Dear Nikolas,
Would PDBsum provide what you need?
Example:
https://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/pdbsum/GetPage.pl?pdbcode=3rj8&template=protein.html&r=wiring&l=1&chain=A
https://www.ebi.ac.uk/thornton-srv/databases/pdbsum/Generate.html
That's an interesting idea to have such feature(s) available in the CCP4
interfaces...
Cheers,
Martin
On 02/02/2026 09:13, Deborah Harrus wrote:
Dear Nikolas & all,
How about OverProt? https://overprot.ncbr.muni.cz/home
Best regards,
Deborah
On 30/01/2026 17:58, Nikolas wrote:
Dear all,
I was wondering whether there is a 2D topology drawing software
available, similar to pro-origami. Keyword is “automated”.
I like the idea of having a diagram that indicates the secondary
structure features, and names consistently loops and helices but I
would like not to do that manually (is this called lazy or smart? -
up for debate).
I’ve tried to convert Pro-Origami from Alex Stivala’s GitHub
repository to run with MacOS using chatGPT and it worked to some
extent but to have it working it properly it needs to use DSSP and/or
HSSP that need to be integrated or called by the code but I’m way out
of my depth here, so I gave up.
Is there anyone who would like to have a look at it and make it
available to the community? I was even thinking to ask if it would be
possible to integrate it into CCP4i2, as a replacement for TOPDRAW in
the old CCP4i.
Unexpected like the Spanish Inquisition,
- Nikolas
------------------------------------------------------------------------
To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1
<https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1>
--
-------------------------------------------------------------------
*I may send communications outside of your normal working hours. Please do not
feel obligated to reply until your normal working hours.*
Deborah Harrus, Ph.D.
PDBe Archive Project Leader, Biocuration Lead
Protein Data Bank in Europe
European Bioinformatics Institute (EMBL-EBI)
European Molecular Biology Laboratory
Wellcome Trust Genome Campus
Hinxton
Cambridge CB10 1SD UK
http://www.PDBe.org
-------------------------------------------------------------------
------------------------------------------------------------------------
To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1
<https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1>
########################################################################
To unsubscribe from the CCP4BB list, click the following link:
https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1
This message was issued to members of www.jiscmail.ac.uk/CCP4BB, a mailing list
hosted by www.jiscmail.ac.uk, terms & conditions are available at
https://www.jiscmail.ac.uk/policyandsecurity/
