On 21 May 2008, at 7:00, yang li wrote:
Hi,
I have a structure with 3 different resolutions, 2.3A, 2.4A,
2.5A, the qualities seem normal, not good but also not too bad.
The B factors along a,b,c axis have notable difference, for example
B(a)=80, B(b)=30, B(c)=20. We used molecular
replac
On Tuesday 20 May 2008 22:24, Pavel Afonine wrote:
I agree with Pavel - it is suspicious that TLS refinement
would increase Rfree. That really shouldn't happen.
Are your 3 data sets are truly isomorphous, or could it be that the
one with the bad R factors is really in a lower symmetry space grou
Hi Yang Li,
- the data-to-parameters ratio is not good for individual anisotropic
ADP refinement at this resolution;
- I'm wondering why TLS refinement increases the Rfree... How did you
select the TLS groups? Did you try to use TLSMD for this (thanks Ethan,
it produces TLS groups selections r
Hi,
I have a structure with 3 different resolutions, 2.3A, 2.4A, 2.5A, the
qualities seem normal, not good but also not too bad.
The B factors along a,b,c axis have notable difference, for example B(a)=80,
B(b)=30, B(c)=20. We used molecular
replacement to solve the structure. For the 2.3A data
You would need to incorporate as much information you can find as possible to
make the 'best' prediction of domain boundaries. Typically, I would put
together all the following information in one multiple sequence alignment to
design domain constructs for structural studies.
- Known structural
Hi,
This is not a single-step procedure and as far as I know there are several
ways to do this - but I would recommend first to build a model of the
domain(s) you're interested in. That is, if you can do that. Based on the
model you should be able to derermine the first (last) amino acids which
Hello Sajid,
The crosshairs are chip boundaries on a multi-CCD detector. No need to mask
them.
Your lattice appears to be twinned, on cursory inspection. Also you have bad
cryo - I bet if you improve your cryo, the resolution of observable
diffraction increases by at least 0.3A.
Good luck,
Arte
You can try:
http://toolkit.tuebingen.mpg.de/hhpred
this gives you a nice domain border prediction based on analog. structures.
Best wishes
Kornelius
On Tue, 20 May 2008 19:34:39 +0200
Jayashankar <[EMAIL PROTECTED]> wrote:
> Dear friends and scientists,
>
> (A pre-Structural biological ques
Its not necessary to mask the crosshairs in HKL2000.
This crystal wasn't frozen well. Was it a plate crystal? It looks like
you have some serious problems in your looping. This is an intensely
promising crystal with strong diffraction at lower resolution. Notice
the roundness of the low res
Hi Sajid,
The "crosshair" on the images is the tile join between the four
tapers, and is a standard feature on all ADSC 4-tile detectors. I am
certain HKL2000 should know about these - certainly mosflm will simply
ignore the image there.
Any image from the same detector should have the same featu
-- Forwarded message --
From: Jayashankar <[EMAIL PROTECTED]>
Date: Tue, May 20, 2008 at 7:34 PM
Subject: Right terminal residues for constructs.
To: CCP4BB@jiscmail.ac.uk
Dear friends and scientists,
(A pre-Structural biological question.)
I Have a multidomain protein , I know
Dear friends and scientists,
(A pre-Structural biological question.)
I Have a multidomain protein , I know the domain boundaries,
But am still not that rational to what residues a construct should start or
end?
But I have learned from people that changing one residue changes the fate of
the cons
This may be of some help.
Sridhar
http://xray.bmc.uu.se/markh/php/xtalscreens.php?func=lookup&screen_name=
Expand+List
-Original Message-
From: CCP4 bulletin board [mailto:[EMAIL PROTECTED] On Behalf Of
Jacob Keller
Sent: Tuesday, May 20, 2008 9:41 AM
To: CCP4BB@JISCMAIL.AC.UK
Subject:
Dear Crystallographers,
does anybody have an nicely-formatted excel file with all or several of the
commonly-used crystal screens in it? That would be quite helpful for me.
Thanks,
Jacob Keller
***
Jacob Pearson Keller
Northwestern University
Medical S
Dear Andrew,
The following paper actually measured the increase in lifetime offered
to the crystal if data are collected at 100K instead of room temperature:
Southworth-Davies, R. J., Medina, M. A., Carmichael, I. & Garman, E. F.
(2007) Observation of decreased radiation damage at higher dose
Dear All
I ahve sent this to Andrew, but hesitate to `post' a pdf to the CCP4 BB.
Just e-mail me direct if you would like it and I will e-mail it to you.
Best wishes
Elspeth
To the CCP4 community,
I believe I have identified 2 appropriate citations for the use of
cryocooling to mitigate the eff
To the CCP4 community,
I believe I have identified 2 appropriate citations for the use of
cryocooling to mitigate the effects of radiation damage during a diffraction
experiment. The first study is one that I have access to:
Low, B. W., Chen, C. C., Berger, J. E., Singman, L. & Pletche
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