Dear Lionel, If you want a programme that takes a PDB file and automatically generates a topology diagram, then Pro-origami may be the software you need (https://sites.google.com/site/alexdstivala/home/pro-origami) - it generates prettier diagrams than PDBsum, and the diagrams are output as .svg files which can be edited in Illustrator to add custom labelling and so on.
Best, Tom On 30 May 2024, at 16:32, Lionel <lionel.costen...@gmail.com> wrote: External Sender: Use caution. Dear community, A biochemist asks me if I knew a webserver/tool to draw topology diagram of protein from a deposited pdb or part of it, ideally allowing edition (label, colour, etc...). For a better understanding, the topology diagram’s representation is as the picture attached, which I believe is a “key notation” topology diagram. It’s possible to get such diagram from PDBsum but they are fixed (pdf, ps) and I would say (without offence) a bit ugly. After an extensive Google/Ccp4DB/ChatGPT search, for my surprise, I found nothing helpful. It seems that “old” tools like pro-origami are gone/unavailable. I would greatly appreciate any advice on possible website or more specialized program (even if I would do the “webserver” task myself). Best, Lionel ######################################################################## To unsubscribe from the CCP4BB list, click the following link: https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.jiscmail.ac.uk%2Fcgi-bin%2FWA-JISC.exe%3FSUBED1%3DCCP4BB%26A%3D1&data=05%7C02%7C%7Cec3a11ec199f4e4ff6a208dc80bdd509%7C4eed7807ebad415aa7a99170947f4eae%7C0%7C1%7C638526800036635794%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=6RsqWYBGsoo6%2BlCLUPr0OY3TY0WyFCJwNlRyNtI2jZ4%3D&reserved=0 This message was issued to members of https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.jiscmail.ac.uk%2FCCP4BB&data=05%7C02%7C%7Cec3a11ec199f4e4ff6a208dc80bdd509%7C4eed7807ebad415aa7a99170947f4eae%7C0%7C1%7C638526800036645701%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=eWDNnowlcNl7bPUz9%2FddEiiv9oseBPiYiNRnmecUHdg%3D&reserved=0, a mailing list hosted by https://eur03.safelinks.protection.outlook.com/?url=http%3A%2F%2Fwww.jiscmail.ac.uk%2F&data=05%7C02%7C%7Cec3a11ec199f4e4ff6a208dc80bdd509%7C4eed7807ebad415aa7a99170947f4eae%7C0%7C1%7C638526800036650409%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=6YBuWT%2F1OSpMTLa%2FppeUWwKcWUg7at7CV%2FF4ifnecOs%3D&reserved=0, terms & conditions are available at https://eur03.safelinks.protection.outlook.com/?url=https%3A%2F%2Fwww.jiscmail.ac.uk%2Fpolicyandsecurity%2F&data=05%7C02%7C%7Cec3a11ec199f4e4ff6a208dc80bdd509%7C4eed7807ebad415aa7a99170947f4eae%7C0%7C1%7C638526800036654347%7CUnknown%7CTWFpbGZsb3d8eyJWIjoiMC4wLjAwMDAiLCJQIjoiV2luMzIiLCJBTiI6Ik1haWwiLCJXVCI6Mn0%3D%7C0%7C%7C%7C&sdata=gO37KLqO%2Fv2Fvn%2FozKqwVHfL5Xvt2U1Ffve%2Fx5q9MmY%3D&reserved=0 <topo.jpg> The Francis Crick Institute Limited is a registered charity in England and Wales no. 1140062 and a company registered in England and Wales no. 06885462, with its registered office at 1 Midland Road London NW1 1AT ######################################################################## 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/
