Research Summary

Selected Publications

• 1. Nagao, S., Kuwano, W., Tosha, T., Yamashita, K., Stanfield, J. K., Kasai, C., Ariyasu, S., Hirata, K., Ueno, G., Murakami, H., Ago, H., Yamamoto, M., Shoji, O., Sugimoto, H., and Kubo, M.:
  "XFEL crystallography reveals catalytic cycle dynamics during non-native substrate oxidation by cytochrome P450BM3"
  "Communications Chemistry 8, 63 (2025).
• 2. Hirata, K.:
  "Useful experimental aspects in Small Wedge Synchrotron Crystallography for accurate structure analysis of protein molecule"
  "Acta Crystallographica Section D 81(1), 22-37 (2025).
• 3. Ando, R., Shimozono, S., Ago, H., Takagi, M., Sugiyama, M., Kurokawa, H., Hirano, M., Niino, Y., Ueno, G., Ishidate, F., Fujiwara, T., Okada, Y., Yamamoto, M., and Miyawaki, A.:
  "StayGold variants for molecular fusion and membrane-targeting applications"
  "Nature Methods 21, 648-656 (2024).
• 4. Matsuura, H., Sakai, N., Toma-Fukai, S., Muraki, N., Hayama, K., Kamikubo, H., Aono, S., Kawano, Y., Yamamoto, M., and Hirata, K.:
  "Elucidating polymorphs of crystal structures with intensity-based hierarchical clustering analysis on multiple diffraction datasets"
  "Acta Crystallographica Section D 79(10), 909-924 (2023).
• 5. Maeki, M., Ito, S., Takeda, R., Ueno, G., Ishida, A., Tani, H., Yamamoto, M., and Tokeshi, M.:
  "Room-temperature crystallography using a microfluidic protein crystal array device and its application to protein-ligand complex structure analysis"
  "Chemical Science 11, 9072-9087 (2020).
• 6. Nakasako, M., Kobayashi, A., Takayama, Y., Asakura, K., Oide, M., Okajima, K., Oroguchi, T., and Yamamoto, M.:
  "Methods and application of coherent X-ray diffraction imaging of noncrystalline particles"
  "Biophysical reviews 12(2), 541-567 (2020).
• 7. Suga, M., Akita, F., Yamashita, K., Nakajima, Y., Ueno, G., Li, H., Yamane, T. Hirata, K., Umena, Y., Yonekura, S., Yu, L.-J., Murakami,H., Nomura, T., Kimura, T., Kubo, M., Baba, S., Kumasaka, T., Tono, K., Yabashi, M., Isobe, H., Yamaguchi, K., Yamamoto, M., Ago, H.,and Shen, J.-R.:
  "An oxyl/oxo mechanism for oxygen-oxygen coupling in PSII revealed by an x-ray free-electron laser"
  "Science, 366, 334-338 (2019).
• 8. Hirata, K., Yamashita, K., Ueno. G., Kawano Y., Hasegawa, K., Kumasaka, T., and Yamamoto, M.:
  "ZOO: an automatic data-collection system for high-throughput structure analysis in protein microcrystallography"
  "Acta Crystallographica Section D 75, 138-150 (2019).
• 9. Yamashita, K., Hirata, K., and Yamamoto, M.:
  "KAMO: towards automated data processing for microcrystals"
  "Acta Crystallographica Section D 74, 441-449 (2018).
• 10. Hasegawa, K., Yamashita, K., Murai, T. Nuemket, N., Hirata, K., Ueno, G., Ago, H., Nakatsu, T., Kumasaka, T., and Yamamoto. M.:
  "Development of a dose-limiting data collection strategy for serial synchrotron rotation crystallography"
  "Journal of Synchrotron Radiation 24 (1), 29-41 (2017).

Recent Research Results

• 

  Feb. 9, 2018
  A light touch for enzyme analysis

• 

  Dec. 15, 2017
  How bacteria avoid poisoning themselves

• 

  Sep. 22, 2017
  Watching enzymes inhale

• 

  Feb. 6, 2015
  Shining a gentle light on photosynthesis

• 

  Jul. 18, 2014
  X-ray studies without the damage

Lab Members

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