Hi Lisa,
The problem you have can be very tricky. Here my comments:
-What do you mean by I can not solve the structure by molecular replacement?.
Moleculare replacement programs usually produce some solution, even if it is
wrong. Do the R-factors stay around 50%, is the electron density very
Just to follow up on what has already been said:
The twinning tests in truncate, phenix.xtriage and (since recently) in Phaser
should give you a good idea whether the data might be twinned. If you have
merged the data with too high symmetry, there won't be a potential twin
operator (because
Dear ccp4
Apologies for the off topic question. I was wondering whether anyone could
suggest a good tool or methodology to use to predict protein solubility and
ability to fold from the sequence? I am working with a large protein of
multiple domains. I would like to work with as close to the
Thanks Berta
but Thats exactly what I am asking that what E and F refers to in
naming the respective helices...
why it was not any other set of alphabets?
With best regards,
Kris
On Tue, Jan 22, 2013 at 6:43 PM, Berta Martins
berta.mart...@biologie.hu-berlin.de wrote:
Dear Kris,
E and F
Dear Kris,
Letters A, B, C, D, E, F, ... refer to the helices in parvalbumin where the
motif was first described. See http://www.ncbi.nlm.nih.gov/pubmed/4700463
Best,
Miha
On 22. 1. 2013, at 14:09, K Singh ksc...@gmail.com wrote:
Dear All,
While going through Ca2+ binding site, I came
Dear all - is there a convention for superposing nucleic acids duplexes
of unrelated sequence?
i.e. which atoms should be superposed : C4' of the sugar, P of the
backbone, O3'/O5' of the backbone, or some combination thereof?
Alan
--
Alan Cheung
Gene Center
Ludwig-Maximilians-University
Dear Alan,
This depends very much on whether the structures are similar in the
helical conformations or not, and on what question you are trying to
address. If these are nearly identical structures, it really does not
matter much what atoms you use for superposition, as long as they lie
along
Minimally, I believe you want to use P and C1'.
(This has been done by others, including Pabo and Pabo Nekludova,
J.Mol. Biol., 301:597-694 (2000).
I actually prefer to use all backbone atoms: P O5' C5' C4' O3' C3' C2'
C1' O1'
Barry Finzel
Medicinal Chemistry Department
2-160C
Dear all:
we are looking into buying an isothermal titration calorimeter, but are
only aware of two manufacturers: TA Instruments and MicroCal (GE
Healthcare). Are there any more?
Do you have any recommendations (brand, model etc.) for us?
Thanks in advance,
Wulf
--
Prof. Dr. Wulf
As already pointed out, it depends on what you're trying to show / figure out.
But my generic advice would be to go with just C1' because the backbone can
vary quite a bit even in more-or-less-B-form DNA.
If you feel like getting a little fancier, add the atom on the other end of the
Dear CCP4BB
I'm thinking about buying a Mac Mini and was looking for advice from
people who have used these for crystallography.
We don't need the computer to do serious number-crunching as we have
back-end servers that can do this for us, so it is primarily for
running coot for model
Current Mac minis outperform my 2009 models with which I am still happy. So
dual core I guess would be sufficient no need for upgrade on graphics card.
Jürgen
..
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry Molecular Biology
Johns
On Tue, Jan 22, 2013 at 9:59 AM, Cara Vaughan
c.vaug...@mail.cryst.bbk.ac.uk wrote:
I've seen from the archive that some people do use the Mac Mini for
crystallography and I've got two questions:
1. Do I need the Quad core or is a Dual core processor enough?
You can survive with the dual, but
On Jan 22, 2013, at 13:08, Nat Echols nathaniel.ech...@gmail.com wrote:
On Tue, Jan 22, 2013 at 9:59 .
I would definitely recommend maxing out the memory, but don't buy it
from Apple - we were able to get 16GB from CDW for less than $100.
I think it is just that Apple only offers the
Hi Cara,
Any reason for the Mac Mini over the iMac? - presumably as you've got a
suitable monitor / keyboard already?
We're pretty much exclusively iMac of late (ditched the towers) and finding
them absolutely fine for both fairly intensive jobs (refinement) and
visualisation/building (Coot
Any reason for the Mac Mini over the iMac
A zalman monitor ir can you hook up a second monitor in stereo mode to your
iMac ?
Jürgen
..
Jürgen Bosch
Johns Hopkins Bloomberg School of Public Health
Department of Biochemistry Molecular Biology
Johns Hopkins Malaria Research
Dear colleague,
We invite you to participate in the upcoming workshop
on biological physics and systems biology entitled
From Computational Biophysics to Systems Biology 2013 (CBSB13)
which will take place at the University of Oklahoma Conference Center
in Norman, OK (USA) May 19 through May
On Tue, Jan 22, 2013 at 1:40 PM, Phil Jeffrey pjeff...@princeton.eduwrote:
I don't think that anybody has shown a significant performance difference
on Apple memory vs a reasonable 3rd party supplier. Apple may potentially
have better quality controls but places like Crucial essentially have
AFAIK there is no problem mixing and matching different timing RAM: system will
run at the speed of the slowest module.
I don't think anybody will notice the difference with CAS latency Coot'ing and
Refmac'ing.
I don't think there is much sense in having more than 4 GB of RAM per physical
core
Get a quad-core. If you have iTunes going, some website running javascript
without your knowing it, and you have a computational job running, then you've
used up your dual core and things get sluggish. It happens to me all the time
on my c. 1996 iMac, which is still (barely) good enough for me.
Well said, James Stroud!
May I add that the MAC- experience is like walking to Jerusalem with dry
peas in your shoes? It's possible, you might opt to do it for religious
reasons, but it is far from the most logical or efficient course of action.
Just my 2 cents,
Jens
- Reply message
On Tue, Jan 22, 2013 at 10:05 PM, James Stroud xtald...@gmail.com wrote:
On Mac v. Linux where calculations come secondary to office-type
calculations, you have to weigh your level of vendor lock-in. Do you run
Libreoffice or Microsoft Office? Inkscape or Illustrator? Gimp or Photoshop?
I meant c.2006 iMac, of course.
James
On Jan 22, 2013, at 11:05 PM, James Stroud wrote:
Get a quad-core. If you have iTunes going, some website running javascript
without your knowing it, and you have a computational job running, then
you've used up your dual core and things get sluggish.
23 matches
Mail list logo
