Vol 453/8 May 2008 doi:10.1038/nature06879 | Daniela Röthlisberger1*, Olga Khersonsky4*, Andrew M. Wollacott11*, Lin Jiang1,2, Jason DeChancie6, Jamie Betker3, Jasmine L. Gallaher3, Eric A. Althoff1, Alexandre Zanghellini1,2, Orly Dym5, Shira Albeck5, Kendall N. Houk6, Dan S. Tawfik4 & David Baker1,2,3
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.