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MIZUKAMI, Taku Assistant Professor
Materials Science, Co-Creative Intelligence

Published Papers

39 items
第一原理計算とデータ科学的アプローチ
ダムヒョウチ,水上卓
化学と教育, 67, 2, 62-64, 2019
Molecular dynamics study of binary POPC bilayers: Molecular condensing effects on membrane structure and dynamics
Hiroaki Saito, Tetsuya Morishita, Taku Mizukami, Ken Ichi Nishiyama, Kazutomo Kawaguchi, Hidemi Nagao
Journal of Physics: Conference Series, 1136, 012022-012022, 2018
Molecular Dynamics Study of Gramicidin A in Lipid Bilayer: Electrostatic Map and Ion Conduction
Hiroaki SAITO, Masashi IWAYAMA, Kazutomo KAWAGUCHI, Taku MIZUKAMI, Takeshi MIYAKAWA, Masako TAKASU, Hidemi NAGAO
JPS Conf. Proc., 012053-, 2014
Molecular Dynamics Simulations of the Hras-GTP Complex and the Hras-GDP Complex
Miyakawa Takeshi, Morikawa Ryota, Takasu Masako, Sugimori Kimikazu, Mizukami Taku, Kawaguchi Kazutomo, Saito Hiroaki, Nagao Hidemi
INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY, 113, 21, 2333-2337, 2013
A Molecular Dynamics Study of Hras–GTP and GDP Complexes: the Properties of Water Molecules around Guanine Nucleotide
Takeshi Miyakawa, Ryota Morikawa, Masako Takasu, Kimikazu Sugimori, Kazutomo Kawaguchi, Hiroaki Saito, Hidemi Nagao
AIP Conference Proceedings, 1518, 594-, 2013
Molecular dynamics study on binding free energy of Azurin-Cytochrome c551 complex
Hiroaki Saito, Masashi Iwayama, Taku Mizukami, Jiyoung Kang, Masaru Tateno, Hidemi Nagao
CHEMICAL PHYSICS LETTERS, 556, 297-302, 2013
2P128 Hydration water behavior in the protein docking process by simulating data mining approach(07. Water & Hydration & Electrolyte,Poster)
Mizukami Taku, Sugiyama Ayumu, Chi Dam Hieu, Bao Ho Tu
Seibutsu Butsuri, 53, 1, S180-, 2013
Molecular dynamics study of gramicidin a in lipid bilayer: Structure and lateral pressure profile
Hiroaki Saito, Masashi Iwayama, Hiroyuki Takagi, Megumi Nishimura, Takeshi Miyakawa, Kazutomo Kawaguchi, Masako Takasu, Taku Mizukami, Hidemi Nagao
INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY, 112, 24, 3834-3839, 2012
The Potentials of the Atoms around Mg2+ in the H-ras GTP and GDP Complexes
Miyakawa, T, Morikawa, R, Takasu, M, Sugimori, K, Mizukami, T, Kawaguchi, K, Saito, H, Nagao, H
Prog. Theor. Chem. Phys., 26, 525-543, 2012
Solvation Effect on the Structural Change of a Globular Protein: A Molecular Dynamics Study
Taku Mizukami, Hiroaki Saito, Shuhei Kawamoto, Takeshi Miyakawa, Masashi Iwayama, Masako Takasu, Hidemi Nagao
INTERNATIONAL JOURNAL OF QUANTUM CHEMISTRY, 112, 1, 344-350, 2012
1PT001 Solvation free energy in protein dochking process(The 50th Annual Meeting of the Biophysical Society of Japan)
Mizukami Taku, Siato Hiroaki, Nagao Hidemi
Seibutsu Butsuri, 52, S83-, 2012
Molecular dynamics studies of lipid bilayer with gramicidin A: effects of gramicidin A on membrane structure and hydrophobic match
Hiroaki Saito, Taku Mizukami, Shuhei Kawamoto, Takeshi Miyakawa, Masashi Iwayama, Masako Takasu, Hidemi Nagao
Int. J. Quantum Chem., 112, 161-170, 2012
3Q1024 The solvation free energy induced by structural change of PYP(Photobiology : Vision & Photoreception3,The 49th Annual Meeting of the Biophysical Society of Japan)
Mizukami Taku, Saito Hiroaki, Nagao Hidemi
Seibutsu Butsuri, 51, S160-, 2011
1P261 Free energy analysis of Photoactive Yellow Protein(Photobiology:Vision & Photoreception,The 48th Annual Meeting of the Biophysical Society of Japan)
Mizukami Taku, Sugiyama Ayumu, Saitou Hiroaki, Nagao Hidemi
Seibutsu Butsuri, 50, 2, S65-, 2010
3P-038 Solvation free energy of globular protein: an estimation by means of energy representation method(Protein:Property,The 47th Annual Meeting of the Biophysical Society of Japan)
Saito Hiroaki, Matsumoto Keisuke, Nakamura Riki, Mizukami Taku, Nishikawa Kiyoshi, Nagao Hidemi
Seibutsu Butsuri, 49, S157-, 2009
3P-039 Stability of Azurin(II)-Cytochrome(II) Complex: An effect of Change of Hydration Structure(Protein:Property,The 47th Annual Meeting of the Biophysical Society of Japan)
Nakamura Riki, Matsumoto Keisuke, Saito Hiroaki, Mizukami Taku, Tateno Masaru, Nishikawa Kiyoshi, Nagao Hidemi
Seibutsu Butsuri, 49, S157-, 2009
3P-037 Free Energy Change of Azurin-Cytochrome Complex by Redox Reaction: A Molecular Dynamics Study(Protein:Property,The 47th Annual Meeting of the Biophysical Society of Japan)
Nagao Hidemi, Saito Hiroaki, Matsumoto Keisuke, Nakamura Riki, Mizukami Taku
Seibutsu Butsuri, 49, S157-, 2009
3P-106 Correlation of structural change in protein and hydration water : Molecular dynamic study of PYP(Water, Hydration & Electrolyte,The 47th Annual Meeting of the Biophysical Society of Japan)
Mizukami Taku, Sugiyama Ayumu, Nakamura Riki, Matsumoto Keisuke, Saito Hiroaki, Nagao Hidemi
Seibutsu Butsuri, 49, S169-, 2009
2P-034 Molecular dynamics study on thermodynamical stability of Oxidized Azurin - Reduced Cytochromec_<551> complex(Protein:Property,The 47th Annual Meeting of the Biophysical Society of Japan)
Matsumoto Keisuke, Nakamura Riki, Mizukami Taku, Saitou Hiroaki, Tateno Masaru, Nishikawa Kiyoshi, Nagao Hidemi
Seibutsu Butsuri, 49, S111-, 2009
Tautomerism of histidine 64 associated with proton transfer in catalysis of Carbonic Anhydrase
Shimahara Hideto, Yoshida Takuya, Sugimori Kimiichi, Sugiyama Ayumu, Mizukami Taku, Nagao Hidemi, Nakazawa Takashi, Ohkubo Tadayasu, Kobayashi Yuji
FASEB JOURNAL, 22, 13, 9646-9656, 2008
2P-094 Structural stability of Azurin (II)-Cytochrome (II) Conplex in solution : A Molecular Dynamics Study(The 46th Annual Meeting of the Biophysical Society of Japan)
Nakamura Riki, Matsumoto Keisuke, Mizukami Taku, Saito Hiroaki, Nisikawa Kiyoshi, Nagao Hidemi
Seibutsu Butsuri, 48, S89-, 2008
2P-092 Theoretical study on structure of cucumber basic protein by means of molecular dynamics simulation(The 46th Annual Meeting of the Biophysical Society of Japan)
Matsumoto Keisuke, Nakamura Riki, Mizukami Taku, Saito Hiroaki, Nishikawa Kiyoshi, Nagao Hidemi
Seibutsu Butsuri, 48, S89-, 2008
1P-063 QM and NMR Analysis of Tautomerization of His64 Coupled to Ionization of Zinc-Bound Solvent during Proton Transfer in Carbonic Anhydrase(The 46th Annual Meeting of the Biophysical Society of Japan)
Shimahara Hideto, Sugimori Kimiichi, Sugiyama Ayumu, Mizukami Taku, Yoshida Takuya, Nagao Hidemi, Nakazawa Takashi, Ohkubo Tadayasu, Kobayashi Yuji
Seibutsu Butsuri, 48, S30-, 2008
1P-097 Structural stability of Azurin and Cytochrome complex by molecular dynamics simulation(The 46th Annual Meeting of the Biophysical Society of Japan)
Nagao Hidemi, Matsumoto Keisuke, Nakamura Riki, Mizukami Taku, Saito Hiroaki, Nishikawa Kiyoshi
Seibutsu Butsuri, 48, S36-, 2008
2P-273 Hierarchical cluster analysis of global water structure near the surface of PYP : interaction and correlation between water and protein(The 46th Annual Meeting of the Biophysical Society of Japan)
Mizukami Taku, Sugiyama Ayumu, Purquon Acep, Nakamura Riki, Matsumoto Keisuke, Saito Hiroaki, Nagao Hidemi
Seibutsu Butsuri, 48, S117-, 2008
Free energy calculation of docking structure of Azurin(I)-Cytochrome c(551)(III) complex systems by using the energetic representation
Nishikawa Keigo, Yamamoto Tetsunoni, Sugiyama Ayumu, Purqon Acep, Mizukami Taku, Shimahara Hideto, Nagao Hidemi, Nishikawa Kiyoshi
COMPLEX SYSTEMS-BOOK 1, 982, 780-+, 2008
Theoretical study of free energy in docking stability of Azurin(II)-Cytochrome c(551)(III) complex system
Tetsunori Yamamoto, Keigo Nishikawa, Ayumu Sugiyama, Acep Purqon, Taku Mizukami, Hideto Shimahara, Hidemi Nagao, Kiyoshi Nishikawa
COMPLEX SYSTEMS-BOOK 1, 982, 784-+, 2008
3P258 Protein-Water Interactions and Free Energy Calculation in Photoactive Yellow Protein(Photobiology- vision and photoreception. Actinobiology,Oral Presentations)
Mizukami Taku, Sugiyama Ayumu, Nishikawa Keigo, Yamamoto Tetsunori, Nagao Hidemi
Seibutsu Butsuri, 47, S267-, 2007
3P358 Docking stability of Azurin(I)-Cytochrome c_<551>(III) Complex Systems by Free Energy Calculation(Others,Poster Presentations)
Nishikawa K., Yamamoto T., Sugiyama A., Acep Purqon, Mizukami T., Shimahara H., Nagao H., Nishikawa K.
Seibutsu Butsuri, 47, S292-, 2007
2P284 Free Energy Calculation of Spaghetti-like Nanoclusters by using The Energetic Representation(Native and artificial biomembranes-dynamics,Poster Presentations)
Purqon Acep, Nishikawa Keigo, Yamamoto Tetsunori, Mizukami Taku, Shimahara Hideto, Sugiyama Ayumu, Nagao Hidemi, Nishikawa Kiyoshi
Seibutsu Butsuri, 47, S184-, 2007
1P414 Molecular Dynamics Study of Hydrated Water Behavior in Photoactive Yellow Protein(17. Light driven system,Poster Session,Abstract,Meeting Program of EABS &BSJ 2006)
Mizukami Taku, Sugiyama Ayumu, Nagano Hidemi
Seibutsu Butsuri, 46, 2, S250-, 2006
Molecular dynamics study of hydration water behavior in blue copper protein
Sugiyama Ayumu, Takamatsu Yuichiro, Purqon Acep, Mizukami Taku, Nagao Hidemi, Nishikawa Kiyoshi
FLOW DYNAMICS, 832, 570-+, 2006
1P276 Kinetic analysis of photoreacted bacteriorhodopsin by means of fast MEM algorithm
Mizukami T.
Seibutsu Butsuri, 45, S100-, 2005
Direct measurement of rate distributions in the bacteriorhodopsin photocycle
Mizukami T.
Seibutsu Butsuri, 43, S190-, 2003
Roles of amino acid residues near the chromophore of photoactive yellow protein
Y Imamoto, H Koshimizu, K Mihara, O Hisatomi, T Mizukami, K Tsujimoto, M Kataoka, F Tokunaga
BIOCHEMISTRY, 40, 15, 4679-4685, 2001
Contribution of methyls in retinal side chain to regioselective photoisomerization of retinochromes
Kazuo Tsujimoto, Jun'ichirou Sugiura, Nobuaki Takemori, Taku Mizukami
Chemistry Letters, 10, 1051-1052, 1999
Chemical tools for detection of intracellular pH-change in halobacteria
Hikaru Urano, Taku Mizukami, Kazuo Tsujimoto
Chemistry Letters, 12, 1217-1218, 1997
Unusual conformation and photoisomerization of retinochrome analogues with 11-methylretinals
Kazuo Tsujimoto, Yasuhiro Shirasaka, Taku Mizukami, Mamoru Ohashi
Chemistry Letters, 8, 813-814, 1997
Direct observation of the thermal equilibria among lumirhodopsin, metarhodopsin I, and metarhodopsin II in chicken rhodopsin
H. Imai, T. Mizukami, Y. Imamoto, Y. Shichida
Biochemistry, 33, 47, 14351-14358, 1994