RIKEN Center for Biosystems Dynamics Research Laboratory for Cell-Free Protein Synthesis
Team Leader: Yoshihiro Shimizu (Ph.D.)
To understand life, it is indispensable to understand the function and the structure of proteins that play essential roles inside and outside of cells. Laboratory for Cell-Free Protein Synthesis aims to develop the PURE system, a reconstituted cell-free protein synthesis system, to contribute to the development of techniques for manipulating, analysing, and modeling proteins by establishing a method for diverse protein production without restraint. We are also trying to incorporate into the PURE system the ability for self-replication by synthesizing PURE system components autonomously. Using these techniques, we hope to design and control living systems.
Main Research Fields
- Biological Sciences
Related Research Fields
- cell-free protein synthesis
Papers with an asterisk(*) are based on research conducted outside of RIKEN.
- 1.Matsuura, T., Tanimura, N., Hosoda, K., Yomo, T. & Shimizu, Y.:
"Reaction dynamics analysis of a reconstituted Escherichia coli protein translation system by computational modeling."
Proc. Natl. Acad. Sci. U. S. A. 114, E1336-E1344 (2017).
- 2.Narumi, R., Shimizu, Y., Ukai-Tadenuma, M., Ode, K. L., Kanda, G. N., Shinohara, Y., et al.:
"Mass spectrometry-based absolute quantification reveals rhythmic variation of mouse circadian clock proteins."
Proc. Natl. Acad. Sci. U. S. A. 113, E3461-E3467 (2016).
- 3.Tanaka, Y. & Shimizu, Y.:
"Integration of a Reconstituted Cell-free Protein-synthesis System on a Glass Microchip"
Anal. Sci. 31, 67-71 (2015).
- 4.Susaki, E. A., Tainaka, K., Perrin, D., Kishino, F., Tawara, T., et al.:
"Whole-Brain Imaging with Single-Cell Resolution Using Chemical Cocktails and Computational Analysis"
Cell 157, 726-739 (2014)
- 5.Shimizu, Y.:
"Biochemical aspects of bacterial strategies for handling the incomplete translation processes"
Front. Microbiol. 5 (2014).
- 6.Shimizu, Y.:
"ArfA Recruits RF2 into Stalled Ribosomes"
J. Mol. Biol. 423, 624-631 (2012)
- 7.Kihira, K. Shimizu, Y., Shomura, Y., Shibata, N., Kitamura, M., Nakagawa, A, et al.:
"Crystal structure analysis of the translation factor RF3 (release factor 3)"
FEBS Lett. 586, 3705-3709 (2012).
- 8.*Shimizu, Y. & Ueda, T.:
"SmpB triggers GTP hydrolysis of elongation factor Tu on ribosomes by compensating for the lack of codon-anticodon interaction during trans- translation initiation"
J. Biol. Chem. 281, 15987-15996 (2006)
- 9.*Shimizu, Y., Kanamori, T. & Ueda, T.:
"Protein synthesis by pure translation systems"
Methods 36, 299-304 (2005)
- 10.*Shimizu, Y., Inoue, A., Tomari, Y., Suzuki, T., Yokogawa, T., et al.:
"Cell-free translation reconstituted with purified components"
Nat. Biotechnol. 19, 751-755 (2001)
- Yoshihiro Shimizu
- Team Leader
- Jiro Adachi
- Research Scientist
- Aya Sato
- Technical Staff I
Email: yshimizu [at] riken.jp