PI: Soichi Wakatsuki, Structural Biology, Stanford, and Photon Sciences, SLAC; Co-PIs: Christopher Francis, Earth System Science, and Polly Fordyce, Genetics and Bioengineering; Collaborators: Hasan DeMirci, SLAC, and Marc Deller, ChEM-H Macromolecular Structure Knowledge Center
Student: Yash Rao, Aldis Petriceks, Akshaye Pal, David Adrian Saez , Gabriele M. M. Stoffel
This team comprises faculty from SLAC, the School of Medicine, the School of Engineering and the School of Earth, Energy & Environmental Sciences. The researchers plan to develop a bioreactor of immobilized, engineered enzymes to efficiently convert CO2 into organic compounds like new biofuels. To do this, they will produce three-dimensional structural details of key carbon-fixation enzymes and engineer an improved set of enzymes for faster, more energy-efficient reactions.
1. Stoffel, G., Saez, D., DeMirci, H., Vögeli, B., Rao, Y., Zarzycki, J., Yoshikuni, Y., Wakatsuki, S., Vöhringer-Martinez, E., and Erb, T., 2019. "Four amino acids define the CO2 binding pocket of enoyl-CoA carboxylases/reductases”, PNAS July 9, 2019 116 (28) 13964-13969
2. Hasan DeMirci, Yash Rao, Gabriele M. Stoffel, Bastian Vögeli, Kristina Schell, Alexander Batyuk, Cornelius Gati, Raymond G. Sierra, Mark S. Hunter, E. Han Dao, Halil I. Ciftci, Brandon Hayes, Fredric Poitevin, Kensuke Tono, DavidAdrian Saez, Esteban Vöhringer-Martinez, Samuel Deutsch, Yasuo Yoshikuni, Tobias J. Erb, Soichi Wakatsuk, 2019. Coupled inter-subunit dynamics enable the fastest CO2-fixation by reductive carboxylases
3. Jonathan Herrmanna, Po-Nan Lib, Fatemeh Jabbarpoura, Anson C. K. Chand, Ivan Rajkovicb, Tsutomu Matsui, Lucy Shapiro, John Smit, Thomas M. Weiss, Michael E. P. Murphy, and Soichi Wakatsuki. (2020). PNAS, 117 (1) 388-394. A bacterial surface layer protein exploits multi step crystallization for rapid self-assembly
4. Hasan DeMirci, Bradley B. Tolar, Tzanko Doukov, Aldis Petriceks, Akshaye Pal, Yasuo Yoshikuni, David A. Saez, Juliana A. Murillo-López, Walter A. Rabanal-León, Esteban Vöhringer-Martinez, Thomas Schwander, Tobias Erb, Christopher A. Francis, Soichi Wakatsuki. Structural basis of 4-hydroxybutyryl-CoA dehydration by the aerobic ammonia-oxidizing archaeon Nitrosopumilus maritimus