Re: [ccp4bb] AI and cis-peptides

> On Jul 13, 2023, at 8:12 AM, Randy John Read wrote: > > > External Email Warning: Do not click links or open attachments unless you > recognize the sender and expect the content. UTMB Email Phishing > Awareness > > I’m not sure about othe

Re: [ccp4bb] AI and cis-peptides

Yes - our CASP15 target H1157 contained intramolecular and inter-molecular SS bonds - the former were well predicted but the latter were not: https://predictioncenter.org/casp15/multimer_results.cgi?target=H1157 The article discussing this aspect (as well a few other CASP15 targets) is at the

Re: [ccp4bb] AI and cis-peptides

Gaullier Sent: Thursday, July 13, 2023 5:07:57 PM To: CCP4BB@JISCMAIL.AC.UK Subject: Re: [ccp4bb] AI and cis-peptides External Sender: Use caution. Interesting. Has someone similarly looked at whether AlphaFold predicts disulfide bridges? Guillaume On 13 Jul 2023, at 15:12, Randy John

Re: [ccp4bb] AI and cis-peptides

Interesting. Has someone similarly looked at whether AlphaFold predicts disulfide bridges? Guillaume On 13 Jul 2023, at 15:12, Randy John Read mailto:rj...@cam.ac.uk>> wrote: I’m not sure about other methods, but AlphaFold does predict peptides in both cis and trans configurations. In a rece

Re: [ccp4bb] AI and cis-peptides

I’m not sure about other methods, but AlphaFold does predict peptides in both cis and trans configurations. In a recent paper, Osnat Herzberg and John Moult show that it was pretty successful in predicting proline cis-peptides, among the novel structures in the CASP15 set of targets (https://ww

[ccp4bb] AI and cis-peptides

Does anybody know if cis-peptides are predicted by the AI tools (AlphaFold2, ColabFold, or ESM-2)? To unsubscribe from the CCP4BB list, click the following link: https://www.jiscmail.ac.uk/cgi-bin/WA-JISC.exe?SUBED1=CCP4BB