News archive
- Sep 03-08, 2017.
- Yamato was invited to give a talk at “Deciphering complex energy landscape and kinetic energy network from single molecules to cells” Dijon, France. (http://dijoncomplexdyn.sciencesconf.org)
- Jul 31-Aug 05, 2017.
- Yamato was invited to give a talk at The Telluride Science Research Center Workshop – Protein Dynamics –, Telluride, CO. USA.
- Jul 01, 2017.
- CONGRATURATIONS! Dr. Yamada moved to Kyoto University as a postdoctral researcher (Kinoshita Lab. Grad. Schl. Energy Sci.).
- Jun 08, 2017. WELCOME!
- Prof. Hirata (Toyota Physical and Chemical Res. Inst.) delivered an IGER lecture entitled “Matter is given “life” by water”, Nagoya Univ., Japan.
- Feb 14-Mar 30, 2017.
- WELCOME! Prof. John Straub (Boston Univ.) visited us.
- Jan 31, 2017. CONGRATURATIONS!
- Tatsuya Yamada gave an awesome doctoral defence.
- Jan 16 and 23, 2017.
- Yamato gave a series of lecture at Nagoya City University.
- Nov 16, 2016.
- PRESS RELEASE. (http://www.nagoya-u.ac.jp/about-nu/public-relations/researchinfo/upload_images/20161116_sci.pdf)
- Nov 15, 2016.
- Our paper “Forced unfolding mechanism of bacteriorhodopsin as revealed by coarse-grained molecular dynamics” by T. Yamada, T. Yamato, S. Mitaku, was published online (Biophysical Journal, 111(10): 2086-2098, (2016)).
- Nov 09, 2016.
- Prof. Senet (CNRS-Université de Bourgogne) is visiting us and staying for a week. The schedule of his talk will be announced soon.
- Oct 06, 2016.
- Prof. Leitner (Univ. Nevada, Reno) is giving a talk from 16:00 to 17:30 at Room# 506, Science Hall, Nagoya Univ. He plans to spned a week in my lab. (for detail please refer to the following URL, http://iger.bio.nagoya-u.ac.jp/iger_news_k_j.php?news_id=626)
- Sep 27, 2016.
- Our paper entitled “Forced unfolding mechanism of bacteriorhodopsin as revealed by coarse-grained molecular dynamics” by T. Yamada, T. Yamato, S. Mitaku, was accepted for publication in Biophysical Journal.
- Aug 06, 2016.
- We organized International Conference “Free Energy Landscape of Protein Folding and Dynamics by Simulations based on Enhanced Conformational Sampling Algorithms” at Noyori Conference Hall, Nagoya University, Japan. T.Yamato gave a talk entitled “Ligand migration in myoglobin: A combined study of computer simulation and X-ray crystallography”. We celebrated Prof. Yuko Okamoto’s 60th birthday.
- Mar 1–2, 2016.
- Yamato gave a talk entitled “Coarsed-grained simulation of forced unfolding of bacteriorhodopsin” at IPR Seminar “Unresolved Problems in Structure-Based Protein Science”, Univ. Tokyo., Japan.
- Jan 21 and 25, 2016.
- Yamato delivered a series of lectures at Graduate School of Pharmaceutical Sciences, Nagoya City Univ.
- Dec. 18-22, 2015.
- Yamato gave a talk entitled “Energy exchange network model of proteins”, Pacifichem2015 “Conformational dynamics of biomolecules and the biomolecule-solvent interface”, Honolulu, Hawaii, USA.
- Aug. 03-07, 2015.
- Yamato organized -Protein Dynamics- Telluride Science Research Workshop, Telluride, CO, USA, and gave a talk entitled “Energy exchange network model of inter-residue interactions in protein”, there.
- Jul 16, 2015.
- Ryuma Sato, Hirotaka Kitoh-Nishioka, Koji Ando, Takahisa 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) was published.
- Jul 01, 2015.
- Dr. Hiroshi C. Watanabe was promoted to Assistant Professor, Research Center for Advanced Science and Technology, University of Tokyo.
- Jul 01, 2015.
- Dr. Ryuma Sato moved to Tsukuba University as a postdoctral fellow.
- Jun 19, 2015.
- Mr. Ryuma Sato received a Doctor of Science degree.
- Jun 09, 2015.
- Takakazu Ishikura, Yuki Iwata, Tatsuro Hatano, Takahisa Yamato, “Energy exchange network of inter-residue interactions within a thermally fluctuating protein molecule: A computational study” was accepted for publication in J. Comput. Chem.
- Apr 10, 2015.
- Takahisa Yamato was awarded a grants-in-aid for international exchange from Diko foundation.
- Jul 16, 2015.
- Ryuma Sato, Hirotaka Kitoh-Nishioka, Koji Ando, Takahisa 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) was published.
- Jul 01, 2015.
- Dr. Hiroshi C. Watanabe was promoted to Assistant Professor, Research Center for Advanced Science and Technology, University of Tokyo.
- Jul 01, 2015.
- Dr. Ryuma Sato moved to Tsukuba University as a postdoctral fellow.
- Jun 19, 2015.
- Mr. Ryuma Sato received a Doctor of Science degree.
- Jun 09, 2015.
- Takakazu Ishikura, Yuki Iwata, Tatsuro Hatano, Takahisa Yamato, “Energy exchange network of inter-residue interactions within a thermally fluctuating protein molecule: A computational study” was accepted for publication in J. Comput. Chem.
- Apr 10, 2015.
- Takahisa Yamato was awarded a grants-in-aid for international exchange from Diko foundation.
- Dec 09, 2014.
- T.Y. has been appointed as an Editorial Board Member for Nature, Scientific Reports .
- Dec 05, 2014.
- T.Y. delivered gave a lecture at the Center for Computational Sciences, Nagoya University.
- Dec. 01-03, 2014.
- We held International Symposium on Computics: Quantum Simulation and Design (ISC-QSD2014), 1-3 December, 2014, Tokyo, Jpn.
- Nov. 7, 2014.
- Professor Shigeki MITAKU (Toyota Physical & Chemical Research Institute) visited us.
- Sep. 25-27, 2014.
- We attended at the 52nd Annual Meeting of the Biophysical Society of Japan, Sapporo, Jpn.
- May 29, 2014.
- Dr. Hiroshi WATANABE (Tokyo Institute of Technology) visited us and presented a seminar.
- Mar. 31, 2014.
- T.Y. gave a talk at the International Workshop on Computational Biomolecular Science, Ontake, Jpn.
- Nov. 8, 2013.
- We welcome Prof. Koji ANDO (Kyoto University) as a visiting faculty member on 11/21-22, and 12/19-20.
- Nov. 7, 2013.
- We plan to present a poster by Ryuma SATO, Tsutomu KAWATSU, Kei YURA, Koji ANDO and T.Y. at the 58th meeting of Biophysical Society, San Francisco, CA, Feb. 15-19, 2014.
- Nov. 6, 2013.
- T.Y. plans to give a talk entitled “Molecular mechnism of allosteric communication in proteins: Computational analysis of energy flow” at “Large-scale molecular simulations in biology, chemistry, and physics”, Satellite meeting of ICMS2013, Nagoya, Nov. 16, 2013.
- Nov. 5, 2013.
- T.Y. plans to deliver a series of lecture at the Graduate School of Phermaceutical Sciences, Nagoya City University on 12/2 and 12/9.
- Oct. 30, 2013.
- Mr. Ryuma SATO gave a poster presentation entitled “Theoretial study of DNA repair mechanism of blue light photoreceptors by ab initio electronic structure calculation” at the 51st Biophysical Society of JAPAN, Kyoto, Oct. 28-30.
- Aug. 25, 2013.
- “Combinatorial approach of molecular dynamics simulations and database analysis for the studies of protein structure and function” by T.Y. and Kei YURA, was published as a review article in special issue on “The structure-function relationships of proteins revisited”, SEIKAGAKU (The Japanese Biochemical Society Journal), 85 (8) pp. 646-655, 2013.
- Aug. 9, 2013.
- T.Y. gave a talk at Protein dynamics, Telluride research science workshop, Telluride, CO, Aug. 5-9, 2013.
- Jun. 29, 2013.
- T.Y. gave a talk at Thermal transport at the nanoscale, Telluride research science workshop, Telluride, CO, Jun. 25-29, 2013.
- Jan. 20, 2013.
- T.Y. published a textbook chapter “6. Quantum mechanical calculations of the active site” in “Genome computing -toward genome reality beyond bioinformatics, Computational Science and Engineering series vol. 7”, pp. 145-171, Kyoritsu Shuppan Co., Tokyo (2013).
- May. 1, 2012.
- “Atomic stress tensor analysis of proteins”, by Takakazu ISHIKURA, Tatsuro HATANOo, and T.Y., was accepted for publication in Chemical Physics Letters. (2012) 539-540: pp. 144-150.
- Apl. 3, 2012.
- “Ligand migration in myoglobin: A combined study of computer simulation and x-ray crystallography”, by Takayuki TSUDUKI, Ayana TOMITA, Shin-ya KOSHIHARA, Shin-ichi ADACHI, and T.Y., was accepted for publication in Journal of Chemical Physics. (2012) 136(16) 165101 (9 pages)link
- Mar. 2012.
- Congraturations! Ryuma SATO won the Dean’s Award for Academic Excellence, 2011. photo
- Feb. 16, 2012
- T.Y. was invited at the 1st International Synposium, Frontiers of Computer Simulation for Molecules in Organisms – From water to small molecules, proteins and membranes – Center for Simulation Sciences, Ochanomizu University, Tokyo, Japan. The title of his talk was “Exploring Protein Function using Computational Biophysics.”