This has been reported and I thought fixed??
Eleanor
On Mon, 8 Aug 2011 16:01:27 +0100, Charles Ballard
wrote:
> Hi Chris
>
> In Stephen's case the problem was that the column names were too long.
> They are limited to 30 characters by the mtz "standard"
>
> running through it looks like the
You are asking quite a lot!
But one of the auto building tools should help. It depends on the
resolution - Arp-Warp) 2.2A or higher - Buccaneer below that.
Get the best phases you can acquire - experimental I guess combined with
the PHIC/FOM, then see what Buccaneer / or Arp-Warp can do.
It i
Oh dear - how did you lose it! It isworth hunting back through the data
files - all data processing software I know of outputs both F and SigF and
I and SigI ..
nt
Remember - it is good practice to ALWAYS use that first merged data set as
the input to refinement
Eleanor
On Thu, 4 Aug 2011 08:10:1
Hi Sabine,
What happens if you try to run it from command line? Just curious. It's a
useful program (though not as good as ipdisp in some options). I hope it'll be
fixed soon.
Cheers,
Boaz
Boaz Shaanan, Ph.D.
Dept. of Life Sciences
Ben-Gurion University of the Negev
Beer-Sheva 84
This is from Ethan's very useful site, which should be known to everyone doing protein work at synchrotron sources:http://skuld.bmsc.washington.edu/scatter/http://skuld.bmsc.washington.edu/scatter/AS_form.htmlThe usual caveats apply... these calculations, especially for f", are often not especially
Edward A. Berry wrote:
That does look easier, but mainly because you are not
installing blt -
What do you get for "which bltwish"?
presumably in $CCP4I_TCLTK, since ccp4i works.
So that means $CCP4_MASTER/tcltk++/bin
But how did it get there?
maybe from here?
ftp://ftp.ccp4.ac.uk/ccp4/6.2.0/ex
There is always an anomalous signal to be seen if one measures things well
enough. One does not need to be at the edge in order to detect anomalous
scatterers. For example, most (if not all) of the sulfur SAD phasing is
done well away from the sulfur edge.
I will note that you stated that the f
On Aug 9, 2011, at 10:37 AM, Huiming Li wrote:
> Hi All,
>
> I am working on a Tb binding protein on which I collected anomalous data at
> Tb edge of 1.648 A. Each protein is designed to bind one Tb. There are two
> copies of the protein in an ASU. I have two questions. First, I am only able
Hi All,
I am working on a Tb binding protein on which I collected anomalous data at
Tb edge of 1.648 A. Each protein is designed to bind one Tb. There are two
copies of the protein in an ASU. I have two questions. First, I am only able to
see one copy of the protein with Tb bound, and no de
Hi All,
I am working on a Tb binding protein on which I collected anomalous data at
Tb edge of 1.648 A. Each protein is designed to bind one Tb. There are two
copies of the protein in an ASU. I have two questions. First, I am only able to
see one copy of the protein with Tb bound, and no de
That does look easier, but mainly because you are not
installing blt -
What do you get for "which bltwish"?
presumably in $CCP4I_TCLTK, since ccp4i works.
So that means $CCP4_MASTER/tcltk++/bin
But how did it get there?
Then your install of activetcltk-8.4 is only for mosflm,
which I guess doesn
Somehow I missed Mark Del Campo's
path-towards-a-working-tcltk/blt/wish-email. But does it have to be
that complicated? On RHEL 6.1, 64-bit, CCP4 6.2 I do:
1. edit 1 line in ccp4.setup-bash (export
CCP4I_TCLTK=$CCP4_MASTER/tcltk++/bin)
2. install Activestate's tcltk 8.5.9.1 from
https://w
Edward A. Berry wrote:
If you have trouble with TCL/TK read below-quoted message.
Mosflm site has more suggestions.
better yet:
http://strucbio.biologie.uni-konstanz.de/ccp4wiki/index.php/CCP4_on_Fedora_12
which says: Now Tcl/Tk tools are bundled with Fedora 12, and they work well for
CCP4i/
Hello everyone,
I installed new ccp4 about two weeks ago. When I try to open idiffdisp
from the CCP4 gui it fails with:
Impossible to load Diffraction Image library
/usr/local/share/Xray/ccp4new/ccp4-6.2.0/lib/libDiffractionImage.so!!!.
if I look into /ccp4-6.2.0/lib it looks like that
for deposition you don't need to do something special just your output, the TLS
definitions etc. are in the REMARK header.
When reporting your B-values in the paper however you will have to run TLSANL
and report those. The "artificial low" B-values are the residuals, therefore
they are so low. I
Hi everyone,
I'm currently working on refining a structure and have found that including tls
parameters improves the r-factors and map quality. From previous threads I've
seen that using TLS refinement leads to B values that are artificially low. I
ran tlsanl as suggested and the average B valu
Dear Li(?),
The MolProbity server fixes the atom naming before the actual validation. You
can use that. The ATOM/HETATM conversion is not needed, the PDB will do that
for you when you deposit your structure model. If you really need it now, I
guess it's easy enough to do with you favourite s
Dear all,
How to convert CNS pdb format to the most current version of the PDB format?
e.g. "HN" (excluding N-term) in CNS output files should be changed to "H"
And I don't know why the CNS put the N-terminal PCA in the ATOM catagory. How
to change it as HETATM?
Thanks!
College of Pharma
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