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Seoul National University, Johns Hopkins University, Max Planck Institute
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The Big Fantastic Virus Database v3 is the most comprehensive resource for ColabFold-AlphaFold2-predicted viral protein structures, bringing us closer to a structural catalog of the known virosphere and is freely available at bfvd.workers.dev and bfvd.foldseek.com.
Foldseek-Interface is presented, a method that converts 3D interface structures into searchable sequences to enable fast alignment and clustering of protein interaction interfaces and matches the accuracy of state-of-the-art tools while running up to 230 times faster.
Multiple sequence alignment (MSA) Pairformer is presented, a protein language model that builds on AlphaFold2/3's bidirectional refinement between sequence and pairwise residue representations to accurately model the evolution of protein-protein interactions, despite training exclusively on individual chains.
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