Precise DNA base editing using AlphaFold3-based contact modelling | Nature

ContactSeek is an AlphaFold3-driven model that can improve the precision of genome-editing tools.

Subjects Biotechnology Computational models Abstract Achieving high specificity in biochemical transformations is crucial for research and therapeutics. This is particularly important for genome editing, where enhancing tool specificity ensures effective and precise editing outcomes 1 , 2 . Current strategies are constrained by activity-specificity trade-offs, high labour intensity and low success rates 3 , 4 . Here we present ContactSeek, an artificial-intelligence-driven framework that uses AlphaFold3 (AF3)-predicted contact probability 5 to improve the specificity of genome editors. Using C

saved by

• ochre

related reading

• AI identifies interactions in CRISPR complexes to improve specificity of DNA editingnature.com
• PNASpnas.org
• One-shot design of functional protein binders with BindCraftnature.com
• Anthropic has not solved the peptide-binder design problem, but maybe bi[o]hub hasblog.genesmindsmachines.com
• Advancing regulatory variant effect prediction with AlphaGenomenature.com
• Highly accurate protein structure prediction with AlphaFoldnature.com
• The Illustrated AlphaFold | Elana Simonelanapearl.github.io
• AlphaFold2 @ CASP14: “It feels like one’s child has left home.” << Some Thoughts on a Mysterious Universemoalquraishi.wordpress.com
• Google DeepMind and Isomorphic Labs introduce AlphaFold 3 AI modelblog.google
• RNA editing enzymes: structure, biological functions and applicationscellandbioscience.biomedcentral.com
• Significantly Enhancing Adult Intelligence With Gene Editing May Be Possible — LessWronglesswrong.com
• Fast and Ultra-Capable Protein Design: Advancing the Frontier Through Atomistic SE(3)-Equivariance with Genie 3biorxiv.org