Kamiya Narutoshi

カミヤナルトシ | Kamiya Narutoshi

Affiliation and department：

Research field (1)： Biophysics

Research theme for competitive and other funds (10)：

2021 - 2024 クチナーゼCut190のCa2+結合に伴う動的構造変化とPET分解分子機構の解明
2020 - 2023 Complex structure and affinity prediction among cancer vaccine peptides and immune related proteins
2016 - 2019 Accurate predictions of complex structure and affinity between proteins and drugs
2012 - 2017 Elucidation of information-processing mechanisms during transcription cycle using computational and information sciences
2013 - 2016 Development of a complex structure prediction method between proteins using binding free-energy as a scoring function

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Papers (78)：

Gert-Jan Bekker, Yoshifumi Fukunishi, Junichi Higo, Narutoshi Kamiya. Assessment of RNA Force Fields for Dynamic Docking of Small Molecules Using Multicanonical MD Simulations. Journal of Chemical Theory and Computation. 2025. 21. 21. 11259-11270
Junichi Higo, Kota Kasahara, Shun Sakuraba, Gert-Jan Bekker, Narutoshi Kamiya, Ikuo Fukuda, Takuya Takahashi, Yoshifumi Fukunishi. A virtual system-coupled molecular dynamics simulation free from experimental knowledge on binding sites: Application to RNA-ligand binding free-energy landscape. Biophysics and Physicobiology. 2025. 22. 2. n/a-n/a
Fumiya Kondo, Narutoshi Kamiya, Gert-Jan Bekker, Satoshi Nagao, Nobutaka Numoto, Hiroshi Sekiguchi, Nobutoshi Ito, Masayuki Oda. Structure-activity relationship of PET-degrading cutinase regulated by weak Ca<sup>2+</sup> binding and temperature. Biophysics and Physicobiology. 2025. 22. 2. n/a-n/a
Nobutaka Numoto, Fumiya Kondo, Gert-Jan Bekker, Zengwei Liao, Mitsuaki Yamashita, Akira Iida, Nobutoshi Ito, Narutoshi Kamiya, Masayuki Oda. Structural dynamics of the Ca2+-regulated cutinase towards structure-based improvement of PET degradation activity. International Journal of Biological Macromolecules. 2024. 281. 136597-136597
Mitsugu Araki, Toru Ekimoto, Kazuhiro Takemura, Shigeyuki Matsumoto, Yunoshin Tamura, Hironori Kokubo, Gert-Jan Bekker, Tsutomu Yamane, Yuta Isaka, Yukari Sagae, et al. Molecular Dynamics Unveils Multiple-Site Binding of Inhibitors with Reduced Activity on the Surface of Dihydrofolate Reductase. Journal of the American Chemical Society. 2024

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MISC (6)：

Gert-Jan Bekker, Narutoshi Kamiya. Thermal Stability Estimation of Single Domain Antibodies Using Molecular Dynamics Simulations. Computer-Aided Antibody Design. 2023. 151-163
Gert-Jan Bekker, Narutoshi Kamiya. Dynamic Docking Using Multicanonical Molecular Dynamics: Simulating Complex Formation at the Atomistic Level. Methods in Molecular Biology. 2021. 187-202
Masayuki Oda, Nobutaka Numoto, Gert-Jan Bekker, Narutoshi Kamiya, Fusako Kawai. Cutinases from thermophilic bacteria (actinomycetes): From identification to functional and structural characterization. Methods in Enzymology. 2021. 159-185
神谷成敏. Thermal Stability Estimation of Single-Domain Antibodies by Molecular Dynamics Simulations. 熱測定. 2020. 47. 4
白木琢磨, 神谷成敏, 陣上久人. 内在性リガンドの結合様式からみた核内受容体PPARγの活性化機構. 蛋白質核酸酵素. 2005. 50. 13. 1660-1665

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