
200 mM of Na2SO4 will buffer the crystallization solution at pH 7, in
addition to acting as a salt. You could try varying the concentration of
PEG and Sod.sulphate now to see if the crystals get better. Sometimes using
Hi all, I'm using the distributed Refmac version 5.5.0109 (OS = Centos
4.6) and I get this cryptic error message at the end of cycle 13:
1
0.3931933 1.013090 8.5092507E-02 -2.2578495E-02 -0.1768152
-0.1084905
2.9251081E-04 2.0343070E-03 3.6935641E-03 -8.4393099E-04
Hi Katja,
it makes perfect sense to add a buffer to your assay. Of course for the
beginning something which buffers well around pH 7 like HEPES, BTP, etc. would
be appropriate. If your purification protocol is optimized I would not change
the conditions of the purification buffer. But this
Two postdoctoral positions are available in the Genome Stability Structural
Biology group (Williams Laboratory) of the National Institute of Environmental
Health Sciences (NIEHS/NIH), Research Triangle Park, North Carolina. Related
research projects will investigate structural and functional
Marie-Helene--
We have included 3-5% 1,2-propanediol in the protein buffer (as a
substitute for glycerol) to stabilize proteins and have seen improvement
in the long term storage in many cases.
Hope this helps!
annie
Annie Hassell
Glaxo Smithkline
5 Moore Drive
RTP, NC 27709
919/483-3228
http://www.xbitlabs.com/news/mobile/display/20091118173434_Nvidia_Adds_Stereo_3D_Vision_to_Notebooks.html
Nvidia Adds Stereo 3D Vision to Notebooks.
Asustek Computer to Add Stereo 3D to Mobile PCs
This is the 120 Hz LCD technology.
But still, no Linux drivers.
-
Howdy All,
The refmac5 ccp4i GUI is barfing for one of my users. The GUI error is:
can't read array(NATOMS): no such element in array
can't read array(NATOMS): no such element in array
while executing
if {$array(N_DEPFRAMES_$def_proc0) = 0 $array($indexVar) 0 } {
append
Mmmm. This rings a bell. It is either:
1) an infelicity re-running an old job - start from a new task window
2) the user has a file ~/.CCP4/CCP4I_TOP/tasks/refmac5.def - delete it
If it is really only one of your users, then it is probably the
second ...
HTH
Martyn
On Thu, 2009-11-19 at 13:59
Many textbooks describe the B factor as having units of square Angstrom
(A^2), but then again, so does the mean square atomic displacement u^2,
and B = 8*pi^2*u^2. This can become confusing if one starts to look at
derived units that have started to come out of the radiation damage
field like
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