原著論文
・Self-emergent vortex flow of microtubule and kinesin in cell-sized droplets under water/water phase separation
H. Sakuta, N. Nakatani, T. Torisawa, *Y. Sumino, K. Tsumoto, *K. Oiwa and K. Yoshikawa,
Commun. Chem. ,680 (2023), DOI: 10.1038/s42004-023-00879-5

・Elucidating Conformational Dynamics and Thermostability of Designed Aromatic Clusters by Using Protein Cages
Y. Hishikawa, H. Noya, S. Nagatoishi, T. Yoshidome, B. Maity, K. Tsumoto, S. Abe, and *T. Ueno,
Chem. Eur. J.,29, e202300488 (2023), DOI: 10.1002/chem.202300488

・Prediction of chaperonin GroE substrates using small structural patterns of proteins
S. Minami, T. Niwa, E. Uemura, R. Koike, H. Taguchi,*M. Ota,
Febs Open Bio,13, 779-794 (2023), DOI:10.1002/2211-5463.13590

・Rational design of phase separating peptides based on phase separating protein sequence of p53
*K. Kamagata, A. Hando, M. Ariefai, N. Iwaki, S. Kanbayashi, R. Koike, K. Ikeda,
Sci. Rep.,13,5648 (2023), DOI: 10.1038/s41598-023-32632-2

・State transitions of a confined actomyosin system controlled through contractility and polymerization rate
R. Sakamoto, *M. Miyazaki, Y.T. Maeda,
Phys. Rev. Research,5,013208 (2023), DOI: 10.1103/PhysRevResearch.5.013208

・Spatiotemporal chaos of a one-dimensional thin elastic layer with the rate-and-state friction law
*Y. Sumino, T. Saito, T. Hatano, T. Yamaguchi, and S. Ide,
Phys. Rev. Research,4,043115 (2022), DOI: 10.1103/PhysRevResearch.4.043115

・Structures and mechanisms of actin ATP hydrolysis
Y. Kanematsu, A. Narita, T. Oda, R. Koike, M. Ota, Y. Takano, K. Moritsugu, I. Fujiwara, K. Tanaka, H. Komatsu, T. Nagae, N. Watanabe, M. Iwasa, *Y. Maéda, *S. Takeda,
Proc. Natl. Acad. Sci. U.S.A.,119,e2122641119 (2022), DOI:10.1073/pnas.2122641119

・gr Predictor: A Deep Learning Model for Predicting the Hydration Structures around Proteins
K. Kawama, Y. Fukushima, M. Ikeguchi, M. Ohta, and *T. Yoshidome,
J. Chem. Inf. Model.,62,4460-4473 (2022), DOI: 10.1021/acs.jcim.2c00987

・Analysis of Brownian motion by elementary school students
M. Miyazaki, Y. Yamazaki, *Y. Hasegawa,
Phys Teach,60,478-483 (2022) DOI: 10.1119/5.0059810

・Simple-Fluid Model for Accurate Reproduction of Hydration Entropy
*T. Yoshidome,
J. Phys. Soc. Jpn. ,91, 094802 (2022), DOI: 10.7566/JPSJ.91.094802

・Pairing-induced motion of source and inert particles driven by surface tension
H. Ishikawa, Y. Koyano, *H. Kitahata, Y. Sumino,
Phys. Rev. E. ,106, 024604 (2022), DOI: 10.1103/PhysRevE.106.024604

・Extended ensemble simulations of a SARS-CoV-2 nsp1–5’-UTR complex
*S. Sakuraba, Q. Xie, K. Kasahara, J. Iwakiri, H. Kono,
PLoS Comput. Biol. ,18, e1009804 (2022), DOI: 10.1371/journal.pcbi.1009804

・Noise-Induced Acceleration of Single Molecule Kinesin-1
*T. Ariga, K. Tateishi, M. Tomishige, and D. Mizuno,
Phys. Rev. Lett. ,127, 178101 (2021), DOI:10.1103/PhysRevLett.127.178101

・高膨潤性ゲル粒子からなる粉体ベッド中への液体注入時のパターン遷移
乙黒康次郎 , 吉井究, 住野豊,
Proceedings of the 27 th Symposium on Traffic Flow and Self-driven Particles,, 7-10 (2021)

・Structural Insights into the Regulation of Actin Capping Protein by Twinfilin C-terminal Tail
*S. Takeda, R. Koike, I. Fujiwara, A. Narita, M. Miyata, M. Ota, Y. Maéda,
J. Mol. Biol. ,433, 166891(2021), DOI: 10.1016/j.jmb.2021.166891

・Crystal structure of human V-1 in the apo form
*S. Takeda, R. Koike, T. Nagae, I. Fujiwara, A. Narita, Y. Maéda, M. Ota,
Acta Crystallogr F Struct Biol Commun ,77, 13-21 (2021), DOI: 10.1107/S2053230X20016829

・Spontaneous deformation and fission of oil droplets on an aqueous surfactant solution
M. Okada, Y. Sumino, H. Ito, *H. Kitahata,
Phys. Rev. E ,102, 042603(2021), DOI: 10.1103/PhysRevE.102.042603

・Free-Energy Calculation of Ribonucleic Inosines and Its Application to Nearest-Neighbor Parameters
S. Sakuraba, J. Iwakiri, M. Hamada, T. Kameda, G. Tsuji, Y. Kimura, H. Abe, *K. Asai,
J. Chem. Theory Comput. ,16,5923-5935 (2020), DOI: 10.1021/acs.jctc.0c00270

・Two floating camphor particles interacting through lateral capillary force
Y. Hirose, Y. Yasugahira, M. Okamoto, Y. Koyano, H. Kitahata, M. Nagayama and *Y. Sumino,
J. Phys. Soc. Jpn.,89 , 074004 (2020), DOI: 10.7566/JPSJ.89.074004

・Aversion of Pedestrians to Face-to-Face Situations Eases Crowding
S. Yajima, *K. Yoshii, Y. Sumino,
J. Phys. Soc. Jpn.,89 ,074003-1-5 (2020), DOI: 10.7566/JPSJ.89.074003

・Tug-of-war between actomyosin-driven antagonistic forces determines the positioning symmetry in cell-sized confinement
R. Sakamoto, M. Tanabe, T. Hiraiwa, K. Suzuki, S-I. Ishiwata, Y.T. Maeda and *M. Miyazaki,
Nat. Commun.,11 ,3063 (2020), DOI:10.1038/s41467-020-16677-9

・Edge Current and Pairing Order Transition in Chiral Bacterial Vortices
K. Beppu, Z. Izri, T. Sato, Y. Yamanishi, Y. Sumino, Y. T. Maeda,
Proc. Natl. Acad. Sci. U. S. A,118 ,e2107461118 (2020), DOI: 10.1073/pnas.2107461118

・All Atom Motion Tree detects side chain-related motions and their coupling with domain motion in proteins
*R. Koike, M. Ota, Biophysics and Physicobiology,16 , 280-286(2019), DOI:10.2142/biophysico.16.0_280. eCollection 2019

書籍/総説・解説
・“非熱的なゆらぎが分子モーターキネシンを加速させる”,*有賀隆行，立石圭人，富重道雄，水野大介, 生物物理, 63, 86-90 (2023), DOI:10.2142/biophys.63.86

・“アクチン細胞骨格構造と機能の再構成”,*宮﨑牧人,生体の科学, 73, 327-332 (2022), DOI: 10.11477/mf.2425201530

・“非熱的なゆらぎで加速する分子モーター”,*有賀隆行,月刊「細胞」, 55, 8-11 (2023)

・“蠢く渦のモデル”,住野豊, 永井健,数学セミナー, 61, 65-71 (2022)

・“分子機械のassembly:散逸構造により自ら形づくる”,*住野豊,現代化学2021年11月号 , 608, 595-600 (2021)

・“細胞核はどこにあるか：アクティブ・ゲルと配置対称性の制御原理”,坂本遼太、前多裕介、宮﨑牧人,日本物理学会誌 , 76, 595-600 (2021), DOI: 10.11316/butsuri.76.9_595

・“指数関数と人間”,住野豊,Colloid and Interface Communication (C & I Commun), , 45, 53-54 (2020)

・“非線形非平衡の物理学とアクティブマターの数理モデル”,住野豊,理大 科学フォーラム, , 417, 24-29(2020)

・“生命の運動と階層性(自発変形、そして集団運動)”,住野豊,高分子, , 69, 152-153(2020)

・Experimental and theoretical energetics of walking molecular motors under fluctuating environments
*T. Ariga, M. Tomishige, D. Mizuno, Biophysical Reviews, 12, 503–510 (2020), DOI:10.1007/s12551-020-00684-7

・“生体分子モーター・キネシンの“散逸”を計測する”,住野豊, 生物物理, 59, 300 (2019), DOI:10.2142/biophys.59.300

・“Pattern transition of injected fluid into a granular bed of highly-swelling gel particles”, K. Otoguro, K. Yoshii, *Y. Sumino,Proc. 27th Symp. on Traffic Flow and Self-driven Particles, , 7-10 (2021)

・「Integrative Structural Biology with Hybrid Methods」,
Nakamura H, Kleywegt G, Burley K.S, Markley L. J.,
“Hybrid Methods for Modeling Protein Structures Using Molecular Dynamics Simulations and Small-Angle
X-Ray Scattering Data”, T. Ekimoto, *M. Ikeguchi, Springer Nature Singapore, 237-258 (2018), ISBN: 978-981-13-2199-3