Synergistic Protein-Protein and Protein-Lipid Interactions Drive SARS-CoV-2 Envelope Assembly.

Wataru Shinoda

Ryo Urano Shogo Yoshimoto Katsutoshi Hori Wataru Shinoda Synergistic Protein-Protein and Protein-Lipid Interactions Drive SARS-CoV-2 Envelope Assembly. 2026 7221-7230 66 J. Chem. Inf. Model. 12 https://doi.org/10.1021/acs.jcim.6c01060 db/journals/jcisd/jcisd66.html#UranoYHS26 streams/journals/jcisd

Yusuke Miyazaki 0004 Wataru Shinoda pSPICA Force Field Extended for Proteins and Peptides. 532-542 2024 64 J. Chem. Inf. Model. 2 https://doi.org/10.1021/acs.jcim.3c01611 db/journals/jcisd/jcisd64.html#MiyazakiS24

Kazushi Fujimoto Rajadeep Singh Payal Tomonori Hattori Wataru Shinoda Masayuki Nakagaki Shigeyoshi Sakaki Susumu Okazaki Development of dissociative force field for all-atomistic molecular dynamics calculation of fracture of polymers. 2571-2576 2019 40 J. Comput. Chem. 29 https://doi.org/10.1002/jcc.26034 https://www.wikidata.org/entity/Q92019135 db/journals/jcc/jcc40.html#FujimotoPHSNSO19

Mark Z. Griffiths Wataru Shinoda tSPICA: Temperature- and Pressure-Dependent Coarse-Grained Force Field for Organic Molecules. 3829-3838 2019 59 J. Chem. Inf. Model. 9 https://doi.org/10.1021/acs.jcim.9b00480 https://www.wikidata.org/entity/Q92524977 db/journals/jcisd/jcisd59.html#GriffithsS19

Huihui Liu Susumu Okazaki Wataru Shinoda Heteroaryldihydropyrimidines Alter Capsid Assembly By Adjusting the Binding Affinity and Pattern of the Hepatitis B Virus Core Protein. 5104-5110 2019 59 J. Chem. Inf. Model. 12 https://doi.org/10.1021/acs.jcim.9b01010 https://www.wikidata.org/entity/Q91396758 db/journals/jcisd/jcisd59.html#LiuOS19

Soumya Lipsa Rath Huihui Liu Susumu Okazaki Wataru Shinoda Identification of Factors Promoting HBV Capsid Self-Assembly by Assembly-Promoting Antivirals. 328-337 2018 58 J. Chem. Inf. Model. 2 https://doi.org/10.1021/acs.jcim.7b00471 https://www.wikidata.org/entity/Q47225174 db/journals/jcisd/jcisd58.html#RathLOS18

Takenobu Nakamura Shuhei Kawamoto Wataru Shinoda Precise calculation of the local pressure tensor in Cartesian and spherical coordinates in LAMMPS. 120-128 2015 190 Comput. Phys. Commun. https://doi.org/10.1016/j.cpc.2014.11.017 db/journals/cphysics/cphysics190.html#NakamuraKS15

Keiko Shinoda Wataru Shinoda Masuhiro Mikami Efficient free energy calculation of water across lipid membranes. 1912-1918 2008 29 J. Comput. Chem. 12 https://doi.org/10.1002/jcc.20956 https://www.wikidata.org/entity/Q80954411 db/journals/jcc/jcc29.html#ShinodaSM08

Wataru Shinoda Masuhiro Mikami Rigid-body dynamics in the isothermal-isobaric ensemble: A test on the accuracy and computational efficiency. 920-930 2003 24 J. Comput. Chem. 8 https://doi.org/10.1002/jcc.10249 https://www.wikidata.org/entity/Q73329592 db/journals/jcc/jcc24.html#ShinodaM03

Kazushi Fujimoto Mark Z. Griffiths Tomonori Hattori Katsutoshi Hori Shuhei Kawamoto Huihui Liu Masuhiro Mikami Yusuke Miyazaki 0004 Masayuki Nakagaki Takenobu Nakamura Susumu Okazaki Rajadeep Singh Payal Soumya Lipsa Rath Shigeyoshi Sakaki Keiko Shinoda Ryo Urano Shogo Yoshimoto