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THE NEW ALCHEMIST
FrontierProtein designWorking brief

Protein design

A protein made to find another

Design a new protein to bind a chosen target. Then make it, measure it, and find out what that encounter can do.

The interesting moment comes when a designed sequence becomes a physical molecule—and does what its designers hoped.

Designing around a moving target

In a 2025 Nature paper, Liu and colleagues used RFdiffusion to design binders for proteins and regions that do not hold a single fixed shape. Starting from a target sequence, the method sampled the shapes of both target and binder. The team then tested the designs experimentally.

Liu et al. · Nature, 2025

Beyond a good fit

The study included binders to amylin, a hormone associated with amyloid deposits in type 2 diabetes. In laboratory experiments, amylin binders inhibited fibril formation and dissociated existing fibres. The structure shown here is an experimentally determined amylin–binder complex. These are research results; they do not establish a treatment for patients.

Amylin–binder structure · PDB 9CC5

Where the story goes next

  • How many designs were made and tested before a useful binder emerged?
  • Does it bind selectively, and does binding change the biology we care about?
  • Can it reach its target, remain stable and function in the setting where it would be used?

Editorial preview · Coverage in development

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