Hello Wei,
is the modified base defined as DNA in the cif? (see below)
Is the O3* or O3'? You need the latter.
And check whether there are three hydrogens on the O3. You need to
either remove one from the cif file manually, or name them according to
a normal DNA base. (In the latter case, by
Hi everyone,
I am trying to get the structure of a protein-ligand complex were I need
to exchange the ligand which it co-crystallises nicely with.
Problem: either they crack, disolve, turn brown,... OR they still look
very nice, well shaped but do not show a single reflection at the
the highest possible
ligand concentration, since in many cases, although the ligand should bind in
theory, in practise it is quite a different story.
Good luck!
Herman
-Original Message-
From: CCP4 bulletin board [mailto:CCP4BB@JISCMAIL.AC.UK] On Behalf Of Sabine
Schneider
Sent: Wednesday
Hello everyone,
I know there already has been discussion about 3D monitors on the
Coot/CCP4bb.
However since there are a few more out there now and I am currently
thinking about buying one, I thought to get a few opinions from
crystallographers would be nice! Especially if there are people
Hi everyone,
I have a fine sliced dataset consisting of 720 frames (0.25dg / frame).
I processed them with Xds and used Pointless to convert it to mtz for
putting it in Scala. Spacegroup is P212121 and the resolution ~3.2.
After ~200 frames the Rmerge goes up crazy and after 560 it is OK
.linux (eg)
Otherwise if you send me the file I'll investigate
Phil
On 20 Feb 2008, at 09:39, Sabine Schneider wrote:
Hi everyone,
I have a fine sliced dataset consisting of 720 frames (0.25dg /
frame). I processed them with Xds and used Pointless to convert it to
mtz for putting
Hello everyone,
I am working on the structure of a protein-DNA complex with 2 mol/ASU.
Data are to 2.8A and the symmetry appears to be orthorhombic (P212121;
a=42.280 b=113.340 c=134.670) I solved the structure by moleculare
replacement using the coordinates of the protein in phaser. I got
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
. Sabine Schneider
Ludwig-Maximilians-University
Department of Chemistry and Pharmacy
Butenandtstrasse 5-13, Building F
81377 Munich
Germany
Phone: +49 (0)89 2180 77846
Fax: +49 (0)89 2180 77756
http://www.carellgroup.de/
Kalinin and Robert Thorne, Acta Cryst.
(2005). D61, 1528–1532.)
- be quick
Sabine
Sabine Schneider wrote:
Hi everyone,
We got crystals that grew in ~3.2M ammonium sulphate and some
tris-buffer at 18dgC. Unfortunately the crystals take a while to grow
(~4-5 weeks) and so far we only have 4-5
6.1 on a different suse
linux-box (where there hadn't been CCP4 on it before) and it worked just
fine?
I got Tkl/tk version 8.4 installed. Any ideas?
Thanks a lot for your help!
Sabine
--
--
Dr. Sabine Schneider
Ludwig-Maximilians-University
Department
--
Dr. Sabine Schneider
Ludwig-Maximilians-University
Department of Chemistry and Pharmacy
Butenandtstrasse 5-13, Building F
81377 Munich
Germany
Phone: +49 (0)89 2180 77846
Fax: +49 (0)89 2180 77756
http://www.carellgroup.de/
Hello,
I want to apply to a small structure a rotation and translation (i.e 10A
translation and 10dg rotation), write out the coordinates and apply the
same rotation/translation to the new coordinates and repeat this lets
say 100 times.
I guess the program of choice would be pdbset but I am
Anyone an idea what's going on, or how I can fix that problem?
Thanks for your help!
Sabine
--
--
Dr. Sabine Schneider
Technische Universität Munich
Department of Chemistry
Chair of Biochemistry
Lichtenbergstr. 4
D-85747 Garching
Germany
Tel.: +49 (0) 89
-646-1710
From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Sabine Schneider
[sabine.schnei...@mytum.de]
Sent: Tuesday, August 09, 2011 3:27 PM
To: CCP4BB@JISCMAIL.AC.UK
Subject: [ccp4bb] idiffdisp fails from CCP4 gui in ccp4-6.2.0
Hello
. Sign up now.
https://signup.live.com/signup.aspx?id=60969
--
--
Dr. Sabine Schneider
Ludwig-Maximilians-University
Department of Chemistry
Butenandtstrasse 5-13, Building F
81377 Munich
Germany
Phone: +49 (0)89 2180 77752
Fax: +49 (0)89 2180 77756
http
Hello everyone,
Maybe of interest/help to others:
The solution of my problem is a totally unexpected structural change of
2 out of 4 protein molecules in the asu! The straight forward solution
was additionally obscured through the presence of tNCS.
What I did:
- placed as many molecules as
DXREF.LP clean in this respect?
Best,
Kay
On Wed, 16 Nov 2016 17:26:59 +0100, Sabine Schneider
<sabine.schnei...@cup.uni-muenchen.de> wrote:
Hello everybody,
I got a problem with solving and refining a structure of a small protein
of 20kDa, where we just swapped two residue at the surface b
9 192.7 110.0 90.0 90.0 108.1
------
Dr. Sabine Schneider
Research Group Leader
Technical University of Munich
Department of Chemistry
Chair of Biochemistry
Lichtenbergstr. 4
85748 Garching
Germany
Tel.: +49 (0) 89 289 13336
Fax: +49 (0) 89 289 13
Hello everybody,
I got a problem with solving and refining a structure of a small protein
of 20kDa, where we just swapped two residue at the surface by mutation
(AF vs FA).
For the FA variant we got three crystal forms, where we had no problem
whatsoever with MR and refinement
- P6522 cell
..)
Cheers Sabine
--
------
Dr. Sabine Schneider
Research Group Leader
Technical University of Munich
Department of Chemistry
Chair of Biochemistry
Lichtenbergstr. 4
85748 Garching
Germany
Tel.: +49 (0) 89 289 13759
Fax: +49 (0) 89 289 13363
http://www.biochemie.ch.tum.
Hi Kyle
DynDom gives you the angle of the relative domain movement, which I also
find a good quantitative measure.
http://dyndom.cmp.uea.ac.uk/dyndom/runDyndom.jsp
Best Sabine
On 12/11/2021 15:13, Edwin Pozharski wrote:
https://pymolwiki.org/index.php/Rms_cur
22 matches
Mail list logo
