Tadashi Ando

Horikoshi, T., Noguchi, H., Umehara, T., Mutsuro-Aoki, H., Kurihara, R., Noguchi, R., Hashimoto, T., Watanabe, Y., Ando, T., Kamata, K., Park, S. Y. & Tamura, K., 20 10月 2021, In: Biochemical and Biophysical Research Communications. 575, p. 90-95 6 p.

研究成果: Article › 査読

1 被引用数 (Scopus)

Molecular Dynamics Simulation of the Resist Filling Process in UV-nanoimprint Lithography

Uchida, H., Imoto, R., Ando, T., Okabe, T. & Taniguchi, J., 2021, In: Journal of Photopolymer Science and Technology. 34, 2, p. 139-144 6 p.

研究成果: Article › 査読

Open Access

4 被引用数 (Scopus)

2020

G:U-Independent RNA Minihelix Aminoacylation by Nanoarchaeum equitans Alanyl-tRNA Synthetase: An Insight into the Evolution of Aminoacyl-tRNA Synthetases

Arutaki, M., Kurihara, R., Matsuoka, T., Inami, A., Tokunaga, K., Ohno, T., Takahashi, H., Takano, H., Ando, T., Mutsuro-Aoki, H., Umehara, T. & Tamura, K., 1 8月 2020, In: Journal of molecular evolution. 88, 6, p. 501-509 9 p.

研究成果: Article › 査読

Open Access

14 被引用数 (Scopus)

RNA aptamers for a tRNA-binding protein from aeropyrum pernix with homologous counterparts distributed throughout evolution

Ohmori, S., Wani, M., Kitabatake, S., Nakatsugawa, Y., Ando, T., Umehara, T. & Tamura, K., 2月 2020, In: Life. 10, 2, 11.

研究成果: Article › 査読

Open Access

4 被引用数 (Scopus)

The crystal structure of the tetrameric human vasohibin-1-SVBP complex reveals a variable arm region within the structural core

Ikeda, A., Urata, S., Ando, T., Suzuki, Y., Sato, Y. & Nishino, T., 1 10月 2020, In: Acta Crystallographica Section D: Structural Biology. 76, p. 993-1000 8 p.

研究成果: Article › 査読

Open Access

2 被引用数 (Scopus)

2019

Glycyl-tRNA synthetase from Nanoarchaeum equitans: The first crystal structure of archaeal GlyRS and analysis of its tRNA glycylation

Fujisawa, A., Toki, R., Miyake, H., Shoji, T., Doi, H., Hayashi, H., Hanabusa, R., Mutsuro-Aoki, H., Umehara, T., Ando, T., Noguchi, H., Voet, A., Park, S. Y. & Tamura, K., 2 4月 2019, In: Biochemical and Biophysical Research Communications. 511, 2, p. 228-233 6 p.

研究成果: Article › 査読

5 被引用数 (Scopus)

Sub-nucleosomal Genome Structure Reveals Distinct Nucleosome Folding Motifs

Ohno, M., Ando, T., Priest, D. G., Kumar, V., Yoshida, Y. & Taniguchi, Y., 24 1月 2019, In: Cell. 176, 3, p. 520-534.e25

研究成果: Article › 査読

Open Access

98 被引用数 (Scopus)

2018

Principles of chemical geometry underlying chiral selectivity in RNA minihelix aminoacylation

Ando, T., Takahashi, S. & Tamura, K., 2018, In: Nucleic acids research. 46, 21, p. 11144-11152 9 p.

研究成果: Article › 査読

Open Access

21 被引用数 (Scopus)

2017

Genesis 1.1: A hybrid-parallel molecular dynamics simulator with enhanced sampling algorithms on multiple computational platforms

Kobayashi, C., Jung, J., Matsunaga, Y., Mori, T., Ando, T., Tamura, K., Kamiya, M. & Sugita, Y., 2017, In: Journal of Computational Chemistry. 38, 25, p. 2193-2206 14 p.

研究成果: Article › 査読

Open Access

150 被引用数 (Scopus)

2016

Biomolecular interactions modulate macromolecular structure and dynamics in atomistic model of a bacterial cytoplasm

Yu, I., Mori, T., Ando, T., Harada, R., Jung, J., Sugita, Y. & Feig, M., 1 11月 2016, In: eLife. 5, NOVEMBER2016, e19274.

研究成果: Article › 査読

Open Access

243 被引用数 (Scopus)

Thermodynamics of macromolecular association in heterogeneous crowding environments: Theoretical and simulation studies with a simplified model

Ando, T., Yu, I., Feig, M. & Sugita, Y., 23 11月 2016, In: Journal of Physical Chemistry B. 120, 46, p. 11856-11865 10 p.

研究成果: Article › 査読

Open Access

24 被引用数 (Scopus)

2015

DNA double-strand breaks alter the spatial arrangement of homologous loci in plant cells

Hirakawa, T., Katagiri, Y., Ando, T. & Matsunaga, S., 5 6月 2015, In: Scientific reports. 5, 11058.

研究成果: Article › 査読

Open Access

24 被引用数 (Scopus)

2014

Left-right asymmetry is formed in individual cells by intrinsic cell chirality

Hatori, R., Ando, T., Sasamura, T., Nakazawa, N., Nakamura, M., Taniguchi, K., Hozumi, S., Kikuta, J., Ishii, M. & Matsuno, K., 1 8月 2014, In: Mechanisms of Development. 133, p. 146-162 17 p.

研究成果: Article › 査読

Open Access

30 被引用数 (Scopus)

Sliding of Proteins Non-specifically Bound to DNA: Brownian Dynamics Studies with Coarse-Grained Protein and DNA Models

Ando, T. & Skolnick, J., 1 12月 2014, In: PLoS Computational Biology. 10, 12

研究成果: Article › 査読

Open Access

39 被引用数 (Scopus)

2013

Dynamic simulation of concentrated macromolecular solutions with screened long-range hydrodynamic interactions: Algorithm and limitations

Ando, T., Chow, E. & Skolnick, J., 28 9月 2013, In: Journal of Chemical Physics. 139, 12, 121922.

研究成果: Article › 査読

Open Access

27 被引用数 (Scopus)

On the importance of hydrodynamic interactions in lipid membrane formation

Ando, T. & Skolnick, J., 8 1月 2013, In: Biophysical journal. 104, 1, p. 96-105 10 p.

研究成果: Article › 査読

Open Access

40 被引用数 (Scopus)

2012

Krylov subspace methods for computing hydrodynamic interactions in Brownian dynamics simulations

Ando, T., Chow, E., Saad, Y. & Skolnick, J., 14 8月 2012, In: Journal of Chemical Physics. 137, 6, 064106.

研究成果: Article › 査読

Open Access

64 被引用数 (Scopus)

2011

Alanine-based peptides containing polar residues presumably favour -helical structure entropically

Kim, W., Yamato, I. & Ando, T., 4月 2011, In: Molecular Simulation. 37, 5, p. 379-385 7 p.

研究成果: Article › 査読

Chirality in planar cell shape contributes to left-right asymmetric epithelial morphogenesis

Taniguchi, K., Maeda, R., Ando, T., Okumura, T., Nakazawa, N., Hatori, R., Nakamura, M., Hozumi, S., Fujiwara, H. & Matsuno, K., 15 7月 2011, In: Science. 333, 6040, p. 339-341 3 p.

研究成果: Article › 査読

169 被引用数 (Scopus)

Role of Asp187 and Gln190 in the Na ⁺/proline symporter (PutP) of Escherichia coli

Amin, A., Ando, T., Saijo, S. & Yamato, I., 10月 2011, In: Journal of Biochemistry. 150, 4, p. 395-402 8 p.

研究成果: Article › 査読

3 被引用数 (Scopus)

Status of GPCR modeling and docking as reflected by community-wide GPCR Dock 2010 assessment

Kufareva, I., Rueda, M., Katritch, V., Stevens, R. C., Abagyan, R., Yoshikawa, Y., Furuya, T., Lee, H., Roy, A., Grime, J., Rebehmed, J., Zhang, Y., Roumen, L., de Esch, I. J. P., Leurs, R., de Graaf, C., Li, Y., Hou, T., Mysinger, M. M. & Weiss, D. R. & 90 others, Irwin, J. J., Shoichet, B. K., McRobb, F. M., Capuano, B., Crosby, I. T., Chalmers, D. K., Yuriev, E., Wang, Q., Mach, R. H., Reichert, D. E., Chuang, G. Y., Rognan, D., Simms, J., Sexton, P., Wootten, D., Latek, D., Ghoshdastider, U., Filipek, S., LenServer, Kirkpatrick, A., Trzaskowski, B., Griffith, A., Kim, S. K., Abrol, R., Goddard, W. A., Vaidehi, N., Lam, A., Bhattacharya, S., Li, H., Balaraman, G., Niesen, M., Pal, S., Solovyev, V., Vorobjev, Y., Bakulina, N., Beuming, T., Costanzi, S., Shi, L., Higgs, C., Salam, N., Lupyan, D., Sherman, W., Ding, F., Kota, P., Ramachandran, S., Dokholyan, N. V., Carlsson, J., Coleman, R. G., Fan, H., Schlessinger, A., Irwin, J. J., Sali, A., Shoichet, B. K., Tikhonova, I., Pogozheva, I., Lomize, A., Hall, N. E., Muddassa, M., Zhang, Y., Nim Pae, A., Lee, J., Lopez, L., Obiol-Pardo, C., Selent, J., Mahboob, S., Werner, T., Bret Church, W., Brylinski, M., Ando, T., Guerler, A., Zhou, H., Skolnick, J., Xhaard, H., Jurkowski, W., Elofsson, A., Murad, A. K., Drwal, M., Dupree, T. B., Griffith, R., Ostopovici-Halip, L., Bologa, C., Chen, K. M., Sun, J., Barth, P., Yarov-Yarovoy, V., Baker, D., Vroling, B., Sanders, M. P. A., Nabuurs, S. B. & Nikiforovich, G. V., 10 8月 2011, In: Structure. 19, 8, p. 1108-1126 19 p.

研究成果: Article › 査読

Open Access