A molecular basis for stoichiometric enzyme encapsulation in the vitamin B2 biosynthesis compartment. Lukasz Koziej, Jedrzej Pankowski, Monika Stefanska, Daniel Jankowski, Agnieszka Gawin, V. Vishal Malolan, Juha T. Huiskonen, Takahiro Kosugi, Yusuke Azuma*. Nat. Commun. (2026)
De novo design of ATPase based on a blueprint optimized for harboring the P-loop motif. Takahiro Kosugi*, Mikio Tanabe, Nobuyasu Koga*. Protein Sci., 34, e70132 (2025) DOI: https://doi.org/10.1002/pro.70132
Structure-based engineering of Tor complexes reveals that two types of yeast TORC1 produce distinct phenotypes. Yoshiaki Kamada*, Chiharu Umeda, Yukio Mukai, Hokuto Ohtsuka, Yoko Otsubo, Akira Yamashita, Takahiro Kosugi*. J. Cell Sci., 137(4), jcs261625 (2024) DOI: https://doi.org/10.1242/jcs.261625
Design of complicated all-α protein structures. Koya Sakuma, Naohiro Kobayashi, Toshihiko Sugiki, Toshio Nagashima, Toshimichi Fujiwara, Kano Suzuki, Naoya Kobayashi, Takeshi Murata, Takahiro Kosugi, Rie Tatsumi-Koga and Nobuyasu Koga*. Nat. Struct. Mol. Biol., 31, 275-282 (2024) DOI: https://doi.org/10.1038/s41594-023-01147-9
Design of allosteric sites into rotary motor V1-ATPase by restoring lost function. Takahiro Kosugi*, Tatsuya Iida, Mikio Tanabe, Ryota Iino and Nobuyasu Koga*. Nat. Chem., 15, 1591-1598 (2023) DOI: https://doi.org/10.1038/s41557-023-01256-4
Robust folding of a de novo designed ideal protein even with most of the core mutated to valine. Rie Koga*, Mami Yamamoto†, Takahiro Kosugi†, Naohiro Kobayashi†, Toshihiko Sugiki, Toshimichi Fujiwara and Nobuyasu Koga*. Proc. Natl. Acad. Sci. U.S.A., 117(49), 31149-31156 (2020) DOI: https://doi.org/10.1073/pnas.2002120117
ShadowR: a novel chromoprotein with reduced non-specific binding and improved expression in living cells. Hideji Murakoshi*, Hiroshi Horiuchi†, Takahiro Kosugi†, Maki Onda, Aiko Sato, Nobuyasu Koga and Junichi Nabekura. Sci. Rep., 9, 12072 (2019) DOI: https://doi.org/10.1038/s41598-019-48604-4
Theoretical Study on Excited States of Bacteriochlorophyll a in Solutions with Density Functional Assessment. Masahiro Higashi*, Takahiro Kosugi, Shigehiko Hayashi and Shinji Saito*. J. Phys. Chem. B, 118(37), 10906-10918 (2014) DOI: https://doi.org/10.1021/jp507259g
Crucial Role of Protein Flexibility in Formation of a Stable Reaction Transition State in an α-amylase Catalysis. Takahiro Kosugi and Shigehiko Hayashi*. J. Am. Chem. Soc., 134(16), 7045-7055 (2012) DOI: https://doi.org/10.1021/ja212117m
QM/MM Reweighting Free Energy SCF for Geometry Optimization on Extensive Free Energy Surface of Enzymatic Reaction. Takahiro Kosugi and Shigehiko Hayashi*. J. Chem. Theory Comput., 8(1), 322-334 (2012) DOI:https://doi.org/10.1021/ct2005837
Local entropy difference upon a substrate binding of a psychrophilic α-amylase and a mesophilic homologue. Takahiro Kosugi and Shigehiko Hayashi*. Chem. Phys. Lett., 501, 517-522 (2011) DOI: https://doi.org/10.1016/j.cplett.2010.11.059
Binding Free Energy Calculations of Adenosine Deaminase Inhibitor and the Effect of Methyl Substitution in Inhibitors. Takahiro Kosugi, Isao Nakanishi* and Kazuo Kitaura. J. Chem. Inf. Model., 49(3), 615-622 (2009) DOI:https://doi.org/10.1021/ci8002667
QM/MM Geometry Optimization on Extensive Free-Energy Surfaces for Examination of Enzymatic Reactions and Design of Novel Functional Properties of Proteins. Shigehiko Hayashi*, Yoshihiro Uchida, Taisuke Hasegawa, Masahiro Higashi, Takahiro Kosugi and Motoshi Kamiya. Annu. Rev. Phys. Chem., 68, 135-154 (2017) DOI: https://doi.org/10.1146/annurev-physchem-052516-050827
タンパク質複合体の合理的改造, 小杉貴洋, 生体の科学, 76(2), 131-135 (2025)
Develop a Strategy to Design Artificial Allosteric Sites in Protein Complexes - Rate Acceleration of Rotary Molecular Motor -, Takahiro Kosugi, Nobuyasu Koga, Photon Factory Highlights 2023, 24-25 (2024)
[ノーベル化学賞2024] 不可能と思われていたタンパク質の構造予測とデザインの扉が開かれた, 小杉貴洋, 岩波書店「科学」2024年12月号, 94(12), 1101-1105 (2024)
David Baker研究室を振り返って, 小杉貴洋, 化学同人「化学」2024年12月号, 79, 27 (2024)
構造解析が導いたタンパク質の改造とその理解, 小杉貴洋, PHOTON FACTORY NEWS, 42(1), 26-29 (2024)
失われた機能を復活させてアロステリック部位を設計する方法：回転型分子モーターV1-ATPaseで実証, 小杉貴洋, 蛋白質科学会アーカイブ, 16, エッセイ013 (2023)
タンパク質設計技術で分子モーターを加速する, 小杉貴洋, 現代化学2023年11月号, No.632, 24-27 (2023)
タンパク質設計技術で目指す未来 – 特集 現代化学の最前線2023, 小杉貴洋, 現代化学2023年1月号, No.622, 34-36, 34-36 (2022)
タンパク質の新常識 de novoデザインタンパク質-生物が持たないタンパク質を設計できる時代, 古賀理恵、小杉貴洋、古賀信康, 実験医学, 40, 2046-2054 (2022)
再定義されるタンパク質の常識 合理デザインによる新規タンパク質の創出：現状とその可能性, 小杉貴洋、古賀理恵、古賀信康, 実験医学, 37, 3089-3095 (2019)
計算機によるタンパク質の設計 – 米国ワシントン大学David Baker研究室, 小杉貴洋, 現代化学2015年2月号, No.527, 30-33 (2015)
海外だより 〜蛋白質設計の巨大な研究室〜, 小杉貴洋, 生物物理学会誌「生物物理」, Vol.54 No.4, 237-238 (2015)