Protein Functional and Structural Biology Team

Protein Functional and Structural Biology…We plan to develop novel methods for preparing and crystallizing important biomolecules, such as membrane proteins, and also establish the X-ray crystallography technology platform that will help to solve problems in drug development and medical treatment. By providing the three-dimensional structure information we will determine for in silico screening and by determination of the structures of target proteins complexed with candidate compounds, we will promote innovation on drug development. We also plan to determine the structures of homologous proteins, which will help the design of more specific compounds, in order to reduce side effect.

Research Fields

Biology & Biochemistry / Molecular Biology & Genetics

Research Subjects

• Three-dimensional structure determination for drug development
• Development of methods for preparing difficult proteins including membrane proteins

Publications

1. Arai, S., Saijo, S., Suzuki, K., Mizutani, K., Kakinuma, Y., Ishizuka-Katsura, Y., Ohsawa, N., Terada, T., Shirouzu, M., Yokoyama, S., Iwata, S., Yamato, I., Murata, T.:
   "Rotation mechanism of Enterococcus hirae V1-ATPase based on asymmetric crystal structures"
   Nature., 493(7434), 703-7 (2013)
2. Yoshikawa, S., Kukimoto-Niino, M., Parker, L., Handa, N., Terada, T., Fujimoto, T., Terazawa, Y., Wakiyama, M., Sato, M., Sano, S., Kobayashi, T., Tanaka, T., Chen, L., Liu, ZJ., Wang, BC., Shirouzu, M., Kawa, S., Semba, K., Yamamoto, T., Yokoyama, S.:
   "Structural basis for the altered drug sensitivities of non-small cell lung cancer-associated mutants of human epidermal growth factor receptor"
   Oncogene., 32(1), 27-38 (2013)
3. Hanawa-Suetsugu, K., Kukimoto-Niino, M., Mishima-Tsumagari, C., Akasaka, R., Ohsawa, N., Sekine, S., Ito, T., Tochio, N., Koshiba, S., Kigawa, T., Terada, T., Shirouzu, M., Nishikimi, A., Uruno, T., Katakai, T., Kinashi, T., Kohda, D., Fukui, Y., Yokoyama, S.:
   "Structural basis for mutual relief of the Rac guanine nucleotide exchange factor DOCK2 and its partner ELMO1 from their autoinhibited forms"
   Proc Natl Acad Sci U S A., 28;109(9), 3305-10 (2012)
4. Murayama, K., Kato-Murayama, M., Hosaka, T., Sotokawauchi, A., Yokoyama, S., Arima, K., Shirouzu, M:
   "Crystal Structure of Cucumisin, a Subtilisin-Like Endoprotease from Cucumis melo L"
   J Mol Biol., 26;423(3), 386-96 (2012)
5. Morishita, EC., Murayama, K., Kato-Murayama, M., Ishizuka-Katsura, Y., Tomabechi, Y., Hayashi, T., Terada, T., Handa, N., Shirouzu, M., Akiyama, T., Yokoyama, S.:
   "Crystal structures of the armadillo repeat domain of adenomatous polyposis coli and its complex with the tyrosine-rich domain of Sam68"
   Structure, 12;19(10), 1496-508 (2011)
6. Wada, T., Shimono, K., Kikukawa, T., Hato, M., Shinya, N., Kim, SY., Kimura-Someya, T., Shirouzu, M., Tamogami, J., Miyauchi, S., Jung, KH., Kamo, N., Yokoyama, S.:
   "Crystal structure of the eukaryotic light-driven proton-pumping rhodopsin, Acetabularia rhodopsin II, from marine alga"
   J Mol Biol., 411(5), 986-98 (2011)
7. Kukimoto-Niino, M., Sakamoto, A., Kanno, E., Hanawa-Suetsugu, K., Terada, T., Shirouzu, M., Fukuda, M., Yokoyama, S.:
   "Structural basis for the exclusive specificity of Slac2-a/melanophilin for the Rab27 GTPases"
   Structure., 16(10), 1478-90 (2008)
8. Shimada, A., Niwa, H., Tsujita, K., Suetsugu, S., Nitta, K., Hanawa-Suetsugu, K., Akasaka, R., Nishino, Y., Toyama, M., Chen, L., Liu, ZJ., Wang, BC., Yamamoto, M., Terada, T., Miyazawa, A., Tanaka, A., Sugano, S., Shirouzu, M., Nagayama, K., Takenawa, T., Yokoyama, S.:
   "Curved EFC/F-BAR-domain dimers are joined end to end into a filament for membrane invagination in endocytosis"
   Cell., 18;129(4), 761-72 (2007)
9. Murayama, K., Shirouzu, M., Kawasaki, Y., Kato-Murayama, M., Hanawa-Suetsugu, K., Sakamoto, A., Katsura, Y., Suenaga, A., Toyama, M., Terada, T., Taiji, M., Akiyama, T., Yokoyama, S.:
   "Crystal structure of the rac activator, asef, reveals its autoinhibitory mechanism"
   J Biol Chem., 282(7), 4238-42 (2006)
10. Sharma, MR., Barat, C., Wilson, DN., Booth, TM., Kawazoe, M., Hori-Takemoto, C., Shirouzu, M., Yokoyama, S.:
    "Fucini P, Agrawal RK., Interaction of Era with the 30S ribosomal subunit implications for 30S subunit assembly"
    Mol Cell., 18(3), 319-329 (2005)