Postdoctoral Researcher Daisuke Matsuoka


2011 Ph. D. (Sceince) Keio University, Japan
2008 M. Sc. (Physics) Keio University, Japan
2006 B. Sc. (Physics) Keio University, Japan


2016.2 – present Postdoctral Researcher, RIKEN Theoretical Molecular Science Laboratory, Japan
2011.4-2016.2 Postdoctoral Researcher, ERATO Murata Lipid Active Structure Project (Osaka University), Japan


The Biophysical Society of Japan, Protein Science Society of Japan, The Physical Society of Japan, The Molecular Simulation Society of Japan


  1. Molecular dynamics simulations of transmembrane peptide dimer
  2. Protein Hydration Structure Anlaysis
  3. Molecular dynamics simulations of fatty acid-binding proteins


  1. Role of the N-Terminal Transmembrane Helix Contacts in the Activation of FGFR3.
    D. Matsuoka, Motoshi Kamiya, Takeshi Sato, Yuji Sugita*
    J. Comput. Chem., DOI: 10.1002/jcc.26122 (2019).

  2. Molecular Dynamics Simulations of Heart-Type Fatty Acid-Binding Protein in Apo and Holo Forms, and Hydration Structure Analyses in the Binding Cavity.
    D. Matsuoka, S. Sugiyama, M. Murata*, S. Matsuoka*
    J. Phys. Chem. B, 119, 114-127 (2015).
  3. Water-mediated recognition of simple alkyl chains by heart-type fatty acid-binding protein.
    S. Matsuoka, S. Sugiyama, D. Matsuoka, M. Hirose, S. Lethu, H. Ano, T. Hara, O. Ichihara, S. Roy Kimura, S. Murakami, H. Ishida, E. Mizohata, T. Inoue, M. Murata*
    Angew. Chem. Int. Ed., 54, 1508-1511 (2015).
  4. Structure of the human-heart fatty-acid-binding protein 3 in complex with the fluorescent probe 1-anilinonaphthalene-8-suphonic acid.
    M. Hirose, S. Sugiyama*, H. Ishida, M. Niiyama, D. Matsuoka, T. Hara, E. Mizohata, S. Murakami, T. Inoue, S. Matsuoka, M. Murata
    J. Synchrotron Rad., 20, 923-928 (2013).
  5. Application of empirical hydration distribution functions around polar atoms for assessing hydration structures of proteins.
    D. Matsuoka, M. Nakasako*
    Chemical Physics, 419, 59-64 (2013).
  6. Prediction of Hydration Structures around Hydrophilic Surfaces of Proteins by using the Empirical Hydration Distribution Functions from a Database Analysis.
    D. Matsuoka, M. Nakasako*
    Journal of Physical Chemistry B, 114, 4652-4663 (2010).
  7. Probability distributions of hydration water molecules around polar protein atoms obtained by a database analysis.
    D. Matsuoka, M. Nakasako*
    Journal of Physical Chemistry B, 113, 11274-11292 (2009).