Publications

Peer-reviewed

Takuya Hemmi, Saya Moriyama, Akira Ainai, Hisano Yajima, Rin Shirota, Sho Miyamoto, Shiori Ueno, Kei Asayama, Tomo Nomai, Shunsuke Kita, Satoru Nagatoishi, Kouhei Tsumoto, Nanami Hirose, Yukihiko Sugita, Takeshi Noda, Katsumi Maenaka, Yoshimasa Takahashi, Tadaki Suzuki, Takao Hashiguchi^†. “RBD-down Stabilization of SARS-CoV-2 Spike Enhances Cross-neutralizing Antibody Responses by Redirecting Immunodominance Toward Conserved Epitopes” npj Vaccines (2026).
Tomohito Yamada^†, Ren Nakanishi^†, Yukihiko Sugita, Yuki Ninomiya, Toru Yoshida, Takeshi Noda, Hideaki Tsuge^†. “Step-by-Step Maturation Mechanism of the Binary Toxin Pore Revealed by Cryo-EM Analysis” Proceedings of the National Academy of Sciences 123(40), e2627537123 (2026).
Sayaka Ohashi^*, Kota Katayama^*^†, Asato Kojima^*, Xuchun Yang^*, Masahiro Fukuda^*, Filippo Sacchetta, Ryoji Suno, Yukihiko Sugita, Nipawan Nuemket, Suhyang Kim, Kazuhiro Kobayashi, Hiroo Imai, So Iwata, Eriko Nango, Takuya Kobayashi, Takeshi Noda, Massimo Olivucci^†, Hideaki E. Kato^†, Hideki Kandori^†. “Structural Insights into Spectral Tuning and Retinal Exchange in Cone Visual Pigments” Science 392(6805), eadz3996 (2026).
Kei Okatsu^†, Hayato Yamamoto, Akinori Okamoto, Shinya H Goto, Yumiko Nishimoto, Yukihiko Sugita, Takeshi Noda, Shuya Fukai^†. “Structural Basis for the Folding of PINK1 by the HSP90–CDC37 Chaperone Complex” eLife Reviewed Preprint (2026).
Yukihiko Sugita^*^†, Yuya Hirai^*^†, Shinya H. Goto, Takuro Fujiwara, Keizo Tomonaga, Takeshi Noda, Masayuki Horie^†. “Structure and Assembly of Borna Disease Virus 1 Nucleoprotein-RNA Complexes” Science Advances 12(15), eaeb0835 (2026).
Koji Yamauchi, Yukiko Muramoto^†, Yoko Fujita-Fujiharu, Ai Hirabayashi, Chiharu Nogami, Tsubasa Ishida, Yukihiko Sugita, Shinji Saito, Kaori Sano, Tadaki Suzuki, Masahiro Nakano, Takeshi Noda^†. “Multimerization of Secretory IgA Enhances Antiviral Activity by Aggregating Influenza A Virus Particles” Communications Biology 9(1) (2026).
Yoko Fujita-Fujiharu^*, Shangfan Hu^*, Ai Hirabayashi, Yuki Takamatsu, Yen Ni Ng, Kazuya Houri, Yukiko Muramoto, Masahiro Nakano, Yukihiko Sugita, Takeshi Noda^†. “Structural Basis for Ebola Virus Nucleocapsid Assembly and Function Regulated by VP24” Nature Communications 16(1), 2171 (2025).
Masahiro Noji, Yukihiko Sugita, Yosuke Yamazaki, Makito Miyazaki, Yuta Suzuki^†. “Protein Design of Two-Component Tubular Assemblies Similar to Cytoskeletons” Nature Communications 16(1), 6738 (2025).
Aoi Sugiyama^*, Miku Minami^*, Kaito Ugajin, Satomi Inaba-Inoue, Nana Yabuno, Yuichiro Takekawa, Sun Xiaomei, Shiho Takei, Mina Sasaki, Tomo Nomai, Xinxin Jiang, Shunsuke Kita, Katsumi Maenaka, Mika Hirose, Min Yao, Paul R. Gooley, Gregory W. Moseley, Yukihiko Sugita, Toyoyuki Ose^†. “Structural Analysis Reveals How Tetrameric Tyrosine-Phosphorylated STAT1 Is Targeted by the Rabies Virus P-protein” Science Signaling 18(878), eads2210 (2025).
Chiyo Suno-Ikeda^*, Ryo Nishikawa^*, Riko Suzuki^*, Shun Yokoi, Seiya Iwata, Tomoyo Takai, Takaya Ogura, Mika Hirose, Akihisa Tokuda, Risako Katamoto, Akitoshi Inoue, Eri Asai, Ryoji Kise, Yukihiko Sugita, Takayuki Kato, Hiroshi Nagase, Ayori Mitsutake, Tsuyoshi Saitoh, Kota Katayama, Asuka Inoue, Hideki Kandori, Takuya Kobayashi^†, Ryoji Suno^†. “Structural and Dynamic Insights into the Biased Signaling Mechanism of the Human Kappa Opioid Receptor” Nature Communications 16(1) (2025).
Momono Yamauchi, Dohyun Im^†, Shintaro Maeda, Tatsuya Ikuta, Masayasu Toyomoto, Hidetsugu Asada, Yukihiko Sugita, Jun-ichi Kishikawa, Takeshi Noda, Takayuki Kato, Asuka Inoue, So Iwata^†, Masatoshi Hagiwara^†. “Structural Insights into the G-protein Subtype Selectivity Revealed by Human Sphingosine-1-Phosphate Receptor 3–Gq Complexes” Proceedings of the National Academy of Sciences 122(47) (2025).
Dohyun Im^*^†, Mika Jormakka^*, Narinobu Juge^*, Jun-ichi Kishikawa, Takayuki Kato, Yukihiko Sugita, Takeshi Noda, Tomoko Uemura, Yuki Shiimura, Takaaki Miyaji, Hidetsugu Asada, So Iwata^†. “Neurotransmitter Recognition by Human Vesicular Monoamine Transporter 2” Nature Communications 15(1) (2024).
Takeo Kuwata^†, Yu Kaku, Shashwata Biswas, Kaho Matsumoto, Mikiko Shimizu, Yoko Kawanami, Ryuta Uraki, Kyo Okazaki, Rumi Minami, Yoji Nagasaki, Mami Nagashima, Isao Yoshida, Kenji Sadamasu, Kazuhisa Yoshimura, Mutsumi Ito, Maki Kiso, Seiya Yamayoshi, Masaki Imai, Terumasa Ikeda, Kei Sato, Mako Toyoda, Takamasa Ueno, Takako Inoue, Yasuhito Tanaka, Kanako Tarakado Kimura, Takao Hashiguchi, Yukihiko Sugita, Takeshi Noda, Hiroshi Morioka, Yoshihiro Kawaoka, Shuzo Matsushita^†, Jumpei Ito, Naoko Misawa, Arnon Plianchaisuk, Ziyi Guo, Alfredo Hina, Keiya Uriu, Kaoru Usui, Wilaiporn Saikruang, Spyridon Lytras, Ryo Yoshimura, Shusuke Kawakubo, Luca Nishimura, Yusuke Kosugi, Shigeru Fujita, Luo Chen, Jarel Elgin M. Tolentino, Lin Pan, Wenye Li, Maximilian Stanley Yo, Kio Horinaka, Mai Suganami, Adam P. Strange, Mika Chiba, Keiko Iida, Naomi Ohsumi, Kaho Okumura, Shiho Tanaka, Eiko Ogawa, Kyoko Yasuda, Tsuki Fukuda, Rina Osujo, Takasuke Fukuhara, Tomokazu Tamura, Rigel Suzuki, Saori Suzuki, Hayato Ito, Keita Matsuno, Hirofumi Sawa, Naganori Nao, Shinya Tanaka, Masumi Tsuda, Lei Wang, Yoshikata Oda, Zannatul Ferdous, Kenji Shishido, Keita Mizuma, Isshu Kojima, Jingshu Li, Tomoya Tsubo, Shuhei Tsujino, So Nakagawa, Kotaro Shirakawa, Akifumi Takaori-Kondo, Kayoko Nagata, Ryosuke Nomura, Yoshihito Horisawa, Yusuke Tashiro, Yugo Kawai, Kazuo Takayama, Rina Hashimoto, Sayaka Deguchi, Yukio Watanabe, Ayaka Sakamoto, Naoko Yasuhara, Tateki Suzuki, Kanako Kimura, Jiei Sasaki, Yukari Nakajima, Hisano Yajima, Yoshitaka Nakata, Hiroki Futatsusako, Takashi Irie, Ryoko Kawabata, Kaori Tabata, Hesham Nasser, Ryo Shimizu, MST Monira Begum, Michael Jonathan, Yuka Mugita, Otowa Takahashi, Kimiko Ichihara, Chihiro Motozono, Sharee Leong, Akatsuki Saito, Maya Shofa, Yuki Shibatani, Tomoko Nishiuchi, Hiroyuki Asakura, Jiri Zahradnik, Prokopios Andrikopoulos, Miguel Padilla-Blanco, Aditi Konar. “Induction of IGHV3-53 Public Antibodies with Broadly Neutralising Activity against SARS-CoV-2 Including Omicron Subvariants in a Delta Breakthrough Infection Case” eBioMedicine 110, 105439 (2024).
Shangfan Hu, Yoko Fujita-Fujiharu, Yukihiko Sugita, Lisa Wendt, Yukiko Muramoto, Masahiro Nakano, Thomas Hoenen, Takeshi Noda^†. “Cryoelectron Microscopic Structure of the Nucleoprotein–RNA Complex of the European Filovirus, Lloviu Virus” PNAS Nexus 2(4), pgad120 (2023).
Dohyun Im^*, Jun-ichi Kishikawa^*, Yuki Shiimura, Hiromi Hisano, Akane Ito, Yoko Fujita-Fujiharu, Yukihiko Sugita, Takeshi Noda, Takayuki Kato^†, Hidetsugu Asada^†, So Iwata^†. “Structural Insights into the Agonists Binding and Receptor Selectivity of Human Histamine H4 Receptor” Nature Communications 14(1) (2023).
Yoko Fujita-Fujiharu, Yukihiko Sugita, Yuki Takamatsu, Kazuya Houri, Manabu Igarashi, Yukiko Muramoto, Masahiro Nakano, Yugo Tsunoda, Ichiro Taniguchi, Stephan Becker, Takeshi Noda^†. “Structural Insight into Marburg Virus Nucleoprotein–RNA Complex Formation” Nature Communications 13(1), 1191 (2022).
Ryoji Suno^*^†, Yukihiko Sugita^*, Kazushi Morimoto^*, Hiroko Takazaki, Hirokazu Tsujimoto, Mika Hirose, Chiyo Suno-Ikeda, Norimichi Nomura, Tomoya Hino, Asuka Inoue, Kenji Iwasaki, Takayuki Kato, So Iwata, Takuya Kobayashi^†. “Structural Insights into the G Protein Selectivity Revealed by the Human EP3-Gi Signaling Complex” Cell Reports 40(11), 111323 (2022).
Si-Si Liu, Fei Jin, Yi-Shi Liu, Yoshiko Murakami, Yukihiko Sugita, Takayuki Kato, Xiao-Dong Gao, Taroh Kinoshita, Motoyuki Hattori, Morihisa Fujita^†. “Functional Analysis of the GPI Transamidase Complex by Screening for Amino Acid Mutations in Each Subunit” Molecules 26(18), 5462 (2021).
Masahiro Nakano, Yukihiko Sugita, Noriyuki Kodera, Sho Miyamoto, Yukiko Muramoto, Matthias Wolf, Takeshi Noda^†. “Ultrastructure of Influenza Virus Ribonucleoprotein Complexes during Viral RNA Synthesis” Communications Biology 4(1), 858 (2021).
Shinichi Machida^*, Yoshimasa Takizawa^*, Masakazu Ishimaru, Yukihiko Sugita, Satoshi Sekine, Jun-Ichi Nakayama, Matthias Wolf^†, Hitoshi Kurumizaka^†. “Structural Basis of Heterochromatin Formation by Human HP1.” Molecular Cell 69(3), 385-397.e8 (2018).
Tadashi Maemura, Satoshi Fukuyama, Yukihiko Sugita, Tiago J S Lopes, Tomomi Nakao, Takeshi Noda, Yoshihiro Kawaoka^†. “Lung-Derived Exosomal miR-483-3p Regulates the Innate Immune Response to Influenza Virus Infection” The Journal of Infectious Diseases 217(9), 1372–1382 (2018).
Yukihiko Sugita, Hideyuki Matsunami, Yoshihiro Kawaoka, Takeshi Noda, Matthias Wolf^†. “Cryo-EM Structure of the Ebola Virus Nucleoprotein–RNA Complex at 3.6 Å Resolution” Nature 563(7729), 137–140 (2018).
Yuri Abe, Tomokazu Tamura, Shiho Torii, Shiho Wakamori, Makoto Nagai, Kazuya Mitsuhashi, Junki Mine, Yuri Fujimoto, Naofumi Nagashima, Fumi Yoshino, Yukihiko Sugita, Takushi Nomura, Masatoshi Okamatsu, Hiroshi Kida, Yoshihiro Sakoda^†. “Genetic and Antigenic Characterization of Bovine Viral Diarrhea Viruses Isolated from Cattle in Hokkaido, Japan” Journal of Veterinary Medical Science 78(1), 61–70 (2016).
Ritsuko Koga, Yukihiko Sugita, Takeshi Noda, Yusuke Yanagi, Shinji Ohno^†. “Actin-Modulating Protein Cofilin Is Involved in the Formation of Measles Virus Ribonucleoprotein Complex at the Perinuclear Region” Journal of Virology 89(20), 10524–10531 (2015).
Tokiko Watanabe^*, Eiryo Kawakami^*, Jason E Shoemaker, Tiago J S Lopes, Yukiko Matsuoka, Yuriko Tomita, Hiroko Kozuka-Hata, Takeo Gorai, Tomoko Kuwahara, Eiji Takeda, Atsushi Nagata, Ryo Takano, Maki Kiso, Makoto Yamashita, Yuko Sakai-Tagawa, Hiroaki Katsura, Naoki Nonaka, Hiroko Fujii, Ken Fujii, Yukihiko Sugita, Takeshi Noda, Hideo Goto, Satoshi Fukuyama, Shinji Watanabe, Gabriele Neumann, Masaaki Oyama, Hiroaki Kitano, Yoshihiro Kawaoka^†. “Influenza Virus-Host Interactome Screen as a Platform for Antiviral Drug Development” Cell Host & Microbe 16(6), 795–805 (2014).
Yukihiko Sugita, Hiroshi Sagara, Takeshi Noda^†, Yoshihiro Kawaoka^†. “Configuration of Viral Ribonucleoprotein Complexes within the Influenza A Virion” Journal of Virology 87(23), 12879–12884 (2013).
Tokiko Watanabe^*, Maki Kiso^*, Satoshi Fukuyama^*, Noriko Nakajima^*, Masaki Imai^*, Shinya Yamada, Shin Murakami, Seiya Yamayoshi, Kiyoko Iwatsuki-Horimoto, Yoshihiro Sakoda, Emi Takashita, Ryan McBride, Takeshi Noda, Masato Hatta, Hirotaka Imai, Dongming Zhao, Noriko Kishida, Masayuki Shirakura, Robert P de Vries, Shintaro Shichinohe, Masatoshi Okamatsu, Tomokazu Tamura, Yuriko Tomita, Naomi Fujimoto, Kazue Goto, Hiroaki Katsura, Eiryo Kawakami, Izumi Ishikawa, Shinji Watanabe, Mutsumi Ito, Yuko Sakai-Tagawa, Yukihiko Sugita, Ryuta Uraki, Reina Yamaji, Amie J Eisfeld, Gongxun Zhong, Shufang Fan, Jihui Ping, Eileen A Maher, Anthony Hanson, Yuko Uchida, Takehiko Saito, Makoto Ozawa, Gabriele Neumann, Hiroshi Kida, Takato Odagiri, James C Paulson, Hideki Hasegawa, Masato Tashiro, Yoshihiro Kawaoka^†. “Characterization of H7N9 Influenza A Viruses Isolated from Humans” Nature 501(7468), 551–555 (2013).
Takeshi Noda^†, Yukihiko Sugita, Kazuhiro Aoyama, Ai Hirase, Eiryo Kawakami, Atsuo Miyazawa, Hiroshi Sagara, Yoshihiro Kawaoka^†. “Three-Dimensional Analysis of Ribonucleoprotein Complexes in Influenza A Virus” Nature Communications 3(1), 639 (2012).
Yukihiko Sugita, Takeshi Noda^†, Hiroshi Sagara, Yoshihiro Kawaoka^†. “Ultracentrifugation Deforms Unfixed Influenza A Virions” Journal of General Virology 92(11), 2485–2493 (2011).

Preprints

Masahiko Yoshimura^*, Fuyuki Matsuda^*, Yoshiki Ikeda^*, Chihiro Mori, Tomoko Yoneda, Minako Kikukawa, Rie Murakami, Chiharu Nogami, Yukihiko Sugita, Yoshiko Nakada-Nakura, Masahiko Tsujimoto, Daishi Fujita^†. “A Concentration-Independent Paradigm Rendering Weak Interactions Inherently Quantifiable” arXiv (2026).
Miku Minami^*, Aoi Sugiyama^*, Shatabdi Chakraborty, Tomo Nomai, Cassandra T. David, Yuichiro Takekawa, Fei Yan, Yuta Iizuka, Karyn Wilde, Satomi Inaba-Inoue, Nana Yabuno, Mika Hirose, Tomoyasu Aizawa, Mina Sasaki, Shunsuke Kita, Katsumi Maenaka, Yukihiko Sugita, Gregory W. Moseley^†, Paul R. Gooley^†, Toyoyuki Ose^†. “Rabies Virus Antagonizes Interferon Signaling by Targeting Phosphorylated STAT1 Tetramers” bioRxiv (2026).
Masahiro Noji, Takuro Fujiwara, Yukihiko Sugita, Yuta Suzuki^†. “Thermally Tunable Heterodimeric Linkers Control Protein Tube Morphology” bioRxiv (2026).

^*Equal contribution ^†Correspondence