Dear Lionel and Xavier, Unfortunately TOPDRAW doesn't interpret a pdb file, it just allows you to draw your own topology diagram.
PDBSUM (available from https://www.ebi.ac.uk/thornton-srv/software/PDBsum1/) has a topology diagram as part of the output. You can also access a database of released structures here: https://www.ebi.ac.uk/thornton-srv/databases/pdbsum/ and there is a link to the Generate webpage there allows you to securely upload a pdb file if you don't wish to install the software yourself. Hope this helps, Andy Purkiss ________________________________ From: CCP4 bulletin board <CCP4BB@JISCMAIL.AC.UK> on behalf of Xavier Brazzolotto <xbrazzolo...@gmail.com> Sent: 30 May 2024 16:39 To: CCP4BB@JISCMAIL.AC.UK <CCP4BB@JISCMAIL.AC.UK> Subject: Re: [ccp4bb] Topology diagram External Sender: Use caution. My Google search led directly to <https://www.ccp4.ac.uk/html/topdraw.html> TOPDRAW (CCP4: Supported Program) — CCP4 documentation<https://www.ccp4.ac.uk/html/topdraw.html> ccp4.ac.uk<https://www.ccp4.ac.uk/html/topdraw.html> [favicon.ico]<https://www.ccp4.ac.uk/html/topdraw.html> HTH Le 30 mai 2024 à 17:32, Lionel <lionel.costen...@gmail.com> a écrit : 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://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/ <topo.jpg> ________________________________ To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB&A=1 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/
