Hi,
it is therefore likely that your spacegroup is really P321... hopefully,
your data set is not twinned, did you check that ?
You are left with 2 possible indexing schemes, as already mentionned.
Chek scaling derivative / native scaling for each indexation of the
derivative : the lowest
Thank you very much for your reply.
In my own understanding,
We collect the peak dataset, because of the large F'', and we can get
strong anomalous signal.
We collect the edge dataset, because of the large F', and combined with the
remote dataset, we can use the method just like SIR to get some
Hi,
you are right, the peak dataset corresponds to the highest f'' value.
However, this does not mean that f'' is null for the other
wavelengthes... you still have significant anomalous signal at the edge
and for the high energy remote wavelength... this will help your
phasing, so use it !
Why the 29% Rfactor indicate the derivatives are not isomorphous to native
dataset?
Native dataset cell constant: 181.39 181.39 110.217 90 90 120
derivative1 cell constant: 181.909 181.909 109.62 90 90
120Rfactor to native: 26%
derivative2 cell constant: 181.527 181.527 109.32
Thank you for your remind of the twin problem.
I checked all of the datasets by Xtriage, and found that the native is not
twinned, but the derivant1 and derivant2 are both twinned.
So is the Rfactor between derivants and native useful for the judgement of
the success of the heavy atom soaking?
Hi,
Le 30/05/2012 08:29, Qixu Cai a écrit :
Thank you for your remind of the twin problem.
It is always a pleasure to be helpful ;-)
By the way, you stated the spacegoup is P321... did you check systematic
absences ? could it be P3121 / P3221 ?
I checked all of the datasets by Xtriage,
Very neat.
Is there some way to set parameters not listed under 'Settings'? Data from
the Australian Synchrotron uses ROTATION_AXIS=-1.0 0.0 0.0 but I haven't
figured out how to change this. Editing the generated XDS.INP between runs
doesn't seem to do it.
Cheers,
/Daniel
--
Daniel Ericsson
Hi there,
I am not certain that the thread is P321 space group reindex problem
any more.
But: trigonal (and hexagonal) space groups are (usually?) polar. The
cell axis c can go up or can go down, and in order to get a
consistent indexing you need to check both indexing systems when you
If the data sets are twinned, large differences between derivatives are to be
expected unless the twin fraction is very, very low (1-2%). Given the above,
I think nothing can be said until the data are all detwinned - and of course
the correct axial interchange done.
Adrian
On 30 May 2012,
if you have peek surface or titanium parts (if i recall right) there are no
problems with salt solutions.
tommi
On May 30, 2012, at 3:39 AM, aaleshin wrote:
Back in Iowa State University we used Waters HPLC for protein purification
during many years without noticeable damage to the
hi
i dont know about the midas but proplex is good..but if u really wanna go
for some molecular dimension screen then opt for morpheus..it is damn
good..if any protein is ever going to crystallize, it will also give
crystal in this screen too.. u could find a hit in this screen also..
best of
Hi Fred,
On Wed, May 30, 2012 at 08:55:35AM +0200, Vellieux Frederic wrote:
For practical purposes, a derivative is considered non isomorphous
when the differences in unit cell parameters exceed ca. 1% (this is
because if you take 2 crystals from the same crystallisation drop
and collect and
Has anyone worked with, or seen an example of, a solvent accessible
disulfide that cannot be reduced with TCEP?
Alternatively solvent accessible disulfides that resist reduction with
DTT but can be reduced with TCEP?
Thanks in advance,
Jose.
Jose Antonio
Hello Fred
On 30 May 2012 07:55, Vellieux Frederic frederic.velli...@ibs.fr wrote:
Hi there,
But: trigonal (and hexagonal) space groups are (usually?) polar. The cell
axis c can go up or can go down, and in order to get a consistent
indexing you need to check both indexing systems when you
Hi Ian,
You're right the information is there... but not where I was expecting
it (on the page corresponding to an individual space group). It had
never occurred to me that it could be somewhere else.
So thanks, and regards to Jasmine.
Fred.
Ian Tickle wrote:
Hello Fred
On 30 May 2012
Dear All,
I have a PDB file which does not have the REMARKS cards 465 (for
missing residues) and 470 (for missing atoms). This is not a deposited PDB
file. Is there any program to figure out the missing residues and atoms (some
programs complain about missing atoms) ? Or do I have
It does, at least my edition (Vol. A: 5th ed., 2002, Table 10.2.1.2,
p.806) does - ITC has everything you need to know about space groups
(and a lot more besides)!
Actually, as the aforementioned table indicates, it's not correct to
talk about polar and non-polar space groups, but only about
On Wed, 30 May 2012 13:16:12 +0100
Ian Tickle ianj...@gmail.com wrote:
From the point of view of deciding which are the alternate settings I
don't think it's helpful to consider polar directions anyway. What
matters is which symmetry axes of the lattice are not present in the
point group.
Hi Jose,
Has anyone worked with, or seen an example of, a solvent accessible disulfide
that cannot be reduced with TCEP?
Something to keep in mind is that TCEP is not very stable with phosphate
buffers near neutral pH.
Alternatively solvent accessible disulfides that resist reduction with DTT
University of Texas Medical Branch
Senior Faculty in X-ray Crystallography
Sealy Center for Structural Biology Molecular
Biophysics
UTMB Health seeks senior faculty applicants in structural biology
in the Sealy Center for Structural Biology and
Dear Qixu Cai,
The following paper should be informative for your query:-
http://dx.doi.org/10.1107/S0909049595013288
Best wishes,
John
Prof John R Helliwell DSc
On 29 May 2012, at 10:11, Qixu Cai caiq...@gmail.com wrote:
Dear all,
Sorry for the question from MAD beginner.
When we
Hi Folks,
Sorry for a non-CCP4 post but I simply couldn't resist.
Here's a video that's simply out of this world! This video was made by an
undergraduate student at Northeastern and it just won him a trip to outer
space. Yes, outer space! Not only did the student write the script and make
the
sreetama das wrote:
Dear All,
I have a PDB file which does not have the REMARKS cards 465 (for missing
residues) and 470
(for missing atoms). This is not a deposited PDB file. Is there any program to
figure out
the missing residues and atoms (some programs complain about missing atoms) ?
Or
On 30/05/12 12:50, sreetama das wrote:
Dear All,
I have a PDB file which does not have the REMARKS cards
465 (for missing residues) and 470 (for missing atoms). This is not a
deposited PDB file. Is there any program to figure out the missing
residues and atoms (some programs
Thanks for sharing Raji, this is indeed a great visualization.
Very talented student, I'm sure we will read more about his research in the
future.
Jürgen
On May 30, 2012, at 12:19 PM, Raji Edayathumangalam wrote:
Hi Folks,
Sorry for a non-CCP4 post but I simply couldn't resist.
Here's a
Dear all
Is there any method to check membrane protein overexpression using GFP when the
C terminus is in periplasm? My reading so far all mention that for C terminus
fusion to work, it has to be cytoplasm.
Thank you.
Dear all
Is there any method to check membrane protein overexpression using GFP when
the C terminus is in periplasm? My reading so far all mention that for C
terminus fusion to work, it has to be cytoplasm.
Thank you.
Dear Theresa,
Superfolder GFP (sGFP) is reported to translocate
I do not seem to understand the meaning of fixing. Fixing something can
mean
a) repairing it, implying that something was broken or amiss. Lack of
experimental information expressed as omission of atoms is not something
that needs fixing.
b) keeping it constant. Like in having
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