Kemp elimination catalysts by computational enzyme design

Kemp elimination catalysts by computational enzyme design

Vol 453 | 8 May 2008 | Daniela Röthlisberger, Olga Khersonsky, Andrew M. Wollacott, Lin Jiang, Jason DeChancie, Jamie Betker, Jasmine L. Gallaher, Eric A. Althoff, Alexandre Zanghellini, Orly Dym, Shira Albeck, Kendall N. Houk, Dan S. Tawfik & David Baker
The article describes the computational design and experimental characterization of enzymes that catalyze the Kemp elimination reaction, a model for proton transfer from carbon. The authors used a combination of quantum mechanical transition state calculations and RosettaMatch hashing algorithm to design eight enzymes with two different catalytic motifs. These enzymes showed significant rate enhancements (up to 10^5) and multiple turnovers. Mutational analysis confirmed that catalysis depends on the computationally designed active sites, and high-resolution crystal structures validated the designs with atomic accuracy. In vitro evolution further improved the kcat/Km values by over 200-fold. The results demonstrate the power of combining computational protein design with directed evolution for creating new enzymes and suggest a wide range of potential applications in biotechnology, biomedicine, and industrial processes.The article describes the computational design and experimental characterization of enzymes that catalyze the Kemp elimination reaction, a model for proton transfer from carbon. The authors used a combination of quantum mechanical transition state calculations and RosettaMatch hashing algorithm to design eight enzymes with two different catalytic motifs. These enzymes showed significant rate enhancements (up to 10^5) and multiple turnovers. Mutational analysis confirmed that catalysis depends on the computationally designed active sites, and high-resolution crystal structures validated the designs with atomic accuracy. In vitro evolution further improved the kcat/Km values by over 200-fold. The results demonstrate the power of combining computational protein design with directed evolution for creating new enzymes and suggest a wide range of potential applications in biotechnology, biomedicine, and industrial processes.
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Understanding Kemp elimination catalysts by computational enzyme design