Welcome

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.


Announcement

Open PostDoc positions

News

CafeMol ver 3.0 release

2016/8/31

We finally release CafeMol version 3.0

CafeMol ver 2.0 release

2012/5/31

We finally release CafeMol version 2.0

CafeMol ver 1.0 release

2010/12/27

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

CafeMol beta release

2009/8/10

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

2008/5/10

We renewed lab homepage.

Lab move

2007/4/1

Takada Lab moved from Kobe Univ to Kyoto Univ.

Research

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

Allostery

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
Bioinformatics