Computationally Supported Inversion of Ketoreductase Stereoselectivity. (7th April 2023)

• Record Type: Journal Article
• Authors: Delgado‐Arciniega, Estela; Wijma, Hein J.; Hummel, Chantal; Janssen, Dick B.
• Is Part Of: Chembiochem. Volume 24:Number 9(2023)
• Page Start: n/a
• Page End: n/a
• Publication Date: 2023-04-07
• Subjects: alcohol dehydrogenase -- biocatalysis -- computational design -- ketoreductase -- MD simulations; Biochemistry -- Periodicals; Molecular biology -- Periodicals; Pharmaceutical chemistry -- Periodicals; 572
• DOI: 10.1002/cbic.202300032
• Languages: English
• ISSNs: 1439-4227

Abstract

Abstract: Whereas directed evolution and rational design by structural inspection are established tools for enzyme redesign, computational methods are less mature but have the potential to predict small sets of mutants with desired properties without laboratory screening of large libraries. We have explored the use of computational enzyme redesign to change the enantioselectivity of a highly thermostable alcohol dehydrogenase from Thermus thermophilus in the asymmetric reduction of ketones. The enzyme reduces acetophenone to ( S )‐1‐phenylethanol. To invert the enantioselectivity, we used an adapted CASCO workflow which included Rosetta for enzyme design and molecular dynamics simulations for ranking. To correct for unrealistic binding modes, we used Boltzmann weighing of binding energies computed by a linear interaction energy approach. This computationally cheap method predicted four variants with inverted enantioselectivity, each with 6–8 mutations around the substrate‐binding site, causing only modest reduction (2‐ to 7‐fold) of kcat / K M values. Laboratory testing showed that three variants indeed had inverted enantioselectivity, producing ( R )‐alcohols with up to 99 % enantiomeric excess. The broad substrate range allowed reduction of acetophenone derivatives with full conversion to highly enantioenriched alcohols. The results demonstrate the use of computational methods to control ketoreductase stereoselectivity in asymmetric transformations with minimal experimental screening. Abstract : By using Rosetta enzyme design and MD simulations, the active site of a thermostable ketoreductase was redesigned to invert the stereoselectivity. Simultaneous introduction of 6–8 mutations without laboratory screening of mutant libraries gave active enzymes catalyzing asymmetric synthesis of 1‐phenylethanols with high enantiomeric excess.