Thank you so much. It did work for me.
Cheers.
On Tue, Dec 7, 2021 at 6:06 AM Bernhard Lohkamp
wrote:
>
> Hi Ahmad,
>
> > When I apply an ncs residue range from a master chain, it gets
> propagated to all
> > slave chains, but I want the change to propagate to only a particular
> chain,
> >
Hi Ahmad,
> When I apply an ncs residue range from a master chain, it gets propagated to
> all
> slave chains, but I want the change to propagate to only a particular chain,
> without having to undo all the changes in the other chains!
>
> Alternatively, I wonder if there's a way to build a
Use Edit > Copy Fragment to generate the part that you want to propagate.
Johan
On 7 Dec 2021, at 14:04, Ahmad Khalifa
mailto:underoath...@gmail.com>> wrote:
When I apply an ncs residue range from a master chain, it gets propagated to
all slave chains, but I want the change to propagate to
When I apply an ncs residue range from a master chain, it gets propagated
to all slave chains, but I want the change to propagate to only a
particular chain, without having to undo all the changes in the other
chains!
Alternatively, I wonder if there's a way to build a segment from a template
Santhosh:
Modern molecular replacement programs, e.g. PHASER and MOLREP, look for and
take, at least translational, NCS into account.
Modern refinement programs, e.g. BUSTER, REFMAC, and PHENIX.REFINE, use LSSR
(Local Structure Similarity Restraints) for NCS and improve geometry to
Hi
I've got 4 molecules in the asu (chains A,B,C,D), and have just built a peptide
ligand as chain S on to chain D. Is there an easy way to copy it to the right
position on the other chains, or do I have to put it into chain D?
Phil
Even better than my suggestion ...
-Original Message-
From: Mailing list for users of COOT Crystallographic Software
[mailto:COOT@JISCMAIL.AC.UK] On Behalf Of Paul Emsley
Sent: Tuesday, February 17, 2015 1:57 PM
To: COOT@JISCMAIL.AC.UK
Subject: Re: NCS ligand
On 17/02/15 18:02, Phil
I have a very large complex of proteins and I would like to use COOT to apply
NCS edits in the case where the “master copy” is not chain A of my complex but
any given chain.
The script that I currently use (example only, actual number of molecules is
much larger)
On 18/11/13 13:26, Felix Frolow wrote:
I have a very large complex of proteins and I would like to use COOT
to apply NCS edits in the case where the “master copy” is not chain A
of my complex but any given chain.
The script that I currently use (example only, actual number of
molecules is
Hello,
Is there a way to flag up residues that have been modelled with different side
chain rotamers in two NCS-related molecules? I can use the NCS Ghost Control
tool to check individual residues but it would be useful to be able to produce
a list, so that one can zoom in on possible
On 20/06/12 10:04, Luca Pellegrini wrote:
Is there a way to flag up residues that have been modelled with different side
chain rotamers in two NCS-related molecules? I can use the NCS Ghost Control
tool to check individual residues but it would be useful to be able to produce
a list, so that
forgive the cross-posting coot-bb/ccp4-bb
Can I second that please? I am possibly in a similar situation -
2.8 Angstrom structure, 6 molecules in the asymmetric unit, refining with
ncs torsion restraint.
It would be very useful to identify which side-chains are in different
rotamers (without
Paul,
This did what I wanted (i.e. output the averaged map), and saved me from the
alternative of having to run several progs to get the same result. Especially
handy as I needed to do it for several structures.
Thanks
Dave
---
Dr. David M. Lawson
Biological
All maps can be exported as ccp4 map files using the export_map
function, see e.g.
http://www.biop.ox.ac.uk/coot/doc/user-manual.html#export_002dmap
B
Is it possible to export an NCS map from coot?
Any help much appreciated.
Thanks,
Dave
---
Dr. David M.
[ 0.6.2-pre-1-r3064 ]
just noticed that NCS copies appear to have lines drawn between
C-alphas that are further than the cutoff for C-alphas/Backbone
drawing of the original model.
e.g. two C-alphas 5.38A apart are not drawn for imol, but the NCS copy
has a line.
i seem to be missing something,
Dear All,
I would have quick question about NCS detection in heavy atom
substructures with COOT. From what I could see COOT does not detect
any NCS if the substructure is in the same chain (or even in general).
I was thinking it could be nice to have something like a Profess
algorithm to
On 29/09/10 19:58, Florian Schmitzberger wrote:
I would have quick question about NCS detection in heavy atom
substructures with COOT. From what I could see COOT does not detect
any NCS if the substructure is in the same chain (or even in general).
That's right.
I was thinking it could
Hello All,
When working with NCS maps in Coot what contour (sigma) level should they be at
compared to the other maps? Thanks!
Anna K. Lytle
Graduate Student
Johnson Laboratory
Dept. Chemistry Biochemistry
Utah State University
This seems to be lost ??
/y/programs/xtal/coot/coot-Linux-i386-fedora-10-gtk2-python/share/coot/python
reads pdb and says:
...
INFO:: NCS chain comparison 306/307
INFO:: NCS chain comparison 304/307
INFO:: NCS chain comparison 306/307
INFO:: NCS chain comparison 305/307
INFO:: NCS chain
Eleanor Dodson wrote:
This seems to be lost ??
/y/programs/xtal/coot/coot-Linux-i386-fedora-10-gtk2-python/share/coot/python
reads pdb and says:
...
INFO:: NCS chain comparison 306/307
INFO:: NCS chain comparison 304/307
INFO:: NCS chain comparison 306/307
INFO:: NCS chain comparison
Institutet
S-17177 Stockholm
Sweden
phone: (+46) 08-52487673
fax: (+46) 08-327626
email: bernhard.lohk...@ki.se
- Original Message -
From: Francis E Reyes francis.re...@colorado.edu
Date: Thursday, September 24, 2009 4:54 pm
Subject: [COOT] NCS ghosts and map broken
: Thursday, September 24, 2009 4:54 pm
Subject: [COOT] NCS ghosts and map broken?
To: COOT@JISCMAIL.AC.UK
Hi all
It seems that adding ncs ghosts and then ncs maps is broken for my
model / coot combo.
Coot is at ver 0.6-pre-1 rev 2334.
Thanks!
This is what
Is there a way for Copy NCS residue range to copy to a subset of NCS-
related chains (eg from B to only, not to A D)?
Phil
Hi all
This is my first time building with NCS and I wanted to take a look at
the NCS averaged maps option in coot. However, I can't seem to get
coot to make it.
I simply loaded my molecule and then my 2fofc and fofc maps then went
to Calculate - NCS Maps, selected my model and then the
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