Category: Scientific
Job ID: R-102000
Location: Burnaby, BC, CA
Additional Location: Canada - Mississauga
Posted Date: 7/24/2020
Summary
Amgen is a global biotechnology company that discovers and develops
breakthrough therapies to treat serious human illnesses. Our mission is to
serve patients ar
Category: Scientific
Job ID: R-102328
Location: Burnaby, BC, CA
Additional Location:
Posted Date: 7/29/2020
Title: Senior Scientist – Protein Technologies Team Lead
Reports to: Principal Scientist
Location: Burnaby
*JOB SUMMARY*
Amgen is a global biotechnology company that discovers and develo
eview?
Shane Caldwell
shane.caldwel...@gmail.com
f you have rigid domains and a flexible
connecting region, as it uses local structural alignments so keeps hinged
movements from having a disproportionate impact on the alignment.
Shane Caldwell
McGill University
On Tue, Jul 7, 2015 at 9:03 PM, Keller, Jacob
wrote:
> Is anyone aware of a wa
lographic stats.
Shane Caldwell
McGill University
On Fri, Jul 3, 2015 at 2:56 AM, Kay Diederichs <
kay.diederi...@uni-konstanz.de> wrote:
> On Thu, 2 Jul 2015 13:25:07 -0400, Edward A. Berry
> wrote:
>
> >My take on this-
> >No one has been willing to specify a cutoff
Shouldn't the ability to distinguish enantiomers also depend upon the
degree of asymmetry of the particle itself? (or pseudosymmetry, I suppose)
With SAXS it should be easier to distinguish right-handed and left-handed
lock washers than it is to tell a right-handed from a left-handed wall
screw.
18107
Shane Caldwell
McGill
On Tue, Jun 23, 2015 at 5:25 PM, sreetama das wrote:
> Dear All,
>
> I have a transferase, which is showing broad specificity for both the
> substrates (nucleotides) in our organism of interest, but is highly
> specific in other organisms.
>
> Are th
It's probably much less likely than metal coordination and it's hard to
judge from only one angle, but phospho-histidine might be something else to
consider.
http://www.jbc.org/content/276/5/3247.full
Shane
On Mon, Jun 22, 2015 at 2:15 PM, Roger Rowlett wrote:
> I agree...one possibility is a
-sound advice.
A good thing to look at doing, especially if TLS is behaving weirdly, is to
check with the PARVATI server (http://skuld.bmsc.washington.edu/parvati/).
If your TLS group boundaries set off flags, you have some more work to do
on the refinement.
Shane Caldwell
McGill University
On
crystallization
solution (with just as much subjectivity) could be very useful for
differentiating physiological versus artifactual ligands. Of course, much
easier said than done.
Shane Caldwell
McGill University
On Thu, Jun 11, 2015 at 3:14 PM, Lucas wrote:
> This week a bioinformatics PhD candidate
Hi Smith,
You're possibly looking at a turn of 3_10 helix:
http://en.wikipedia.org/wiki/310_helix
Whether it's real or not will of course depend on your electron density.
Shane Caldwell
McGill University
On Fri, May 29, 2015 at 11:35 AM, Smith Liu wrote:
> Dear All,
>
>
they both deoxyribonucleosides, or ribonucleosides? Because that would
be the first place to look, if you haven't already.
Shane Caldwell
McGill University
On Thu, May 28, 2015 at 8:12 AM, Faisal Tarique
wrote:
> Hello everyone
>
> I am working on a 5'-nucleotidase (Mg as a cof
Hi Vijay,
In addition to the suggestions you've already received, the pair_fit
command in PyMol is also an easy way to align based on specific atoms. You
could use the C-alphas of relevant active site residues, or atoms of the
ligand itself, for example. Just be mindful of the bias introduced base
e whether the
proteolysis is happening before or after purification.
Hope this helps,
Shane Caldwell
McGill University
On Tue, May 26, 2015 at 1:45 AM, Mohammad Khan
wrote:
> Dear all,
>
> I am working on a His-tag recombinant protein with two domains, which I
> purify using a
Of note, this discussion was recently in the pages of Nature:
http://www.nature.com/news/rule-rewrite-aims-to-clean-up-scientific-software-1.17323
Shane Caldwell
McGill University
On Tue, May 12, 2015 at 12:48 PM, James Stroud wrote:
> I hereby call on the broadest community of academics
t 12:21 PM, Shane Caldwell wrote:
> good enough to pass the orthonormal test.
>
>
> .. scratch that, it passes sometimes and still fails for other
> structures/chains. So I'm still in search of a higher-precision export
>
> Shane
>
> On Wed, Apr 15, 2015 at 11:44 AM, Sha
>
> good enough to pass the orthonormal test.
.. scratch that, it passes sometimes and still fails for other
structures/chains. So I'm still in search of a higher-precision export
Shane
On Wed, Apr 15, 2015 at 11:44 AM, Shane Caldwell wrote:
> Hi Bernhard, thanks for the poi
decimal points you lose.
>>
>> You have to add more digits, but just adding zeros isn't going to
>> accomplish much. The best solution is to get your ncs program to
>> report
>> its matrix with more digits -- three is pitiful.
Hi Natalia,
This might be a good place to start:
http://www.sciencedirect.com/science/article/pii/S0968000404002348
The power of two: protein dimerization in biology.
Trends Biochem Sci. 2004 Nov;29(11):618-25
Marianayagam NJ1, Sunde M, Matthews JM.
Abstract: The self-association of proteins to
pe this
> doesn't mess up the dot product test. You'll end up with one number in
> each row having more than three decimal places.
>
> Dale Tronrud
>
> On 4/1/2015 2:52 PM, Shane Caldwell wrote:
> > Hi ccp4bb,
> >
> > I'm trying to solve a problem
es, I get the sense this isn't something that many users
do any more. I have quite a few structures with hundreds of waters each and
I'd like to get the waters organized, but doing it by hand will take a very
long time. Any help getting this program running would be greatly
appreciated!
Shane Caldwell
McGill University
Don't forget, "multiplicity" has its own negative connotations.
http://www.imdb.com/title/tt0117108/
Shane Caldwell
McGill University
On Sun, Jan 18, 2015 at 12:26 PM, Edward A. Berry
wrote:
> Also RAID (REDUNDANT array of inexpensive disks). To me redundancy im
om/i46YH6r
Doubled once: http://imgur.com/Vy8oJfx
Doubled twice: http://imgur.com/q3gO0cI
Cheers,
Shane Caldwell
McGill University
On Fri, Jan 9, 2015 at 4:57 PM, Paul Emsley
wrote:
> On 09/01/15 21:08, Shane Caldwell wrote:
>
>> Hi ccp4bb,
>>
>> Apologies for a cross-post
imgur.com/q3gO0cI
Thanks for your indulgence!
Shane Caldwell
McGill University
multiplicity on e.g. a Cu source.
(Disclaimer: I'm no expert. Others here know how this works much better
than I do)
Shane Caldwell
McGill University
On Tue, Dec 9, 2014 at 8:35 AM, R. M. Garavito wrote:
> Yamei,
>
> This is not unusual, particularly for many proteins that bind nucleotide
not be as straightforward as MS
Cheers,
Shane Caldwell
McGill University
On Tue, Aug 19, 2014 at 2:56 AM, rohit kumar wrote:
> Dear All,
> i have solved a structure of 3.2 A. That is a PLP depended enzyme.
> In their resting state, PLP-dependent enzymes are usually joined by a
&
reatment of the subject I know of is Chapter 8 of
McPherson, although I don't think it addresses dimers specifically, just
nonspecific aggregates. Perhaps still a place to start?
Shane Caldwell
McGill University
On Wed, Aug 13, 2014 at 5:40 PM, Todd Jason Green wrote:
> Hello All-
>
&g
t you see is really
protein and not simply crystals of adenosine. Note that crystals of
adenosine may still give you a signal under UV fluorescence, so best to
trust other tests for protein, or of course the one test that really
matters, diffraction.
Shane Caldwell
McGill University
On Fri, May 9,
Hi SDY,
It would be unlikely unless you have other reasons to believe it (biology,
surrounding environment), but that blob looks a little like a possible
phospho-histidine. It might be worth a looking into?
That said, buffer or metals are probably the more likely explanation.
Shane Caldwell
lklore for me. Either way it might be worth testing the
stability of your electrode over time to get an idea.
Shane Caldwell
McGill University
On Thu, Jan 30, 2014 at 10:40 AM, Katherine Sippel <
katherine.sip...@gmail.com> wrote:
> Alternatively you could make a stock solution of
anks in advance!
Shane Caldwell
McGill University
inues to be a problem, you can
QuikChange in a PreScission or TEV site in place of the thrombin site -
they tend to be much nicer proteases, and much more specific.
Hope this helps,
Shane Caldwell
McGill University
On Wed, Jan 22, 2014 at 5:59 AM, Pablo Power wrote:
> Dear Venkat,
>
uot;normal" absorbance
profile - if there aren't very many aromatics, especially Trp, then the
peak protein absorbance may shift quite a bit (and also decrease), in which
case the 260/280 rules shouldn't apply anymore.
Hope this helps,
Shane Caldwell
McGill University
On Wed, Jan 15,
Hi Omi,
Just to add to Preben's suggestion, something that jumps out from the
conditions you list - those are all fairly chaotropic anions. It might also
be worth looking into other anions from the same end of the Hofmeister
series (i.e. bromide), and possibly chaotropic cations as well.
r
hand, I don't know if (3) is scientifically sound and/or will lead to
problems refining in refmac. What would be my best option?
Interested to hear thoughts on this, thanks!
Shane Caldwell
McGill University
lution is hiding in plain sight in one of
the packages I already use, but if so, I can't seem to find it. Thanks in
advance for your help.
Cheers,
Shane Caldwell
McGill University
perhaps still
worth a look.
Cheers,
Shane Caldwell
McGill University
On Mon, Apr 22, 2013 at 8:20 PM, Pascal Egea wrote:
> Thanks to All for the diligent answers to my query,
>
> The protein is not thermophilic and has only one cysteine. We are working
> in presence of freshly added re
lic potential of the cell? Or at least was primordially
and "QWERTY'd in"?
/wild speculation
Shane Caldwell
McGill University
On Tue, Mar 19, 2013 at 9:46 AM, Edward A. Berry wrote:
> Opher Gileadi wrote:
>
>> Hi Theresa,
>>
>> To add to Anat's comments: Alt
Hi James,
The first place I'd look is oxygen conc, as you'll get different aeration
from different vessel shapes/sizes. You could play around with shaking
speed and/or flask geometry to try to get more or less aeration.
Shane Caldwell
McGill University
On Tue, Jan 15, 2013 at 9:48
Hi Andrey,
Are you sure it's not PLP? To me that looks like you have confounding
aggregation, and PLP in two forms, perhaps only partly incorporated when
considering your protein absorbance. Check out the spectra in the paper:
Turning pyridoxal-5'-phosphate-dependent enzymes into thermostable bin
like this might suggest any other avenues of attack.
Thanks for your time,
Shane Caldwell
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