could anyone share their experience in seeding from a low-twin fraction
crystal found in a drop with high twin-fraction crystals?
-bryan
Mark,
I had a very similar problem. Varying twin fraction in identical drops -
no logical pattern. I eventually solved the structure as you seem to
have, screening dozens of crystals to find an untwinned crystal or at
least one with very low or statistically insignificant twin fraction
(which
I agree with you Mark. Even in my case the twinning fractions
varied substantially among the different crystals grown in same
drop. Moreover, I feel the fractions may vary at different part of
the crystal too. Please correct me if i am wrong.
regards
Manish
Mark Mayer <[EMAIL PROTECTED]> wro
I experienced the same behavior. Crystals from the same drop could have
varying twin fractions. Screening for twinning can be done with
remarkably few degrees of data. Of course, all proteins and all twins
aren't equal. So, don't expect to have varying twin fractions all the
time.
Happy R
Hi Mark,
Estimating twin fractions is best done on the basis of refining it with
a model. This can be done with phenix.refine or other programs like
shelx or CNS.
The ML estimate ofd the twin fraction relies on the correctness of the
sigmas. The 0.02 is actually the lower limit the ML proced
For cases where people have had merohedral twinning, did the twin fraction vary
substantially
between individual crystals grown under indentical conditions? I have no prior
experience with
merohedral twinning, and was surprised to see that the twin fraction varied
substantially as detailed
be
Research/Senior Associate - Structural Biology - Metabasis Therapeutics
Inc. - San Diego, CA
We invite you to join the team of committed and talented scientists to
develop novel drug towards metabolic and related diseases. You will have
an excellent opportunity to apply the science of protein
you can derivatize the protein before crystallization. By
mass you can check the amount as most derviatives bind
covalent. Moreover you can remove metal that doesn't bind.
Best of luck
Kornelius
On Tue, 17 Apr 2007 13:49:33 -0400
[EMAIL PROTECTED] wrote:
> Hi,
>
> Without knowing exactly what
Hi,
Without knowing exactly what you did, it's hard to guess however here are
a few suggestions, in addition to the ideas already given by others:
a. try iodination. Simply place an iodine crystal near the drop (glue it
to the cover slip using a tiny bit of grease) and let the vapors penetrate
th
Hi Daniel,
You can also refer to HATODAS, http://hatodas.harima.riken.go.jp/, where you
can find suitable heavy atom compounds to use based not only on the sequence of
your protein but also the crystallization conditions, as is your case.
This is based on the following paper:
Heavy-atom Databa
Hi Daniel,
1. You may try Xenon or Kr pressure cell. We have a simple version of these
cells at SSRL (see the link below). Rigaku also has slightly more complex
version. Let me know if you want to try this and you don't have access to a
pressure cell.
http://smb.slac.stanford.edu/public
Hi, Daniel,
Have you tried Br? Do a search on Zbyszek Dauter and halide phasing. Good
luck,
Hidong
Daniel Gutmann <[EMAIL PROTECTED]>
Sent by: CCP4 bulletin board
04/17/2007 10:03 AM
Please respond to
Daniel Gutmann <[EMAIL PROTECTED]>
To
CCP4BB@JISCMAIL.AC.UK
cc
Subject
[ccp4bb
Hey there,
I have crystallised a protein in 30% MPD and it it gives nice native
data. However, it seems impossible to get heavy metal derivatives and
I read that MPD does chelate heavy metals. Did any of you make
similar experiences with xtals in MPD conditions? If so did you find
a go
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Rongjin,
Yes, there most definitely are numerous examples of phosphorylated,
glycosylated, lipidilated, etc. etc. proteins crystallized. Since you are
asking specifically about phosphorylation here are my two cents:
a. over one half of all heterogenously expressed kinases are phosphorylated
b. ab
I don't think you meant to do this.
"polar 45 45 0" means no rotation: the 3rd value is the rotation
around the axis defined by the first two angles. If you rotate by 0
degrees, it doesn't matter which axis you don't rotate around.
Phil
pdbset xyzin test-0_2fold.pdb \
xyzout temp
Dear developers,
trying to get some test coordinate sets with pdbset
(suse linux 10.1,ccp4-6.0.2,PDBSET version 6.0: 17/10/06)
the option rotate polar does not give the correct values.
May be that is due to the special case of coordinates positioned
at a circle around the z-axis (see attachements)
Thank you all for your helpful contributions. Here is a sumary of the
sugestions offered.
1)Not very critical, but could consider a nucleic acid to have about twice the
size of a typical aminiacid.
2)Just an estimate is needed. Could simply calculate 3 residues per base or 6
per base pair.
amino
Dear all.
Thanks to all of those who replied to my question, especially Clemens
Vonrhein, who patiently helped me get SHARP up and running...
Basically, there were 4 different ways suggested, with a few
embellishments here and there.
1) Use Dano peak height.
Taking the Dano peak height for intr
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