成果一覧

 

学術論文(審査有り)

 

 1. Tomohito Yamada, Toru Yoshida, Akihiro Kawamoto, Kaoru Mitsuoka, Kenji Iwasaki, Hideaki Tsuge. Cryo-       EM structures reveal translocation unfolding in the clostridial binary iota toxin complex. Nature Struct Mol         Biol., 27(3), 288-296, Mar, 2020. doi:10.1038/s41594-020-0388-6.

 2. Tatsuki Kunoh, Kana Morinaga, Shinya Sugimoto, Shun Miyazaki, Masanori Toyofuku, Kenji Iwasaki,               Nobuhiko Nomura, Andrew S. Utada. Polyfunctional Nanofibril Appendages Mediate Attachment,                   Filamentation, and Filament Adaptability in Leptothrix cholodnii. ACS Nano, Dec, 2019.                               doi:10.1021/acsnano.9b04663. 

 

 3. Kyoko Hanawa-Suetsugu, Yuzuru Itoh, Maisarah Ab Fatah, Tamako Nishimura, Kazuhiro Takemura, Kohei       Takeshita, Satoru Kubota, Naoyuki Miyazaki, Wan Nurul Izzati Wan Mohamad Noor, Takehiko Inaba,               Nhung Thi Hong Nguyen, Sayaka Hamada-Nakahara, Kayoko Oono-Yakura, Masashi Tachikawa, Kenji           Iwasaki, Daisuke Kohda, Masaki Yamamoto, Akio Kitao, Atsushi Shimada, Shiro Suetsugu. Phagocytosis is       mediated by two-dimensional assemblies of the F-BAR protein GAS7. Nature Commun., 10(1), 4763,           Oct, 2019. doi:10.1038/s41467-019-12738-w.

 4. Kouta Mayanagi, Kazumi Saikusa, Naoyuki Miyazaki, Satoko Akashi, Kenji Iwasaki, Yoshifumi Nishimura,         Kosuke Morikawa, Yasuo Tsunaka. Structural visualization of key steps in nucleosome reorganization by         human FACT. Sci. Rep., 9(1), 10183, Jul, 2019. doi:10.1038/s41598-019-46617-7. 

 5. Ali D. Malay, Naoyuki Miyazaki, Artur Biela, Soumyananda Chakraborti, Karolina Majsterkiewicz, Izabela           Stupka, Craig S. Kaplan, Agnieszka Kowalczyk, Bernard M. A. G. Piette, Georg K. A. Hochberg, Di Wu,           Tomasz P. Wrobel, Adam Fineberg, Manish S. Kushwah, Mitja Kelemen, Primoz Vavpetic, Primoz Pelicon,       Philipp Kukura, Justin L. P. Benesch, Kenji Iwasaki, Janathan G. Heddle. An ultra-stable gold-coordinated       protein cage displaying reversible assembly and paradoxical geometry. Nature , 569(7756), 438-442,         May, 2019. doi:10.1038/s41586-019-1185-4. 

 6. Kenta Tsutsumi, Ryo Yonehara, Etsuko Ishizaka-Ikeda, Naoyuki Miyazaki, Shintaro Maeda, Kenji Iwasaki,         Atsushi Nakagawa, Eiki Yamashita. Structures of the wild-type MexAB-OprM tripartite pump reveal its               complex formation and drug efflux mechanism. Nature Commun., 10(1), 1520, Apr, 2019.

     doi:10.1038/s41467-019-09463-9.

 7. Nai-Chi Chen, Masato Yoshimura, Naoyuki Miyazaki, Hong-Hsiang Guan, Phimonphan Chuankhayan,             Chien-Chih Lin, Shao-Kang Chen, Pei-Ju Lin, Yen-Chieh Huang, Kenji Iwasaki, Atsushi Nakagawa,                 Sunney I. Chen, Chun-Jung Chen. The atomic structures of shrimp nodaviruses reveal new dimeric spike         structures and particle polymorphism. Commun Biol., 2, 72, 1-14, Feb, 2019.

     doi:10.101038/s42003-019-0311-z.

 

 8. Naoyuki Miyazaki, Kenji Iwasaki, Junichi Takagi. A systematic survey of conformational states in β1 and         β4 integrins using negative-stain electron microscopy. J. Cell. Sci., 131(10), 1018, May, 2018.                 doi:10.1242/jcs.216754.

 9. Zuben P. Brown, Takao Arimori, Kenji Iwasaki, Junichi Takagi. Development of a new protein labeling             system to map subunits and domains of macromolecular complexes for electron microscopy. J. Struct.             Biol., 201(3), 247-251, Mar, 2018. doi: 10.1016/j.jsb.2017.11.006.

 10. Jonathan Gardiner Heddle, Soumyananda Chakraborti, Kenji Iwasaki.  Natural and Artificial Protein                   Cages: Design, Structure and Therapeutic Applications. Curr. Opin. Struct. Biol., 43, 148-155, Apr,             2017. doi: 10.1016/j.sbi.2017.03.007.

 11. Atsushi Matsumoto, Naoyuki Miyazaki, Junichi Takagi, Kenji Iwasaki. 2D hybrid analysis: Approach for             binding three-dimensional atomic model by electron microscopy image matching. Sci. Rep., 7(1), 377,         Mar, 2017. doi: 10.1038/s41598-017-00337-y.

 12. Kyoko Matoba, Emiko Mihara, Keiko Tamura-Kawakami, Naoyuki Miyazaki, Shintaro Maeda, Hidenori             Hirai, Samuel Thompson, Kenji Iwasaki, Junichi Takagi. Conformational Freedom of the LRP6                         Ectodomain Is Regulated by N-glycosylation and the Binding of the Wnt Antagonist Dkk1. Cell Rep.,               18(1), 32-40, Jan, 2017. doi: 10.1016/j.celrep.2016.12.017.

 13. Soshichiro Nagano, Eleanor F. Banwell, Kenji Iwasaki, Maciej Michalak, Renata Palka, Kam Y. J. Zhang,         Arnout R. D. Voet, Jonathan G. Heddle. Understanding the Assembly of an Artificial Protein nanotube.             Adv. Mater. Interfaces, 3(24), 1600846, Nov, 2016. doi: 10.1002/admi.201600846.

 14. Naoyuki Miyazaki, Akifumi Higashiura, Tomoko Higashiura, Fusamichi Akita, Hiroyuki Hibino, Toshihiro             Omura, Atsushi Nakagawa, Kenji Iwasaki.  Electron microscopic imaging revealed the flexible filamentous         structure of the cell attachment protein P2 of Rice dwarf virus located around the icosahedral fivefold             axes. J. Biochem., 159(2), 181-190, Feb, 2016. doi: 10.1093/jb/mvv092.

 15. Kei Suzuki, Hiroyuki Tsunoda, Ryusuke Omiya, Kyoko Matoba, Takeshi Baba, Sachiyo Suzuki, Hiroaki             Segawa, Atsushi Kumanogoh, Kenji Iwasaki, Kunihiro Hattori, Junichi Takagi. Structure of the Plexin                 Ectodomain Bound by Semaphorin-Mimicking Antibodies. PLoS One, 11(6):e0156719, Jun, 2016.             doi: 10.1371/journal.pone.0156719.

 16. Kei Hirabayashi, Eiki Yuda, Naoyuki Tanaka, Sumie Katayama, Kenji Iwasaki, Takashi Matsumoto, Genji           Kurisu, F. Wayne Outten, Keiichi Fukuyama, Yasuhiro Takahashi, Kei Wada. Functional Dynamics                   Revealed by the Structure of the SufBCD Complex, a Novel ATP-binding Cassette (ABC) Protein That             Serves as a Scaffold for Iron-Sulfur Cluster Biogenesis. J. Biol. Chem., 290(50), 29717-31, Dec,                 2015. doi: 10.1074/jbc.M115.680934.

 17. Masafumi Tanaka, Akira Hosotani, Yuka Tachibana, Minoru Nakano, Kenji Iwasaki, Toru Kawakami,                 Takahiro Mukai. Preparation and Characterization of Reconstituted Lipid-Synthetic Polymer Discoidal               Particles. Langmuir, 31(46), 12719-12726, Nov, 2015. doi: 10.1021/acs.langmuir.5b03438.

 18. Naoyuki Miyazaki, Lakha Salaipeth, Satoko Kanematsu, Kenji Iwasaki, Nobuhiro Suzuki. Megabirnavirus           structure reveals a putative 120-subunit capsid formed by asymmetric dimers with distinctive large                 protrusions. J. Gen. Virol., 96(8), 2435-2441, Aug, 2015. doi: 10.1099/vir.0.000182.

 19. Andrej Sali, et al. (38人中19番目 Kenji Iwasaki). Outcome of the First wwPDB Hybrid/Integrative                     Methods Task Force Workshop. Structure, 23(7), 1156-1167, Jul, 2015.

       doi: 10.1016/j.str.2015.05.013.

 20. Tian-Cheng Li, Kenji Iwasaki, Harutaka Katano, Michiyo Kataoka, Noriyo Nagata, Kazumi Kobayashi,               Tetsuya Mizutani, Naokazu Takeda, Takaji Wakita, Tetsuro Suzuki. Characterization of Self-assembled             Virus-like Particles of Merkel Cell Polyomavirus. PLos One, 10(2):e0115646, Feb, 2015.

       doi: 10.1371/journal.pone.0115646.

 21. Yoshikazu Tsukasaki, Naoyuki Miyazaki, Atsushi Matsumoto, Shigenori Nagae, Shigenobu Yonemura,             Takuji Tanoue, Kenji Iwasaki, Masatoshi Takeichi. Giant cadherins Fat and Dachsous self-bend to                 organize properly spaced intercellular junctions. Proc. Natl. Acad. Sci. U. S. A., 111(45), 16011-               16016, Nov, 2014. doi: 10.1073 /pnas.1418990111.

 22. Hiroka Takase, Hiroki Furuchi, Masafumi Tanaka, Toshiyuki Yamada, Kyoko Matoba, Kenji Iwasaki, Toru         Kawakami, Takahiro Mukai. Characterization of reconstituted high-density lipoprotein particles formed by         lipid interactions with human serum amyloid A. Biochim. Biophys. Acta., 1842(10), 1467-1474, Oct,           2014. doi: 10.1016/j.bbalip.2014.07.012.

 23. Yasunori Yamamoto, Asuka Yoshida, Naoyuki Miyazaki, Kenji Iwasaki, Toshiaki Sakisaka. Arl6IP1 has the         ability to shape the mammalian ER membrane in a reticulon-like fashion. Biochem. J., 458(1), 69-79,           Feb, 2014. doi: 10.1042/BJ20131186.

 24. Naoyuki Miyazaki, Fusamichi Akita, Atsushi Nakagawa, Kazuyoshi Murata, Toshihiro Omura, Kenji                   Iwasaki. Cryo-electron tomography: moving towards revealing the viral life cycle of Rice dwarf virus.

       J. Synchrotron Radiat., 20(Pt6), 826-828, Nov, 2013. doi: 10.1107/S090904951302219X. 

 25. Naoyuki Miyazaki, Atsushi Nakagawa, Kenji Iwasaki. Life cycle of phytoreoviruses visualized by electron           microscopy and tomography. Front. Microbiol., 4(306), 1-9, Oct, 2013.

       doi: 10.3389/fmicb.2013.00306.

 

 26. Hiroki Tanaka, Naoyuki Miyazaki, Kyoko Matoba, Terukazu Nogi, Kenji Iwasaki, Junichi Takagi. Higher-           order architecture of cell adhesion mediated by polymorphic synaptic adhesion molecules neurexin and           neuroligin. Cell Rep., 2 (1), 101-110, Jul, 2012. doi: 10.1016/j.celrep.2012.06.009.

 27. Kyoko Matoba, Junichi Takagi, Takuo Yasunaga, Hiroshi Jinnai, Kenji Iwasaki. Tilt-angle measurement of         a sample stage using a capacitive liquid-based inclinometer. J. Electron Microsc (Tokyo)., 61(3), 193-         198, Jun, 2012. doi: 10.1093/jmicro/dfs034.

 28. Ali D. Malay, Jonathan G. Heddle, Satoshi Tomita, Kenji Iwasaki, Naoyuki Miyazaki, Koji Sumitomo,                 Hisao Yanagi, Ichiro Yamashita, Yukiharu Uraoka. Gold Nanoparticle-Induced Formation of Artificial                 Protein Capsids. Nano Lett., 12(4), 2056-2059, Apr, 2012. doi: 10.1021/nl3002155.

 29. Fusamichi Akita, Naoyuki Miyazaki, Hiroyuki Hibino, Tokurou Shimizu, Akifumi Higashiura, Tamaki                   Uehara-ichiki, Takahide Sasaya, Tomitake Tsukihara, Atsushi Nakagawa, Kenji Iwasaki, Toshihiro Omura.         Viroplasm matrix protein Pns9 from rice gall dwarf virus forms an octameric cylindrical structure.

       J. Gen. Virol., 92 (Pt9), 2214-2221, Sep, 2011. doi: 10.1099/vir.0.032524-0.

 30. Taiyun Wei, Naoyuki Miyazaki, Tamaki Uehara-Ichiki, Hiroyuki Hibino, Tokurou Shimizu, Osamu Netsu,           Akira Kikuchi, Takahide Sasaya, Kenji Iwasaki, Toshihiro Omura. Three-dimensional analysis of the                 association of viral particles with mito- chondria during the replication of Rice gall dwarf virus.

       J. Mol. Biol., 410(3), 436-446, Jul, 2011. doi: 10.1016/j.jmb.2011.05.017.

 31. Hiroki Tanaka, Terukazu Nogi, Norihisa Yasui, Kenji Iwasaki, Junichi Takagi. Structural Basis for Variant-           Specific Neuroligin-Binding by α-Neurexin. PLoS One, 6(4), e19411, Apr, 2011.

       doi: 10.1371/journal.pone.0019411.

 32. Hirotaka Narita, Yasunori Yamamoto, Mamoru Suzuki, Naoyuki Miyazaki, Asuka Yoshida, Katsuhisa                 Kawai, Kenji Iwasaki, Atsushi Nakagawa, Yoshimi Takai, Toshiaki Sakisaka. Crystal structure of the cis-           dimer of nectin-1: implications for the architecture of cell-cell junctions. J. Biol. Chem., 286 (14),                 12659-12669, Apr, 2011. doi: 10.1074/jbc.M110.197368.

 33. Yasunori Yamamoto, Sumiko Mochida, Naoyuki Miyazaki, Katsuhisa Kawai, Kohei Fujikura, Takao                   Kurooka, Kenji Iwasaki, Toshiaki Sakisaka. Tomosyn Inhibits Synaptotagmin-1-mediated Step of Ca2+-           dependent Neurotransmitter Release through Its N-terminal WD40 Repeats. J. Biol. Chem., 285(52),             40943-40955, Dec, 2010. doi: 10. 1074/jbc.M110.156893.

 34. Kenji Iwasaki, Toshihiro Omura. Electron tomography of the supramolecular structure of virus-infected             cells. Curr. Opin. Struct. Biol., 20(5), 632-639, Oct, 2010. doi: 10.1016/j.sbi.2010.08.007.

 35. Aiko Kishimoto-Okada, Satoshi Murakami, Yuri Ito, Naoki Horii, Hiromitsu Furukawa, Junichi Takagi, Kenji         Iwasaki. Comparison of the envelope architecture of E. coli using two methods: CEMOVIS and cryo-               electron tomography. J. Electron Microsc (Tokyo)., 59(5), 419-426, Jul, 2010.

       doi: 10.1093/jmicro/dfq056.

 36. Taiyun Wei, Tamaki Uehara-Ichiki, Naoyuki Miyazaki, Hiroyuki Hibino, Kenji Iwasaki, Toshihiro Omura.             Association of Rice gall dwarf virus with microtubules is necessary for viral release from cultured insect             vector cells. J. Virol., 83(20), 10830-10835, Oct, 2009. doi: 10.1128/JVI.01067-09.

 37. Frederico Faria Miranda, Kenji Iwasaki, Satoko Akashi, Koji Sumitomo, Minoru Kobayashi, Ichiro                     Yamashita, Jeremy R.H. Tame, Jonathan Gardiner Heddle. A self-assembled protein nanotube with high           aspect ratio. Small, 5(18), 2077-2084, Sep, 2009. doi: 10.1002/smll.200900667.

 38. Kei Wada, Norika Sumi, Rina Nagai, Kenji Iwasaki, Takayuki Sato, Kei Suzuki, Yuko Hasegawa, Shintaro         Kitaoka, Yoshiko Minami, F. Wayne Outten, Yasuhiro Takahashi, Keiichi Fukuyama. Molecular dynamism         of Fe-S cluster biosynthesis implicated by the structure of SufC2-SufD2 complex. J. Mol. Biol., 387(1),         245-258, Mar, 2009. doi: 10.1016/j.jmb.2009.01.054.

 39. Hideaki Tanaka, Koji Kato, Eiki Yamashita, Tomoyuki Sumizawa, Yong Zhou, Min Yao, Kenji Iwasaki,               Masato Yoshimura, Tomitake Tsukihara.  The structure of rat liver vault at 3.5 angstrom resolution.                 Science, 323, 5912, 384-388, Jan, 2009. doi: 10.1126/science.1164975.

 40. Kenji Iwasaki, Naoyuki Miyazaki, Lena Hammar, Yi Zhu, Toshihiro Omura, Bomu Wu, Sjöborg, Fredrik,             Koji Yonekura, Kiyoshi Murata, Keiichi Namba, Donald L. Caspar, Yoshinori Fujiyoshi, R. Holland Cheng.         Pleomorphic Configuration of the Trimeric Capsid Proteins of Rice dwarf virus that Allows Formation of             Both the Outer Capsid and Tubular Crystals. J. Mol. Biol., 383(1), 252-265, Oct, 2008.

       doi: 10.1016/j.jmb.2008.08.021.

 41. Atsushi Matsumoto, Tetsuji Kamata, Junichi Takagi, Kenji Iwasaki, Kei Yura. Key interactions in integrin             ectodomain responsible for global conformational change detected by elastic network normal mode                 analysis. Biophys. J., 95(6), 2895-2908, Sep, 2008. doi: 10.1529/biophysj.108.131045.

 42. Koji Kato, Hideaki Tanaka, Tomoyuki Sumizawa, Masato Yoshimura, Eiki Yamashita, Kenji Iwasaki,                 Tomitake Tsukihara. A vault ribonucleoprotein particle exhibiting 39-fold dihedral symmetry.

       Acta Crystallogr. D Biol. Crystallogr., 64(Pt 5), 525-531, May, 2008.

       doi: 10.1107/S0907444908004277.

 

 43. Sumie Katayama, Taiyun Wei, Toshihiro Omura, Junichi Takagi, Kenji Iwasaki. Three-dimensional                   architecture of virus-packed tubule. J.E.M., 56(3), 77-81, Jun, 2007. doi: 10.1093/jmicro/dfm009.

 44. Kenji Iwasaki. Single particle analysis and electron tomography. Int. J. Nanotechnol., 3(4), 480-491,             Oct, 2006. doi: 10.1504/IJNT.2006.011174.

 45. Terukazu Nogi, Norihisa Yausi, Mitsuharu Hattori, Kenji Iwasaki, Junichi Takagi. Structure of a signaling-           competent reelin fragment revealed by X-ray crystallography and electron tomography. EMBO J.,                   25(15), 3675-3683, Aug, 2006. doi: 10.1038/sj.emboj.7601240.

 

 46. Keiko Sugimoto, Shuji Kanamaru, Kenji Iwasaki, Fumio Arisaka, Ichiro Yamashita. Construction of a Ball-         and-Spike Protein Supramolecule. Angew. Chem. Int. Ed. Engl., 45(17), 2725-2728, Apr, 2006.

       doi: 10.1002/anie.200504018.

 47. Kenji Iwasaki, Kaoru Mitsuoka, Yoshinori Fujiyoshi, Yoshihide Fujisawa, Maiko Kikuchi, Kiyotoshi                     Sekiguchi, Tetsuya Yamada. Electron tomography reveals diverse conformations of integrin aIIbb3 in the         active state. J. Struct. Biol., 150(3), 259-267, Jun, 2005. doi: 10.1016/j.jsb.2005.03.005.

 48. J. Bernard Heymann, Kenji Iwasaki, Yang-In Yim, Naiqian Cheng, David M. Belnap, Lois E. Greene, Evan         Eisenberg, Alasdair C. Steven. Visualization of the binding of Hsc70 ATPase to clathrin baskets:                     Implications for an uncoating mechanism. J. Biol. Chem., 280(8), 7156-7161, Feb, 2005.

       doi: 10.1074/jbc.M411712200.

 49. Chikara Sato, Kozo Hamada, Toshihiko Ogura, Atsuo Miyazawa, Kenji Iwasaki, Yoko Hiroaki, Kazutoshi           Tani, Akiko Terauchi, Yoshinori Fujiyoshi, Katsuhiko Mikoshiba. Inositol 1,4,5-trisphosphate receptor               contains multiple cavities and L-shaped ligand-binding domains. J. Mol. Biol., 336(1), 155-164, Feb,           2004. doi: 10.1016/j.jmb.2003.11.024.

 50. Toshihiko Ogura, Kenji Iwasaki, Chikara Sato. Topology representing network enables highly-accurate             classification of protein images taken by cryo electron-micrograph without masking. J. Struct. Biol.,                 143(3), 185-200, Sep, 2003. doi: 10.1016/j.jsb.2003.08.005.

 51. Kenji Iwasaki, Benes L. Trus, Paul T. Wingfield, Naiqian Cheng, Gregorina Campusano, Venigalla B.               Rao, Alasdair C. Steven. Molecular architecture of bacteriophage T4 capsid: vertex structure and                   bimodal binding of the stabilizing accessory protein, Soc. Virology, 271(2), 321-333, Jun, 2000.               doi:10.1006/viro.2000.0321.

 52. Bomu Wu, Lena Hammar, Li Xing, Shant Markarian, Jin Yan, Kenji Iwasaki, Yoshinori Fujiyoshi, Toshihiro         Omura, R. Holland Cheng. Phytoreovirus T=1 core plays critical roles in organizing the outer capsid of           T=13 quasi-equivalence. Virology, 271(1), 18-25, May, 2000. doi: 10.1006/viro.2000.0300.

 53. Yuao Zhu, Andrew M. Hemmings, Kenji Iwasaki, Yoshinori Fujiyoshi, Benfu Zhong, Jin Yan, Masatoshi             Isogai, Toshihiro Omura. Details of the arrangement of the outer capsid of rice dwarf phytoreovirus, as             visualized by two-dimensional crystallography. J. Virol., 71(11), 8899-8901, Nov, 1997.

 

 

 

 

 

 

 

 

 

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