Dear CCP4 developers,
this question might be interesting for many CCP4/Coot users:
will the Coot release 0.7 and future releases be made available to CCP4
users via the CCP4 software update?
Best regards,
Dirk.
Original-Nachricht
Betreff:[COOT] Release 0.7
Datum:
Thanks for nice question.
Currently, CCP4 update is applicable only to what is distributed as CCP4
core, which guarantees a definite location in $CCP4 directory. Also, updates
are not supposed to deliver releases (upgrades), but rather smallish changes
between them.
Coot is not part of CCP4
Dear Eugene,
thank you for your kind reply and your explanation!
Since the CCP4 download site offers Coot either as a stand-alone-package
or via the new package manager, I was hoping that new Coot releases
could also be handled by the wonderful CCP4 software update.
A software update
We are thinking of including MG into core in one of future releases, probably
by next summer. As to Coot, it will probably stay autonomous.
Eugene
On 1 Oct 2012, at 13:14, Dirk Kostrewa wrote:
Dear Eugene,
thank you for your kind reply and your explanation!
Since the CCP4 download site
Dear all - this is a reminder for the Postdoc post detailed below - closing
date is THIS FRIDAY
- don't hesitate to contact me directly for more information. Application
details can be found on the Diamond web pages
(http://www.diamond.ac.uk/Home/Jobs/Current/DIA0766_TH.html)
Martin
Hi All,
I'm currently working on solving the structure of a protein by molecular
replacement. The protein is around 30kDa and likely has a two beta-prism
domains, linked by a long curved two stranded sheet based on the structure of
an analogue. There are also a number of other structures which
Not sure I understood your problem but it looks like it's related to
flexibility. You can try cutting the domains apart (and chopping off the loops)
in two different pdbs. They can be used as separate ensembles. Try to find the
bigger one first. 35% homology is not that low, just search with
The Phenix developers are pleased to announce that version 1.8.1 of Phenix is
now available. Binary installers for Linux, Mac OSX, and Windows platforms are
available at the download site:
http://phenix-online.org/download/
Some of the new features in this version are:
Graphical
I agree with Carlos's suggestions (search for your two domains
separately, and as poly-Ala models).
There's a few other things that may help MR, which you may or may not
have tried:
1. Reset the B-factor of your search models to the wilson B-factor of
your dataset.
2. Search using only
[1] In addition to using lower resolution data, you should check a variety of
RMSDs as well. In fact constructing an RMSD / high resolution contour plot
would be beneficial to determine the optimum set of parameters. (That is if
you're using PHASER).
[2] You say you suspect two molecules
Hi Rhys,
there is nothing wrong with experimental phases. If a few MR attempts fail,
there aren't any real red flags with your crystal form, and you have a few
decently diffracting crystals at hand, soak them for a little bit in your
favourite heavy atom. We found that soaks in 500-1000mM Na or
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