Dear all,
I am looking for a way to automate molecular replacement and refinement
runs.
>From ligand / fragment screening trials we have many datasets of the same
protein with various resolutions (2.8 – 1.2Å). The apo-structure is known
and well refined. The cell constants are fairly similar b
Hello everyone,
I would like to display the interactions of a protein dsDNA complex in a
simplified 2D plot, similar to what LIGPLOT does for protein ligand
interactions. In many articles you find interactions displayed in such a way
but as far as I know those are "hand-made". In my experience LI
Dear Coot-users,
I am running Coot-0.7 on OSX 10.6.8. Installation from the 'Scott'-package
was no problem at all it runs very smoothly.
However, whenever I want to save the coordinates the saving dialog open
-behind- the main window. To be more precise: the coordinate molecule
selector opens i
Hello everyone,
I am working on protein RNA complex and would like to verify the
oligomeric state from the crystal structure by analytical
ultracentrifugation (AUC). To fit data from AUC we need a good estimate of
the partial specific volume of the complex, therefore I wanted to retrieve
this valu
Hello everybody,
This is slightly off-topic but I still hope there might be somebody in the
crowd with (Py)Rosetta experience. I successfully tried protein_protein
docking before, but now I am trying to dock a RNA into a protein using
PyRosetta v.1.1, which, as you can imagine, fails in a new an u
Hello Kornelius,
In 2 or 3 cases I successfully used a homology model for molecular
replacement using a model generated from the PHYRE server
http://www.sbg.bio.ic.ac.uk/~phyre/.
I know it is not the same as ROSETTA but if there is some sequence homology
you might be lucky...
Best regards
Eike
Hello Dave,
I have good experience with concentrations between 10% and 15%
2,3-butanediol. My typical starting concentration is 12.5%.
Good luck.
Eike
Am 23.03.10 08:27 schrieb "David Briggs" unter :
> 2,3-BD users,
>
> What sort of concentrations are you using?
>
> Dave
>
> --
> Delive
Hello Everyone,
I am posting this in behalf of Ralf Ficner, please do not reply to me
but directly contact Ralf Ficner (see below).
Kind regards
Eike
The Department of Structural Biology at the Georg-August-University
Goettingen, Germany, seeks to recruit an outstanding postdoctoral
scie
nd tcsh shells are both more user-friendly than bash, so
> you might find those easier (what I sent you should work with zsh,
> although I have a much better one that makes use of zsh customizable
> completions and so forth).
>
> Here's some more info on unix shells:
OP
>
>
>
> On Fri, May 16, 2008 5:22 pm, Eike Schulz wrote:
> > Hello again,
> >
> >
> > thanks to some people for their fast and helpfully very detailed advice:
> >
> >
> > Including
> >
> > _
to be able to extract data from an .mtz file.
Did I miss anything important?
Kind regards
Eike
On Fri, 2008-05-16 at 14:37 -0700, William Scott wrote:
>
> On Fri, May 16, 2008 1:06 pm, Eike Schulz wrote:
> > Hel
Hello everybody,
once more a beginners question on some probably Linux related problem.
Eventhough my ccp4 installation seemed to work fine all the way MTZDUMP
and the applications which use it (namely refmac ...) unfortunatly fail
with the following error:
---
Hello everyone,
I still consider myself new to Linux so this is probably just a minor
problem but currently I can't find a way around it - I hope that
somebody can help me.
Using the xds_inst script to install XDS I get the following error
messages:
$PATH/html_doc/xds_inst: line 20: setenv: comm
Hello everyone,
I have a couple of structures which contain oligomeric sugars in
different conformations. Is there any general way of defining a
glycosidic bond for the refmac library - instead of creating .cif files
for every single ligand-structure ?
Thank you very much in advance
Eike
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