Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm
Yu, Isseki, Mori, Takaharu, Ando, Tadashi, Harada, Ryuhei, Jung, Jaewoon, Sugita, Yuji, Feig, Michael
Published in eLife (01.11.2016)
Published in eLife (01.11.2016)
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Journal Article
Crowding in Cellular Environments at an Atomistic Level from Computer Simulations
Feig, Michael, Yu, Isseki, Wang, Po-hung, Nawrocki, Grzegorz, Sugita, Yuji
Published in The journal of physical chemistry. B (31.08.2017)
Published in The journal of physical chemistry. B (31.08.2017)
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Journal Article
Reduced efficacy of a Src kinase inhibitor in crowded protein solution
Kasahara, Kento, Re, Suyong, Nawrocki, Grzegorz, Oshima, Hiraku, Mishima-Tsumagari, Chiemi, Miyata-Yabuki, Yukako, Kukimoto-Niino, Mutsuko, Yu, Isseki, Shirouzu, Mikako, Feig, Michael, Sugita, Yuji
Published in Nature communications (02.07.2021)
Published in Nature communications (02.07.2021)
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Journal Article
Influence of protein crowder size on hydration structure and dynamics in macromolecular crowding
Wang, Po-hung, Yu, Isseki, Feig, Michael, Sugita, Yuji
Published in Chemical physics letters (01.03.2017)
Published in Chemical physics letters (01.03.2017)
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Journal Article
Influence of Hydrostatic Pressure on Dynamics and Spatial Distribution of Protein Partial Molar Volume: Time-Resolved Surficial Kirkwood-Buff Approach
Yu, Isseki, Tasaki, Tomohiro, Nakada, Kyoko, Nagaoka, Masataka
Published in The journal of physical chemistry. B (30.09.2010)
Published in The journal of physical chemistry. B (30.09.2010)
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Journal Article
SPANA: Spatial decomposition analysis for cellular‐scale molecular dynamics simulations
Yu, Isseki, Mori, Takaharu, Matsuoka, Daisuke, Surblys, Donatas, Sugita, Yuji
Published in Journal of computational chemistry (30.03.2024)
Published in Journal of computational chemistry (30.03.2024)
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Journal Article
Molecular Modeling of the Solvent Structuring of Chloroform around Cellulose Triacetate
Yu, Isseki, Iwata, Kazuyuki, Ueda, Kazuyoshi, Nakayama, Haruo
Published in Bulletin of the Chemical Society of Japan (01.12.2003)
Published in Bulletin of the Chemical Society of Japan (01.12.2003)
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Journal Article
Molecular Modeling of the Solvent Structuring of DMSO around Cellulose Triacetate
Yu, Isseki, Ueda, Kazuyoshi, Nakayama, Haruo
Published in Bulletin of the Chemical Society of Japan (01.03.2003)
Published in Bulletin of the Chemical Society of Japan (01.03.2003)
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Journal Article
GENESIS 2.1: High-Performance Molecular Dynamics Software for Enhanced Sampling and Free-Energy Calculations for Atomistic, Coarse-Grained, and Quantum Mechanics/Molecular Mechanics Models
Jung, Jaewoon, Yagi, Kiyoshi, Tan, Cheng, Oshima, Hiraku, Mori, Takaharu, Yu, Isseki, Matsunaga, Yasuhiro, Kobayashi, Chigusa, Ito, Shingo, Ugarte La Torre, Diego, Sugita, Yuji
Published in The journal of physical chemistry. B (27.06.2024)
Published in The journal of physical chemistry. B (27.06.2024)
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Journal Article
Protein Diffusion in a Dense Solution Studied by All-Atom Molecular Dynamics Simulations
Nawrocki, Grzegorz, Wang, Po-hung, Yu, Isseki, Sugita, Yuji, Feig, Michael
Published in Biophysical journal (02.02.2018)
Published in Biophysical journal (02.02.2018)
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Journal Article