Our goal is to understand diverse biological phenomena from physical aspect at molecular level. For the purpose, we are using theoretical and molecular simulation approaches.


Open PostDoc positions


CafeMol ver 3.0 release


We finally release CafeMol version 3.0

CafeMol ver 2.0 release


We finally release CafeMol version 2.0

CafeMol ver 1.0 release


We finally release CafeMol version 1.0. CafeMol is the coarse-grained biomolecular simulation software that we have been developing.

CafeMol beta release


We are glad to announce the release of CafeMol beta version. CafeMol is the coarse-grained biomolecular simulation software that we have been developing.

HP renewal


We renewed lab homepage.

Lab move


Takada Lab moved from Kobe Univ to Kyoto Univ.


p53 Genetic dynamics

Chromatin and gene expression regulation

Regulation of gene expression is the heart of molecular biology. Transcription in eukaryotes is largely regulated by chromatin structure change via various epigenetic mechanisms. To reveal molecular mechanisms of these systems, we investigate structural dynamics of nucleosomes, chromatin, and transcription-related molecules.

F1-ATPase myosin-V Molecular motor

Free-energy transducer

Biomolecular motor transduces chemical energy supplied by ATP hydrolysis to mechanical work. It works solely by a single set of nano-scale molecules and its transduction efficiency is amazingly high. We are conducting simulation-based study to clarify its working principles.

folding funnelProtein folding

Proteins, born in a random-coil structure, can spontaneously fold to their native structures. We study physical chemistry of protein folding mechanisms.

Structure change and function


Conformational change of proteins upon binding to their partners is a fundamental for virtually all biological phenomena. We study its mechanisms via molecular simulations.

Multiscale-modeling of biomolecular systems

Other interested theme

Protein in vivo
Lipid membrane dynamics
Simulation methodology
Systems biology