Hi all,
Can somebody please help me to generate high resolution movie files for
secondary structure of proteins? After I ray a model with high resolution in
pymol and then save it as movie frames, the high resolution and ray seem
lost. I have tried the command likes ray 2000,2000 and it does wo
Dear all,
I am trying to make figures of a peptide nucleic acid, that is, a molecule with
protein-like backbone but nucleic acid-like side chain, meaning nucleobases.
I cannot get Pymol to recognize the nucleobase rings as rings fo the
cartoon_ring_mode, likely due to a rather unusual nomenclat
Hi All,
I read some literature for phasing by molecular replacement performed with
reflections upto 3.5 Angstroms. Can anybody tell me why? I would prefer
deleting low resolutions so as to reduce contribution from the solvent that
might affect RF search and obtaining a solution. Your responses to
Hi All,
I want to plot the rotation function that MOLREP uses. I cannot find any
output of rotation function in the logfile or in moIrep.doc. I want to
locate the peaks of the rotation function, that are shortlisted as
solutions, which would help me in understanding the following problem.
My prot
CCP4bb,
Some graphics news: Full operating-system support for stereo 3D has at
last been restored on Mac OS X Leopard, but NOT in Leopard's X11 just
yet (the Xquartz open-source community will hopefully soon remedy
this...).
While today's fix is great for native Mac OpenGL applications like
MacP
Dear Rajakumara & all others interested in protein-DNA complex
crystallization:
I have an in-house sparse matrix screen (created with CRYSTOOL when it was
still freeware) that is designed for protein-DNA complexes. It has been
used in our lab successfully, with one case (so far) leading to
public
or could it be in part a statistical effect, if the scala-map is
flatter, the differences near the ligand stand out more (i.e. are at
higher level relative to sigma), while they are really the same height
in absolute (electron-density) terms?
Mark van Raaij
http://web.usc.es/~vanraaij/
Hi Sabine,
difficult to say anything without knowing more about your procedures and
data. I would not exactly consider the difference between 20.9/24.8 and
21.6/26.1 as tiny.
One question - which procedure did you use to go from XDS_ASCII.HKL to
the mtz-file for SCALA? There are two different
Hello All,
Does anyone know of an agent that will break up a protein-protein
interaction without eluting an MBP-tagged protein from amylose resin? I am
trying to do a protein-protein binding assay with an immobilized MBP-tagged
protein. Granted, the putative binder will be easy to distinguish
It is likely to be a difference in the scaling.
Can you merge the two data sets, run scaleit or something to analyse the
difference v resolution?
Eleanor
Sabine Schneider wrote:
Hello everyone,
I am puzzled about differences I see when I refine the very same
structure against data processed
Hello everyone,
I am puzzled about differences I see when I refine the very same
structure against data processed with xscale or scala.
I got data to 2.55A from a protein-ligand complex. The data were
processed with xds/xscale (1) or xds/scala (2)
Free R was imported from a previously solved
Hi Marc
You shouldn't feel obliged to defend the Sivia & David paper on my account: I'm
in no way criticising it. S&D proposed their method in the context of PD data
processing and no doubt it's adequate for that purpose: I'm no expert in PD, so
far be it for me to criticise their methods. Ho
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