Publications

Research Publications

  1. Yamada, T. Yamato, S. Mitaku, “Forced unfolding mechanism of bacteriorhodopsin as revealed by coarse-grained molecular dynamics”, Biophysical Journal, 111: 2086-2098, (2016).
  1. Sato, H. Kitoh-Nishioka, K. Ando, T. Yamato, Computational study on the roles of amino acid residues in the active site formation mechanism of blue-light photoreceptors, Chem. Phys. Lett. 633: 247-251, (2015).
  1. Ishikura, Y. Iwata, T. Hatano, T. Yamato, “Energy exchange network of inter-residue interactions within a thermally fluctuating protein molecule: A computational study” J. Comput. Chem. 36: 1709-1718, (2015).
  1. Yamato, K. Yura, “Combinatorial approach of molecular dynamics simulations and database analysis for the studies of protein structure and function” SEIKAGAKU (The Japanese Biochemical Society Journal), 85 (8) pp. 646-655, (2013).
  1. Ishikura, T. Hatano, T. Yamato, “Atomic stress tensor analysis of proteins”, Chem. Phys. Lett. 539, pp. 144-150, (2012).
  1. Tsuduki, A. Tomita, S. Koshihara, S. Adachi, T. Yamato, “Ligand migration in myoglobin: A combined study of computer simulation and X-ray crystallography”, J. Chem. Phys., 136(16) 165101 (9 pages) (2012).
  1. Mimura, T. Yamato, T. Kamiyama, K. Gekko, “Nonneutral Evolution of volume fluctuation in lysozymes revealed by normal-mode analysis of compressibility”, Biophys. Chem. 161: 39-45, 2012.
  1. C.Watanabe, Y. Mori, T. Tada, S. Yokoyama, T. Yamato, “Molecular mechanism of long-range synergetic color tuning between multiple amino acid residues in conger rhodopsin”, Biophysics (Oxf), 6: 67-68, 2010.
  1. Yamato, Proteins at work, “Computational biopolymer science of energy, electron, proton transfer and ligand migration”, KOBUNSHI RONBUNSHU, 67: 179-186, (2010).
  1. Tomita, T. Sato, K. Ichiyanagi, S. Nozawa, H. Ichikawa, M. Chollet, F. Kawai, SY. Park, T. Tsuduki, T. Yamato, S. Koshihara, and S. Adachi, “Visualizing breathing motion of internal cavities in concert with ligand migration in myoglobin”, Proceedings of the National Academy of Sciences of U.S.A.,106: 2612-2616, (2009)
  1. C.Watanabe, T. Ishikura, T. Yamato, “Theoretical modeling of the O-intermediate state of bacteriorhodopsin”, PROTEINS: Structure, Function and Bioinformatics, 75: 53-61, (2009).
  1. Koike, K. Kawaguchi, and T. Yamato, “Stress tensor analysis of proteinquake of photoactive yellow protein”, Physical Chemistry Chemical Physics, 10: 1400-1405, (2008).
  1. Miyazawa, H. Nishioka, K. Yura, T. Yamato, “Discrimination of class I CPD photolyase from blue light photoreceptors by single methionine residue”, Biophysical Journal, 94: 2194-2203, (2008).
  1. Yamato, T. Ishikura, T. Kakitani, K. Kawaguchi, H. Watanabe, “Spectral tuning of photoactive yellow protein”, Photochemistry and Photobiology, 83: 323-327, (2007).
  1. Yokoyama, T. Tada, T. Yamato, “Modulation of the absorption maximum of rhodopsin by amino acids in the C-terminus”, Photochemistry and Photobiology, 83: 236-241, (2007).
  1. Kawaguchi, T. Yamato, “Theoretical prediction of optical absorption peaks for photosensory receptor mutants”, Chem. Phys. Lett. 430: 386-390, (2006).
  1. Ishikura, T. Yamato, “Energy transfer pathways relevant for long-range intramolecular signaling of photosensory protein revealed by microscopic energy conductivity analysis”, Chem. Phys. Lett. 432: 533-537, (2006).
  1. Nishioka, T. Yamato, T. Kakitani, “Temperature dependence of the inelastic tunneling”, Molecular Simulation, 32, 727-734, (2006).
  1. Nishioka, A. Kimura, T. Yamato, T. Kawatsu, T. Kakitani, “Interference, fluctuation, and alternation of electron tunneling in protein media. 2. Non-Condon theory for the energy gap dependence of electron transfer rate”, J. Phys. Chem. B. 109: 15621-15635, (2005).
  1. Nishioka, A. Kimura, T. Yamato, T. Kawatsu, T. Kakitani, “Interference, fluctuation, and alternation of electron tunneling in protein media. 1. Two tunneling routes in photosynthetic reaction center alternate due to thermal fluctuation of protein conformation”, J. Phys. Chem. B. 109: 1978-1987, (2005).
  1. Yamada, T. Yamato, T. Kakitani, S. Yamamoto, “Torsion potential works in rhodopsin”, Photochemistry and Photobiology, 79: 476-486, (2004).
  1. Yamada, T. Ishikura, T. Yamato, “Direct measure of functional importance visualized atom-by-atom for photoactive yellow protein: Application to photoisomerization reaction”, PROTEINS: Structure, Function and Bioinformatics, 55: 1070-1077, (2004).
  1. Yamada, T. Ishikura, T. Yamato, “Role of protein in the primary step of the photoreaction of yellow protein”, PROTEINS: Structure, Function and Bioinformatics, 55: 1063-1069, (2004).
  1. Yamada, T. Yamato, T. Kakitani, S. Yamamoto, “Analysis of cis-trans photoisomerization mechanism of rhodopsin based on the tertiary structure of rhodopsin”, Journal of Photoscience, 9: 51-54, (2002).
  1. Kawatsu, T. Kakitani, T. Yamato, “Destructive interference in the electron tunneling through protein media”, J. Phys. Chem. B., 106: 11356-11366, (2002).
  1. Yamada, T. Kakitani, S. Yamamoto, and T. Yamato, “A computational study on the stability of the protonated Schiff base of retinal in rhodopsin”, Chem. Phys. Lett. 366: 670-675, (2002).
  1. Kakitani, T. Kawatsu, A. Kimura, A. Yamada, T. Yamato, S. Yamamoto, “Unique mechanism of excitation energy transfer and photoisomerization in biological systems” J. Biol. Phys., 28: 367-381, (2002).
  1. Kawatsu, T. Kakitani, T. Yamato, “On the anomaly of the tunneling matrix element in long-range electron transfer” J. Phys. Chem. B, 106: 5068-5074, (2002).
  1. Kawatsu, T. Kakitani, T.Yamato, “Worm Model for Electron Tunneling in Proteins: Consolidation of the Pathway Model and the Dutton Plot”, J. Phys. Chem. B, 105: 4424-4435, (2001).
  1. Yamamoto, H. Wasada, T. Kakitani, T. Yamato, “Ab initio MO study on the potential energy surfaces for twisting around C15=N bond of protonated Schiff base of retinal”, THEOCHEM 543:79-87, (2001).
  1. Yamada, S. Yamamoto, T. Yamato, T. Kakitani, “Ab initio MO study on potential energy surfaces for twisting around C7=C8 and C4-C7 bonds of coumaric acid” THEOCHEM 536: 195-201, (2001).
  1. Kimura, T. Kakitani, T. Yamato, “Theory of excitation energy transfer in the intermediate coupling case and its application to the photosynthetic antenna systems”, International Journal of Modern Physics B, 15:3833-3836, (2001).
  1. Kimura, T. Kakitani, T. Yamato, “Theory of excitation energy transfer in the intermediate coupling case. II. Criterion for intermediate coupling excitation energy transfer mechanism and application to the photosynthetic antenna system”, J. Phys. Chem. B 104: 9276-9287, (2000).
  1. Kimura, T. Kakitani, T. Yamato, “Theory of excitation transfer in the intermediate coupling case”, J. Luminescence 87-89: 815-817, (2000).
  1. Kawatsu, T. Kakitani, T. Yamato, “A novel method for determining electron tunneling pathway in protein”, Inorganica Chimica Acta 300: 862 - 868, (2000).
  1. Goto, T. Kakitani, T. Yamato, Y. Hatano, “Monte Carlo simulation study on the structure and reaction at metal-electrolyte interface. II. Mechanism of nonlinear electrode reactions” J. Phys. Soc. Jpn. 68: 3729-3737, (1999).
  1. Takano, T. Yamato, J. Higo, A. Suyama, K. Nagayama, “Molecular dynamics of a 15-residue poly(L-alanine) in water: the helix formation and its energetics” J. Am. Chem. Soc. 121: 605-612, (1999).
  1. Yamamoto, H. Wasada, T. Kakitani, T. Yamato, “Ab initio MO study on the potential energy surfaces for twisting around C11=C12 bond of protonated Schiff base of retinal”, THEOCHEM 461: 463-471, (1999).
  2. Yamato, N. Niimura, N. Go, “Molecular dynamics study of femtosecond events in the photoactive yellow protein after photoexcitation of the chromophore”, PROTEINS: Structure, Function, and Genetics 32:268-275, (1998).
  1. Wako, T. Yamato, “A novel method to detect a motif of local structures in different protein conformations”, Protein Engineering 11: 981-990, (1998).
  1. Yamato, T. Kakitani, “Molecular dynamics simulation of the excited-state dynamics of bacteriorhodopsin”, Photochemistry and Photobiology 66: 735-740, (1997).
  1. Kobayashi, T. Yamato, N. Go, Mechanical property of a TIM-barrel protein. PROTEINS: Structure, Function, and Genetics 28:109-116, (1997).
  1. Yamato, “Strain tensor field in proteins”, J. Mol. Graph. 14: 105-107, (1996).
  1. Yamato, M. Saito, J. Higo, “Topographical metric to analyze the thermal fluctuations of protein conformation”, Chem. Phys. Lett. 219:155-159, (1994).
  1. Yamato, J. Higo, Y. Seno, and N. Go, “Conformational deformation in deoxymyoglobin by hydrostatic pressure”, Proteins: Structure, Function, and Genetics 16:327-340, (1993).

Book Chapters and Articles in Conference Proceedings

  1. Yamato, Chapter 6. “Quamtum mechanical calculations in the active site”, Keisankagaku Koza No.7, pp. 145-171, Kyuritsu Shuppan, Tokyo, (2013).
  1. Yamato, “Molecular Simulation Techniques”, in Introduction to Structural Computational Biology, pp. 124–133. (in Japanese) Kodansha, Tokyo, Japan (2010).
  1. Yamato, “Energy flow pathways in photoreceptor proteins”, in Proteins: Energy, Heat, and Signal Flow, Eds. D. Leitner, and J. Straub, Taylor and Francis/CRC Press, (2009) pp.129–147.
  1. Yamato, H. Nishioka, and K. Yura, “Identification of Functional Residues of DNA Photolyase by Biophysical Computation and Bioinformatics”, in Seibutsu Butsuri, 49: 196–197, (2009).
  1. Yamato, “Neural-network model may explain the surprisingly good infrared vision of snakes” (by Bertram Schwarzschild, Physics Today 59 (9): 18-20, 2006), in Parity 22 (3): 27-31, 2007, Maruzen, Tokyo, Japan. (Japanese translation by T. Yamato)
  1. Yamato, “Electron transfer and excitation energy transfer”, T. Yamato, in Biophysics Handbook, eds. S. Ishiwata, I. Kirino, & S. Mitaku, Asakura publishing, Tokyo, Japan, pp.409-412, (2007) (Japanese)
  1. Yamato, “Energy calculation and normal mode anaysis”, in Biophysics Handbook, eds. S. Ishiwata, I. Kirino, & S. Mitaku, Asakura Publishing, Tokyo, Japan, pp. 482-485, (2007) (Japanese)
  1. Yamato, “Chromophores in biological systems”, in Biophysics Handbook, eds. S. Ishiwata, I. Kirino, & S. Mitaku, Asakura Publishing, Tokyo, Japan, pp. 412-415, (2007), (Japanese)
  1. Yamato, “Molecular orbital calculation”, in Encyclopedia of Bioinformatics, ed. Japanese Society for Bioinformatics, pp. 232, Kyoritsu publishing, Tokyo, Japan, 2006 (Japanese)
  1. Yamato, “Schrodinger equation”, in Encyclopedia of Bioinformatics, ed. Japanese Society for Bioinformatics, pp. 231-232, Kyoritsu publishing, Tokyo, Japan, 2006 (Japanese)
  1. Yamato, “Static magnetic field”, in Encyclopedia of Bioinformatics, ed. Japanese Society for Bioinformatics, pp. 221-222, Kyoritsu publishing, Tokyo, Japan, 2006 (Japanese)
  1. Yamato, “Electrostatic field”, in Encyclopedia of Bioinformatics, ed. Japanese Society for Bioinformatics, pp. 220-221, Kyoritsu publishing, Tokyo, Japan, 2006 (Japanese)
  1. Yamato, “Equations of Electromagnetic Field” in Encyclopedia of Bioinformatics, ed. Japanese Society for Bioinformatics, pp. 219-220, Kyoritsu publishing, Tokyo, Japan, 2006 (Japanese)
  1. Yamato, “Molecular mechanism of photosignal transduction and photoenergy conversion by proteins”, in Nagoya University Information Technology Center News, 5(3): 253-256, 2006 (Japanese)
  1. Nishioka, A. Kimura, T. Yamato, T. Kakitani, “Non-Condon theory for the energy gap dependence of electron transfer rate” in Frontiers of Computational Science. Proceedings of the International Symposium on Frontiers of Computational Science 2005., Y. Kaneda, H. Kawamura, M. Sasai, Eds., pp. 293-297.
  1. Nishioka, T. Kawatsu, A. Kimura, T. Yamato, T. Kakitani, “Prediction of Inelastic Tunneling Mechanism from Bacteriopheophytin to the Primary Quinone in Modified Bacterial Photosynthetic Reaction Centers”, Photosynthesis: Fundamental Aspects to Global Perspectives, Proceedings of the 13th International Congress on Photosynthesis, Vol. 1, pp. 327-328, 2005.
  1. Yamato, “Quantum mechanics of Proteins”, in Physics News 2003, Parity 19(1): 56-58, 2004, Maruzen, Tokyo, Japan (Japanese)
  1. Yamato, “Photoenergy conversion and photosignal transduction in biology” in New Frontiers of Biophysics, pp. 123-148, bluebacks series, Kodansha, Tokyo, Japan, 2001, (Japanese)
  1. Yamato, T. Kakitani, “Molecular dynamics simulation of the excited-state dynamics of bacteriorhodopsin.” in Photosynthesis: Mechanisms and Effects, Vol. III, pp 1771-1774, G. Garab, ed., Kluwer Academic Publishers, Netherlands, 1999.
  1. Yamato, “Finite element study of protein structure under high pressure” in High Pressure Bioscience and Biotechnology, Progress in Biotechnology. 13. Elsevier, Amsterdam, pp. 157-162, 1996.
  1. Yamato, N. Go, “Computer simulation approach” in New development of bio-inorganic chemistry, Kikan kagaku sousetsu, Gakkai Syuppan Center, Tokyo, 25-29, 1995. (Japanese)
  1. Yamato, “Computational study on the mechanical constructions of protein”, in BUTSURI 49:305-307, 1994. (Japanese)
  1. Yamato, “Physics and Biology, Biomolecules: Where the physics of complexity and simplicity meet” (special issue by H. Frauenfelder and P. Wolynes, Physics Today 47(2): 58-64, 1994), in Parity 9(11): 4-13 1994, Maruzen, Tokyo, Japan. (Japanese translation by T. Yamato)
  1. Yamato and N. Go, “Conformational deformation in deoxymyoglobin by hydrostatic pressure” in Computer Aided Innovation of New Materials II., Elsevier, Amsterdam., pp. 1215-1218, 1993.
  1. Yamato and N. Go, “Glass state of proteins”, in BUSSEI KENKYU, 59(5): 672-677, 1993, (Japanese).

Selected Invited Presentations

2016

  • “Ligand migration in myoglobin: A combined study of computer simulation and X-ray crystallography”, International Conference – Free Energy Landscape of Protein Folding and Dynamics by Simulations based on Enhanced Conformational Sampling Arlgorithms”, Aug. 6, 2016. Nagoya Univ. Japan.
  • “Coarse-grained simulation of forced unfolding of bacteriorhodopsin”, IPR Seminar, Univ. Tokyo, Tokyo, Japan. Mar. 1-2, 2016.

2015

  • “Energy exchange network model of proteins”, Pacifichem2015 “Conformational dynamics of biomolecules and the biomolecule-solvent interface”, Honolulu, Hawaii, USA. Dec. 18-22, 2015.
  • “Energy exchange network model of inter-residue interactions in proteins”, Telluride Science Research Workshop, Telluride, CO, USA. Aug. 3-7, 2015.

2014

  • “Reorganization of energy exchange network of amino acid residues and the protein allostery ”, International Workshop on Computational Biomolecular Science, Ongake, Japan. Mar. 31, 2014.

2013

  • “Molecular mechanism of allosteric communication in proteins: Computational analysis of energy flow”, “Large-scale molecular simulation in biology, chemistry, and physics”, Satellite meeting of ICMS2013, Nagoya, Nov. 16, 2013.
  • “Role of reorganizable interactions through native residue contacts in the allosteric communication of proteins: A computational study by the inter-residue energy conductivity analysis”, Protein dynamics, Telluride Science Research Workshop, Telluride, CO, Aug. 5-9, 2013.
  • “Intramolecular communication chart of proteins: Computational analysis of energy transfer pathways”, Thermal transport at the nanoscale, Telluride Science Research Workshop, Telluride, CO, Jun. 25-29, 2013.
  • “Electron, energy and information flow in proteins”, Nagoya Institute of Technology, Nagoya, Japan. Mar. 19, 2013.
  • “Ligand migration in myoglobin: A combined study of computer simulation and x-ray crystallography”, 4th France-Japan Joint Seminar, Imaging of spatiotemporal hierarchies in living cells – an overview of dynamics from molecules to cells –, Harima, Japan, Jan. 6–11, (2013).

2012

  • “Exploring Protein Function using Computational Biophysics”, Center for Computational Sciences, Ochanomizu University, The 1st International Symposium, Tokyo, Japan, Feb. 16, 2012.

2011

  • “Computational Biophysics of Proteins: Flow of Particles, Energy and Signals”, Crosstalk Discussion between Theory and Experimental Studies on the Future of Protein Science, IPR Seminar, Osaka Univ. Osaka, Japan. Nov. 21-22, 2011.
  • “Computational Biophysics of Protein Functions”, Physics Department Special Seminar, Nagoya University, Nagoya, Japan, Dec. 5, 2011.

2010

  • “Intramolecular Communication Chart of Proteins: Computational Analysis of Energy Transfer Pathways”, Thermal Transport at the Nanoscale, Telluride Science Research Center Workshop, Telluride, CO, USA, Jun. 21-25, 2010.
  • “Proteins at Work: Computational Biophysics of Energy, Electron, Proton Transfer and Ligand Migration”, COE Start-up International Workshop, Chiba University, Chiba, Japan, Nov. 11-12, 2010.
  • “Reaction Analysis and Conformational Sampling for Multidimensional Large Scale Systems: Approach to Biological Systems.” The 4th Workshop on Condensed Matter Sciences: Frontiers in Condensed Matter Research, Takeda Hall, University of Tokyo, Tokyo, Japan, Nov. 13–15, 2010.
  • “Intramolecular Communication Chart of Proteins: A Computational Study”, Seminar Host: Prof. Spudich, University of Texas Medical Branch, Houston, TX, USA. Jan. 20, 2010.

2009

  • “Energy, Electron, Proton Transfer and Ligand Migration in Proteins”, Chemistry Department Seminars, University of Nevada, Reno, Nov. 6, 2009.
  • “Structure-function relationships of DNA photolyase: Analysis of Electron Transfer Reaction”, The 50th Annual meeting of the Japanese Society of Plant Physiologists, Symposium - -, March 21-24, 2009, Nagoya, Japan.
  • “Electronic States, Molecular Dynamics and Functions of Proteins”, 50th Anniversary Memorial Symposium of Biophysics in Nagoya University, March 25-26, 2009, Nagoya, Japan.

2008

  • Electronic States, Molecular Dynamics and Functions of Proteins, The 46th Annual meeting of the Biophysical Society of Japan, Symposium – What Protein Tertiary Structure Tells Us -, December 4, 2008, Fukuoka, Japan.
  • “Computational Study of Photoreceptor Functions: From Primary Photochemistry to Protein Structural Changes”, Seminar, Emory University, USA, Sep. 11–13, 2008.
  • Electronic States, Dynamics, and Functions of Photoreceptor Proteins, The 1st CMD International Symposium – Chemical Computations, May 30- June 1, 2008, Seoul, Korea.
  • “Introduction to Biophysics”, 1st Nagoya Summer School of Molecular Assembly and Biomolecular Systems, Aug. 19, 2008, Okazaki, Japan.
  • “Computational Studies of Photoreceptor Function: From Primary Photochemistry to Protein Structural-Changes”, Photosensory Receptors & Signal Transduction, Gordon Research Conferences, Crown Plaza, Ventura, CA, United States, Jan 27-Feb 1, 2008.

2007

  • “Signal Transduction of Photoreceptor Proteins. I. Color Tuning Mechanism”, “Signal Transduction of Photoreceptor Proteins. II. Excited-State Dynamics”, “Signal Transduction of Photoreceptor Proteins. III. Long-Range Intramolecular Signaling”, 2007 NCTS Spring Workshop on Complex Systems and Signals, Three Lectures, Mar. 22-26, 2007, Taipei, Taiwan.
  • “Computational Biophysics of Photosensory Proteins”, Workshop on Computational Biophysics, Nagoya, Japan, Nov. 20-21, 2007.
  • “Discovery of Key Residue for DNA-Photolyase Function”, 7th Seminar on Genome Informatics by Biophysical Approach, Dec. 7, 2007, Nagoya, Japan.

2006

  • “Spectral Tuning, Photoisomerization and Energy Transfer Pathways in Photoactive Yellow Protein”, The 3rd Asia and Oceania Conference on Photobiology, Nov. 17-20, 2006, Beijing, China.
  • “Spectral Tuning, Photoisomerization and Energy Flow in Photoactive Yellow Protein”, The 12th International Conference on Retinal Proteins, Jun. 4-8, 2006, Hyogo, Japan.

2005

  • “Computational Biophysics of Protein Structures and Dynamics”, “Photoreceptor Functions Analyzed by QM/MM Hybrid Methods”, Three Lectures at Tokyo Institute of Technology, Dec. 6-7, 2005, Suzukakedai, Japan.
  • “Properties of Proteins Created by Electrons and Nuclei”, Molecule Forum, Control and Application of Nano-Structured Materials for Advanced Data Processing and Communications, Core Research for Evolutional Science and Technology (CREST), Japan Science and Technology Agency (JST), May 27, 2005, Tokyo, Japan.
  • “Molecular Mechanism of Photosensory Proteins: Study on the Photoactive Yellow Protein and Rhodopsin”, Feb. 1, 2005, Japan Atomic Energy Research Institute Seminar, Kyoto, Japan.

2004

  • “Structure-Function Relationship of Photoreceptor Proteins”, The 8th Membrane Research Forum, Nov. 23, 2004, Nagoya, Japan.
  • “Proton in Life Science”, Symposium – Creation and Evolution of Matter -, Nov. 26, 2004, Nikko, Japan.
  • “Molecular Mechanism of Photoreceptor Reactions”, The 12th Theoretical Chemistry Symposium, Sep. 12, 2004, Lake Biwa, Japan.
  • “Role of Theoretical Physics and Chemistry in Life Science”, Discovery, Synthesis and Emergence of Novel Knowledge through Computational Science – The Startup Symposium of Center for Computational Sciences, Jun. 6, 2004, University of Tsukuba, Japan.

2003

  • “Protein-Driven Photoisomerization Reaction”, Molecular Structure Workshop (BUNSIKOZO TOURONKAI), Sep. 9, 2003, Kyoto, Japan.
  • “Protein-Driven Photoisomerization Reaction”, IMS Symposium – Molecular Science of Rhodopsins -, May 31, 2003, Okazaki Conference Center, Institute for Molecular Science, Japan.
  • “Excited-State Calculations and Quantum Structural Biology of Macrobiomolecules”, Workshop for Protein Dynamics, Mar. 10, 2003, Okazaki Conference Center, Japan.
  • “Protein-Driven Reaction: Ab initio QM/MM study”, ITBL Workshop for Computer Simulation of Biomolecules, Jan. 22, 2003, Kyoto, Japan.
  • “Quantum Structural Biology of Protein-Driven Reactions”, GenProc2003, Jan. 10, 2003, Tokyo, Japan.

2002

  • “Computer Simulation of Biomolecular Function”, The 3rd Workshop for Computational Genomics, Nov. 5, 2002, Nagoya, Japan.
  • “Theoretical Study on the Photoisomerization Dynamics of Photoactive Yellow Protein”, The 1st Asian Conference on Photobiology, Jun. 28, 2002, Awaji, Japan.
  • “Excitation Energy Transfer, Electron Transfer, and Excited State Dynamics of Proteins”, Supercomputer Workshop, Mar. 5, 2002, Research Center for Computational Science, Okazaki, Japan.
  • “Computational Studies on the Structure-Function Relationships of Photoreceptors”, The 4th Bio-Design Workshop, Jan. 31, 2002, Nagoya, Japan.

2001

  • “Electronic Structure Calculations and Biophysics”, The 4th Asian Workshop on First-Principles Electronic Structure Calculations, Oct. 29, 2001, Taipei, Taiwan.
  • “Structure-Function Relationships of Membrane Photoreceptor Proteins”, Structural Genomics of Membrane Proteins Symposium, The 39th Annual Meeting of Biophysical Society of Japan, Oct. 6, 2001, Osaka, Japan.
  • “Structure-Function Relationships of Photoreceptor Proteins: Molecular Dynamics Study”, Photobiology and Energy Conversion: ICBP2001 Satellite Meeting, Jul. 27, 2001, Nagoya, Japan.

1999

  • “Mechanism of Photoisomerization of Bacteriorhodopsin”, The 3rd International Conference on Low Temperature Chemistry: Quantum Tunneling, Quantum Medium, Low Temperature Reaction, Matrix Isolation, Jul. 30, 1999, Nagoya, Japan-

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