Hi Dave Thanks a lot for the hint. The Cis-bond should be correct, as it is a buried glycine residue in a crystal structure at 0.95 Å resolution.
But it would be great, if there would be a way to simply hide the cis-bond warning. I would like to generate a supplementary figure with a broad view at active site electron density, which in this particular case looks much clearer in Coot than in PyMol Best wishes, Joël On 12 Mar 2020, at 10:34, David Briggs <[email protected]> wrote: Hi Joel, The red trapezoids are indicative of cis-peptide bonds that are exceptionally rare, and usually indicate incorrect tracing of the backbone (unless you have good enough data to unambiguously decide that a cis-peptide bond is correct). I'm afraid I don't know how to get rid of them, other than correcting the backbone. There is a Cis<>Trans button you can add to coot which might correct the issue for you (right-click on the icon bar, select "Manage Buttons", and add the appropriate button) HTH Dave -- Dr David C. Briggs Senior Laboratory Research Scientist Signalling and Structural Biology Lab The Francis Crick Institute London, UK == about.me/david_briggs ________________________________ From: CCP4 bulletin board <[email protected]> on behalf of Joël Bloch <[email protected]> Sent: 12 March 2020 09:14 To: [email protected] <[email protected]> Subject: [ccp4bb] Red trapezoids in Coot Dear CCP4 community, Is there any way in Coot 0.8.9.2 to remove/hide the red trapezoids that are indicating planar bonds? I couldn’t find anything on that, neither in the manual nor FAQ. Thanks a lot for your help! Best wishes, Joël ######################################################################## 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%2Fwebadmin%3FSUBED1%3DCCP4BB%26A%3D1&data=02%7C01%7C%7C5f83fa21c789422339b408d7c6676029%7C4eed7807ebad415aa7a99170947f4eae%7C0%7C1%7C637196019617460410&sdata=suEVs%2BAbwYkXyo1W8C14kWP70duWVWZSnEVB23exFek%3D&reserved=0 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/webadmin?SUBED1=CCP4BB&A=1
