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Scientific Reports· 2026Q1

Non-standard proteins in the lens of AlphaFold 3: a case study of amyloids

Alicja W. Wojciechowska, Jakub W. Wojciechowski, Gert Vriend, Malgorzata Kotulska

Short summary

AlphaFold 3 (AF3) predicted fibrillar structures for only 34% of known amyloid-forming proteins and incorrectly predicted them for 54% of non-amyloid peptides, indicating underwhelming performance due to limited amyloid data in its training set.

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Molecular BiologyBiochemistry, Genetics and Molecular Biology