Dear Colleagues,
There is a postdoctoral position at the University of Nebraska in methods
development for molecular image analysis. Application review has started
and will remain open until the position is filled. Please see details
below.
Best regards,
Mark
Mark A. Wilson
Associate Professor
Dep
Hi Richard,
Something that hasn’t been mentioned yet that might help settle the issue
is to calculate an anomalous difference map with your I+, I- unmerged
data. Even if you collect data far from the S edge, it is often possible
to see positive anomalous difference density for S atoms in maps at t
Hi Jacob,
For Ca2+-CaM, and flexible proteins in general, the average conformation
in solution may differ from the most crystallizable conformation. However,
any crystallized conformation had to be sampled in solution at some point
in order to form a crystal, and thus the crystal structure tells
Perhaps I misunderstood Jacob's original question, but it seems like two
different phenomena are being discussed here. My read of Jacob's original
question was, roughly, shouldn't we observe non-Bragg, powder-like
scattering from a well-ordered macromolecular crystal due to the abundance
of ~
communities. Abstract submissions from
students interested in the Etter Student Lecturer Award are strongly
encouraged.
01.01 New Structures
Sunday, June 1st
Organizers: David Giedroc and Mark Wilson
Description: Recent structures from both the protein and nucleic acid
structural communities that
Postdoctoral Position in the Structural Biology of Neurodegeneration at
the University of Nebraska
A postdoctoral position is available immediately in the laboratory of Dr.
Mark Wilson in the Department of Biochemistry, University of
Nebraska-Lincoln. The position is for two years and
Alun,
I agree completely with previously stated opinions (and your practice)
that preservation of a single test set is very important for the
refinement of similar structures. One complication that for spacegroups
in which there is a potential axis-indexing ambiguity (e.g. certain
trigonal and
Hi Tim,
I agree with everything you've said about the importance of validation,
but aren't we really talking about something different here? Users of
structural information should of course be keeping a careful eye on
validation reports. On the other hand, what possible reason is there for
the PDB
on't mean
>such an authority should not exist, but I think it is a good think it is
>not the PDB. It is a form of separation of powers.
>
>Best,
>Tim
>
>On 05/14/2014 06:47 PM, Mark Wilson wrote:
>> Hi Tim,
>> I agree with everything you've said about th
ogy Center
University of Nebraska
N118 Beadle Center
1901 Vine Street
Lincoln, NE 68588
(402) 472-3626
mwilso...@unl.edu
On 5/14/14 12:41 PM, "Nat Echols" wrote:
>On Wed, May 14, 2014 at 10:26 AM, Mark Wilson wrote:
>
>Getting to Eric's point about an impasse, if the PD
Just to put a finer point on some of this, the Lennard-Jones (6-12)
potential is short-range, containing an attractive component arising from
London dispersion forces (quantum mechanical induced dipole-induced dipole
interactions) that decay as 1/r^6 and a repulsive component arising from
the Pauli
I agree. We have encountered refinement problems similar to those Ed
describes for models with mixtures of modified cysteine species, which is
a fairly common occurrence.
Best regards,
Mark
Mark A. Wilson
Associate Professor
Department of Biochemistry/Redox Biology Center
University of Nebraska
N1
Hi Diana,
At the risk of thread-jacking Ed’s question, yes, PHENIX handles this
seamlessly for us as well. However, REFMAC5 doesn’t like this scenario,
with or without alt. confs. or insertion codes. There are some models
where I’d really like to use REFMAC5 for refining these mixed species
model
As an additional comment on the issue of spatially correlated disorder,
SHELX (and possibly other programs) has an elegant way of handling bump
generation between disordered atoms. SHELX will only generate a bump if
two atoms are in van der Waals conflict AND their occupancies sum to 1.1
or greate
Hi Ivan,
We've had good luck with the addition of chloramphenicol ~1 hour prior to
harvest, as described in:
Carrió, M. M., and Villaverde, A. (2001) Protein aggregation as bacterial
inclusion bodies is reversible. FEBS Lett. 489, 2933.
We usually combine this with lower temperature growth (20 C).
626
mwilso...@unl.edu
On 10/17/14 10:05 AM, "Gloria Borgstahl" wrote:
>Thanks Mark, this is a good tip
>what would you use for Rosetta cells though?
>Tetracyclin?
>
>
>On Fri, Oct 17, 2014 at 8:31 AM, Mark Wilson
> wrote:
>
>Hi Ivan,
>We've had good luc
Dear CCP4 community,
I am running the "make Pirate reference file" utility through CCP4i using
downloaded coordinates and data. It consistently fails with:
#CCP4I TERMINATION STATUS 0 "child killed: segmentation violation"
#CCP4I TERMINATION TIME 26 May 2015 17:41:21
#CCP4I MESSAGE Task failed
ata in monoclinic SG, followed by doing
> MR could be the key to this problem.
>
>
>Good luck..!!!
>Sudipta
>
>
>On Wed, Sep 2, 2015 at 6:05 PM, Mark Wilson
> wrote:
>
>Dear CCP4 Community,
>I've had a number of helpful responses (on- and off-list) that I will
&g
winning statistics since in this case F's (including phases) are added
>instead of I's. Anyways, it will be an interesting puzzle to solve!
>
>Good luck,
>Herman
>
>
>-----Ursprüngliche Nachricht-
>Von: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] I
siteit Brussel and VIB
>
>DOI: 10.1107/S0907444904026721
>
>On 03/09/15 18:13, George Sheldrick wrote:
>> Dear Mark,
>>
>> Since your resolution is good enough, perhaps you should try to solve
>> it ab initio with Arcimboldo Lite. This has already solved a number of
&
plot look like? Have you used pointless which gives the
>CC for each symmetry operator separately - sometimes that shows say the
>00 l axis is more 2-fold ish than the 0k0 axis..
>
>
>
>Eleanor
>PS - If the related protein fits into a similar cell with the same SG is
>yours bigg
ard perfect storm.
>
>Sent from my iPhone
>
>> On 3 Sep 2015, at 21:07, Mark Wilson wrote:
>>
>> Hi Eleanor,
>> Yes, of course you are correct about the beta~90° requirement for
>>possible
>> twinning here-I was mistakenly thinking about pseudomerohedry
I second Bernhard’s frustration with this, and have dealt with this many
times. I note that SHELX uses an occupancy-based clash criterion that
will not generate a clash for atoms whose occupancies sum to <1.1. It
seems to me that this could be a more generally adopted criterion.
Furthermore, it w
Dear Colleagues,
I would like to run test refinements in Refmac5 where I can provide anisotropic
scale parameters, fix them, and then proceed with restrained refinement of
other model parameters. I could not find how to do this in the
documentation-is this possible?
Best regards,
Mark
Mark A.
Dear Structural Biologists,
The University of Nebraska is hiring a Core Director (Research Assistant
Professor) for our Glacios TEM with a Selectris energy filter, Falcon 4i
detector, and micro-ED capability (delivery expected 12/2022). This hire is an
addition to a tenure-leading hire in Cryo-
Dear fellow structural biologists,
Dr. Chris Kupitz (LCLS) and I are co-hosting a session on mix-and-inject serial
crystallography at XFELS and synchrotrons on Weds, 9/28 as part of this year’s
SSRL/LCLS Users’ Meeting. This is an opportunity to hear from leading
researchers about new methods a
I heartily concur with Craig. Tris can be a dangerous buffer for many
reasons, including those listed below. In addition, as a primary amine,
it can complicate work with metalloproteins and has moderate
nucleophilicity. There is almost always a better buffer choice than Tris.
Best regards,
Mark
Dear Colleagues,
The Department of Biochemistry at the University of Nebraska-Lincoln (UNL)
invites applications for a tenure-track nine-month (academic year) faculty
position at the rank of Assistant Professor. Areas of particular interest
include but are not limited to time-resolved approache
Professor.
Best regards,
Mark
Mark A. Wilson (he/him)
Professor
Department of Biochemistry/Redox Biology Center
University of Nebraska
N118 Beadle Center
1901 Vine St.
Lincoln, NE 68588
From: Gerlind Sulzenbacher
Date: Sunday, October 15, 2023 at 10:15 AM
To: Mark Wilson , CCP4BB@JISCMAIL.AC.UK
Dear fellow structural biologists,
The Department of Biochemistry at the University of Nebraska-Lincoln (UNL)
invites applications for a tenure-track Assistant Professor position in
Structural Biology. Areas of particular interest include but are not limited
to multiscale imaging, time-resolved
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