EPFL researchers have created novel protein binders that can seamlessly attach to important targets, including the spike protein of SARS-CoV-2, by utilizing 'fingerprints' generated through deep learning to characterize millions of protein fragments. In 2019, a team of scientists from the joint S
Protein surfaces vary widely and are dynamic, making it hard to predict how and where binding events will occur. Credit: Ella Maru Studio
Fast forward four years, and the researchers have accomplished their goal. In a paper published in the journal, they reveal the creation of novel proteins, called binders, specifically designed to interact with four therapeutically significant protein targets, including the SARS-CoV-2 spike protein.
To design novel protein binders, the researchers used MaSIF to create protein surface ‘fingerprints’, and then identified complementary surfaces for key protein target sites from a database of fragments. They then digitally grafted the fragments onto larger protein scaffolds, and selected the resulting binders predicted to interact best with their targets.
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