Seeking international collaboration. Project: Structural determination and
functional study of a peptide-a potential medicine for clinical therapeutic
treatment of Erectile dysfunction.
About the details of the peptide, please see Toxin Tx2-6 from the spider
Phoneutria nigriventer improves
On Oct 2, 2009, at 5:47 AM, Morten Kjeldgaard wrote:
Version 1.2.0 of gpp4, a standalone, drop-in replacement for the CCP4
library has been released.
Dear Morten:
That's fantastic news. Thanks so much for your hard work. I've been
using gpp4 (along with many others who use coot on OS X)
Dear all,
I thank everyone who directed me to coiled coil structures where the alpha
helical chains are related by a crystallographic axis. My question was prompted
by an examination of structures (mainly parallel homodimers) where this is not
the case. In most structures, including 2zta (the
Post-doctoral position in Biochemistry and Structural Biology with emphasis
on Antioxidant Proteins.
Post-Doctoral position open for research in one of the following areas:
Structural biology; antioxidant protein mechanism of action; oxidative
stress response. Candidate should possess PhD title
Post-doctoral position in Biochemistry and Structural Biology with emphasis
on Antioxidant Proteins.
Post-Doctoral position is available for research in one of the following
areas: Structural biology; antioxidant protein mechanism of action;
oxidative stress response. Our program encompasses a
Hi everybody,
is there a way to improve crystals that diffract strongly anisotropic? We got
data between 2.5 and 4.0 A and scala says we should cut these data at 3.9 A.
It's such a... I want to solve this structure!
greetings
Katja
__
Do You
Hello all,
Anyone have any tips for reducing agents for use with the following
crystallization conditions:
100 mM hepes, pH 7.5, 24% PEG 1500
or
100 mM Tris, pH 8.0, 24% PEG 1500
I've tried BME and DTT (1 mM). Currently trying out TCEP. The protein
seems to be sensitive to oxidation, with
Of these, typically TCEPDTTBME in terms of
effectiveness in maintaining reduced Cys groups. Some proteins, when
purified, require obscenely large reducing agent concentrations to keep
them stable. One of our "horror show" proteins required 100 mM DTT + 10
uM EDTA to remain stable. You should
Hi Katja,
you may consider trying this:
http://www.doe-mbi.ucla.edu/~sawaya/anisoscale/
but PLEASE do not deposit corrected data to PDB.
Also, I would just try to refine the structure and see how it goes (see
if you really need to use the above tool).
Pavel.
On 10/5/09 8:21 AM, Katja
Have you considered seeing if anyone has an anaerobic chamber you can
work in?
Ezra
On 10/05/2009 11:39 AM, Roger Rowlett wrote:
Of these, typically TCEPDTTBME in terms of effectiveness in
maintaining reduced Cys groups. Some proteins, when purified, require
obscenely large reducing agent
I refrained from entering the fray during last month¹s discussion of
anisotropic data in refinement, but I wonder if there is any consensus
regarding treatment.
It seems to me that during refinement scaling to calcs should be superior to
even the very elegant likelihood methods. Another problem
I can't comment about your other questions but I will weigh in
on your refinement question.
I may misunderstand exactly what you mean by Fcalcs become
anisotropic but by my understanding, the answer is yes. I have
taken a model and set of structure factors from the PDB when the
model was
On 10/5/09 9:46 AM, Ben Spiller wrote:
For the refinement case, do others think that Fcalcs become
anisotropic? Or that the liklihood method developed by Read and
others is superior even at late stages?
FYI:
In phenix.refine (or CNS) the total model structure factor is defined as:
Fmodel
Dear CCP4,
I'm looking for advice on mounting thin needles for low temperature data
collection. Our needles are fairly long (100-200 microns) but only 20
microns or less thick. When I pick them up with Hampton loops (0.05-0.1 mm
size), the crystals tend to break as they are moved out of the drop
Yes, try the TCEP. You can also try alkylating agents like
iodoacetamide. Also consider mutating away your cysteines.
Ho
ConfometRx
Hello felow MO crystallographer,
For all it's worth, a while ago I've compiled a little document which
describes mounting needles. I've converted it into PDF and posted it here:
Nothing is built on stone; all is built on sand, but we must build as if
the sand were stone
Jorge Luis Borges
Useful summary, Artem.
Two comments spring to mind.
- I have had trouble with slight bending of needles when frozen like
this, causing problems with mosaicity. (Presumably due to different
forces acting on the parts of the crystal within and without the loop.)
- You can have lots of trouble
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