Tue June. 16th 2009
EBI
For example, FROFIT, where you can specify the residues involved in the
actal alignment, and the residues to calculate the RMS on
Miri
On Tue, 16 Jun 2009, Jayashankar wrote:
Dear friends,
Is it possible to allign structure of proteins of same class or family just
It is possible and should definitely be tried.
SHARP works very well for MIRAS phasing in our experience.
-Bjørn
Arnon Lavie wrote:
Hi,
we collected SAD data sets to 3.0 A on our protein, once as a Se-Met
protein and once soaked with a mercury compound. Data statistics
indicate an
Dear Eike,
depending on what your structure is - you can try interface search in
PISA (google on ebi pisa). Select the most representative interface
in your complex (the one that makes the non-standard arrangement) and
see whether there are similar interfaces in the PDB. It shouldn't be
a too
Dear all:
I have a problem in locating heavy atom in P1 space group.My
protein is 169 residue.There are 2 molecular per asymmetry unit
according Matthews coefficient.I have soaked my protein in Hg
solution.I collected the data at 1A wavelength and the anomalous d is
about 3 at low
Dear ccp4bb,
I've recently run into a problem refining a crystal structure that I indexed
and performed a molecular replacement on as C2. The unit cell dimensions are
a=96, b=95.8, c=58.1 and beta=127; Rmrg=.195. The data go down to a resolution
of 2.8 angstroms. The data also index in
Hi Jeffrey
Re-indexing this in the conventional setting (i.e. beta nearest to 90 -
for reasons no-one has yet been able to explain to me the standard d.p.
programs do not make this choice automatically!) gives you space group
I2 with cell:
a=58.1 b=95.8 c=76.67 beta=90.24
With beta now so
There is a very useful program written by Phil Evans called othercell
which gives alternate indexing
( The same functionality is in pointless)
In this case it suggests:
Alternative indexing schemes which lead to identical or similar
cells are grouped on continuation lines if they are
If you have just one heavy atom in space group P1 you can simply place it
at the origin (0,0,0). Phasing with SHELXC and SHELXE should then work
fine if you have SAD, MAD or SIRAS data but if you only use SIR your map
will be a double image that it will not be possible to resolve. Are you
Principal Scientist - Protein Crystallography
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