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Takahiro Watanabe-Nakayama

Publications and source records attributed to Takahiro Watanabe-Nakayama.

2 recordsLinked to original sources

UMEX Viewer - Software Suite for High-Speed AFM Data Analysis and Its Applications

Recent technical advances in atomic force microscopy (AFM) have led to the development of high-speed AFM (HS-AFM), which enables video-rate imaging and direct visualization of the nanoscale dynamics of biomolecules functioning in solution. Because HS-AFM rapidly generates large datasets, dedicated software is essential for efficient processing, organization, and analysis. Recent improvements in imaging speed have further increased data throughput, underscoring the need for faster analysis software with improved usability. To address this need, we developed Ultrafast Microscopy Exploration (UMEX) Viewer, a software suite for HS-AFM data analysis. UMEX Viewer provides an integrated environment for HS-AFM data handling, including image processing, drift correction, image and movie export, data management, and quantitative analysis. These capabilities have enabled the software to be applied to a wide range of recent studies. In this article, we describe the core functions of UMEX Viewer and demonstrate its practical applications for HS-AFM data analysis aimed at elucidating biological functions.

physics.app-ph↗

Nonequilibrium energetics of a single F1-ATPase molecule

Molecular motors drive mechanical motions utilizing the free energy liberated from chemical reactions such as ATP hydrolysis. Although it is essential to know the efficiency of this free energy transduction, it has been a challenge due to the system's microscopic scale. Here, we evaluate the single-molecule energetics of a rotary molecular motor, F1-ATPase, by applying a recently derived nonequilibrium equality together with an electrorotation method. We show that the sum of the heat flow through the probe's rotational degree of freedom and the work against external load is almost equal to the free energy change per a single ATP hydrolysis under various conditions. This implies that F1-ATPase works at an efficiency of nearly 100% in a thermally fluctuating environment.

cond-mat.stat-mech↗