Dear Jon I did the same for a dimer of a structure we just solved but only now writing the paper. AF3 predicted the monomer to an RMS of about 0.3 and dimer to about 0.5 Angstroms Structure not yet in the PDB, but soon Joel
Sent from my iPhone On Oct 5, 2024, at 17:35, Jurgen Bosch <0000dacafb9366f7-dmarc-requ...@jiscmail.ac.uk> wrote: Caution: External Sender. Do not click on links or open attachments unless you recognize the sender. I used it for PPI prediction of a mAb and our target protein and it was surprisingly accurate compared to our crystal structure. Binding of the mAb was <0.5 rmsd I was stunned. Jürgen P.S. paper should be accepted soon, but you’ll find a current version on BioRxiv if you are interested. AF3 is not part of the paper though. But that’s what I used for benchmarking since the coordinates have not been released yet __________________________________________ Jürgen Bosch, PhD, MBA Center for Global Health & Diseases Case Western Reserve University https://www.linkedin.com/in/jubosch/ CEO & Co-Founder at InterRayBio, LLC On Oct 5, 2024, at 08:48, Jon Cooper <0000488a26d62010-dmarc-requ...@jiscmail.ac.uk<mailto:0000488a26d62010-dmarc-requ...@jiscmail.ac.uk>> wrote: Just wondering if anyone has any comments on, or concrete experiences with, alphafold3. I might try to cobble something together for Crystallography News (he says, having missed the main Nature paper, ahem). My googling has only given me hype and gripe so far ;-0 ;-0 Best wishes, Jon Cooper. jon.b.coo...@protonmail.com<mailto:jon.b.coo...@protonmail.com> Sent from Proton Mail Android ######################################################################## 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<http://www.jiscmail.ac.uk/CCP4BB>, a mailing list hosted by www.jiscmail.ac.uk<http://www.jiscmail.ac.uk>, terms & conditions are available at https://www.jiscmail.ac.uk/policyandsecurity/ ________________________________ To unsubscribe from the CCP4BB list, click the following link: 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/
