Dear all,
a short summary:
- SAUC and the Phenix tool worked well.
- SIMBAD was also pointed out to me, but it stops with an error message both in
my local CCP4 installation and in "CCP4 online".
- The https://app.strubi.ox.ac.uk/nearest-cell/nearest-cell.cgi alternative to
That is a live link to sauc, but I have not updated the database from the
PDB in a while. Let me know if there is an
urgent need for an update, Otherwise I am planning one for March. I
normally build the database from COD and
the PDB, but if CCDC wishes, we can add the CSD to the mix. For the
Hi Kay,
http://flops.arcib.org:8084/sauc-1.1.1/
similar to the nearest-cell server, which seems to change its link and is
harder to find (or stale link)
https://app.strubi.ox.ac.uk/nearest-cell/nearest-cell.cgi
HTH,
Mike
On Wed, Dec 27, 2023 at 1:39 PM Kay Diederichs <
Hi Kay,
to address "(...) not elsewhere (...)", in Phenix GUI go to Tools then down
to "Search PDB symmetry...". I've never used it myself nor do I know who
added it in Phenix but from the description it looks like what you're
looking for. Let us know if you have any problems with it.
All the
Are you thinking of "othercell" ?
On 12/27/2023 10:38 AM, Kay Diederichs wrote:
Dear all,
I seem to remember a tool called "nearestcell", a command-line equivalent of
the Oxford Nearest-Cell web server which appears to be offline.
However I cannot locate that tool in CCP4 nor elsewhere. Can
Dear all,
I seem to remember a tool called "nearestcell", a command-line equivalent of
the Oxford Nearest-Cell web server which appears to be offline.
However I cannot locate that tool in CCP4 nor elsewhere. Can anyone point me to
it or give alternatives, please? (I did try the PDB's advanced
