Stable and Functionally Diverse Versatile Peroxidases Designed Directly from Sequences

Shiran Barber-Zucker, Vladimir Mindel, Eva Garcia-Ruiz, Jonathan J. Weinstein, Miguel Alcalde, Sarel J. Fleishman

Research output: Contribution to journalArticlepeer-review

17 Scopus citations


White-rot fungi secrete a repertoire of high-redox potential oxidoreductases to efficiently decompose lignin. Of these enzymes, versatile peroxidases (VPs) are the most promiscuous biocatalysts. VPs are attractive enzymes for research and industrial use but their recombinant production is extremely challenging. To date, only a single VP has been structurally characterized and optimized for recombinant functional expression, stability, and activity. Computational enzyme optimization methods can be applied to many enzymes in parallel but they require accurate structures. Here, we demonstrate that model structures computed by deep-learning-based ab initio structure prediction methods are reliable starting points for one-shot PROSS stability-design calculations. Four designed VPs encoding as many as 43 mutations relative to the wildtype enzymes are functionally expressed in yeast, whereas their wildtype parents are not. Three of these designs exhibit substantial and useful diversity in their reactivity profiles and tolerance to environmental conditions. The reliability of the new generation of structure predictors and design methods increases the scale and scope of computational enzyme optimization, enabling efficient discovery and exploitation of the functional diversity in natural enzyme families directly from genomic databases.

Original languageEnglish
Pages (from-to)3564-3571
Number of pages8
JournalJournal of the American Chemical Society
Issue number8
StatePublished - 2 Mar 2022
Externally publishedYes

ASJC Scopus subject areas

  • Chemistry (all)
  • Biochemistry
  • Catalysis
  • Colloid and Surface Chemistry


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