Re: [ccp4bb] AlphaFold3

Thank you to all who replied and for the tip off about the prize - all very newsworthy ;-0 Will try to summarise everything in a para or two. Congrats to the winners!! Best wishes, Jon Cooper. jon.b.coo...@protonmail.com Sent from Proton Mail Android Original Message On 07/10

Re: [ccp4bb] AlphaFold3

Subject: [ccp4bb] AlphaFold3 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

Re: [ccp4bb] AlphaFold3

Hello, I would like to take this opportunity to announce the release of our new web-tool, FoldScript (https://foldscript.ibcp.fr/), which complements our web-tool ESPript. FoldScript allows to analyze and to filter with experimental results (ie residues known to be involved in intermolecular in

Re: [ccp4bb] AlphaFold3

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

Re: [ccp4bb] AlphaFold3

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

[ccp4bb] AlphaFold3

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. jo

Re: [ccp4bb] AlphaFold3 Transparency and Reproducibility

Do Nature do embarrassment? H > On 14 May 2024, at 10:54, Frank von Delft > wrote: > > What we really need is a tweet from Nature, declaring their embarrassment at > having been suckered into becoming DeepMind's advertising arm. > > > On 14/0

Re: [ccp4bb] AlphaFold3 Transparency and Reproducibility

What we really need is a tweet from Nature, declaring their embarrassment at having been suckered into becoming DeepMind's advertising arm. On 14/05/2024 01:56, Paul Adams wrote: The letter may have had (or helped have) an impact already: On X today from Pushmeet Kohli @ DeepMind "We love

Re: [ccp4bb] AlphaFold3 Transparency and Reproducibility

The letter may have had (or helped have) an impact already: On X today from Pushmeet Kohli @ DeepMind "We love the excitement & results from the community on AlphaFold 3 and are doubling the AF Server daily job limit to 20. Happy to also share that we're working on releasing the AF3 model (inc