Dear all,
We have an opportunity for a highly motivated Research Associate to
join the Genentech crystallography group. We are interested in the
structure and function of proteins of scientific and therapeutic
interest. The successful candidate will be responsible for sub-
cloning, expre
On Mar 15 2007, Yi Xue wrote:
So far, the native crystals diffracted best to 2.4A. The MAD data
diffracted to 2.6~2.7A. We attempted to use phenix.hyss to identify copper
atoms, and the program had hard time to identify the sites.
The protein: Cu ratio is around 1:1, which is decided by ICP-A
I personally have had problems solving structures with large copy #s in
the asymmetric unit despite a good model (my failure occurred at 14 in
the a/u in primitive orthorhombic) - at the time finding the first
monomer proved to be impossible. This was also a structure in which the
systematic a
Hey Todd,
This is really easy to do with SPOCK. Like you said, you can put an atom
(say water) in your cavity and select residues within the distance of
choice from that atom. Then make a surface for these residues. Then swap
the surface and it will be the surface for the cavity. The program is
ava
There are no easy answers for difficult problems, but have a look at
A. Gonzalez, J. Synchrotron Rad. (2007). 14, 43-50
Hopefully some of the tips given there can help in your case.
On Thu, 15 Mar 2007, Yi Xue wrote:
YX > Thus, basically, the Cu anomallous signal is very weak, and the
YX >c
Hey Elizabeth,
To answer your second question first, I think if the atom name for water
is "W", it is read as a density peak by shelxl. If you change "W" to "O",
it will read it as water and refine it.
I have some idea about your question about the B-factor. Arg and Met can
often be seen in alterna
We're having some problems essentially because AFAICS Mosflm (and also
D*Trek) don't recognise the 'full' Hermann-Mauguin symbols for space
groups.
For example for space group no 18 with the 'short' H-M symbol 'P 2/1 2/1
2' in the setting with 'full' H-M symbol 'P 2 2/1 2/1' the programs
choose
Hi Li Yang,
REFMAC refines models with alternate conformations without any problems,
as long as the proper PDB syntax is used. Differences in R-factors might
stem from using different refinement programs that use different ways of
scaling (for example overall anisotropic vs. isotropic scale fa
