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Automated Design of Efficient and Functionally Diverse Enzyme Repertoires.

ABSTRACT: Substantial improvements in enzyme activity demand multiple mutations at spatially proximal positions in the active site. Such mutations, however, often exhibit unpredictable epistatic (non-additive) effects on activity. Here we describe FuncLib, an automated method for designing multipoint mutations at enzyme active sites using phylogenetic analysis and Rosetta design calculations. We applied FuncLib to two unrelated enzymes, a phosphotriesterase and an acetyl-CoA synthetase. All designs were active, and most showed activity profiles that significantly differed from the wild-type and from one another. Several dozen designs with only 3-6 active-site mutations exhibited 10- to 4,000-fold higher efficiencies with a range of alternative substrates, including hydrolysis of the toxic organophosphate nerve agents soman and cyclosarin and synthesis of butyryl-CoA. FuncLib is implemented as a web server (http://FuncLib.weizmann.ac.il); it circumvents iterative, high-throughput experimental screens and opens the way to designing highly efficient and diverse catalytic repertoires.

SUBMITTER: Khersonsky O

PROVIDER: S-EPMC6193528 | biostudies-literature | 2018 Oct

REPOSITORIES: biostudies-literature

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Automated Design of Efficient and Functionally Diverse Enzyme Repertoires.

Khersonsky Olga O Lipsh Rosalie R Avizemer Ziv Z Ashani Yacov Y Goldsmith Moshe M Leader Haim H Dym Orly O Rogotner Shelly S Trudeau Devin L DL Prilusky Jaime J Amengual-Rigo Pep P Guallar Victor V Tawfik Dan S DS Fleishman Sarel J SJ

Molecular cell 20180927 1

Substantial improvements in enzyme activity demand multiple mutations at spatially proximal positions in the active site. Such mutations, however, often exhibit unpredictable epistatic (non-additive) effects on activity. Here we describe FuncLib, an automated method for designing multipoint mutations at enzyme active sites using phylogenetic analysis and Rosetta design calculations. We applied FuncLib to two unrelated enzymes, a phosphotriesterase and an acetyl-CoA synthetase. All designs were a ...[more]

PMID: 30270109

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Dataset Information

Automated Design of Efficient and Functionally Diverse Enzyme Repertoires.

Publications

Automated Design of Efficient and Functionally Diverse Enzyme Repertoires.

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