Flexible Fitting of Biomolecular Structures to Atomic Force Microscopy Images via Biased Molecular Simulations

Flexible fitting of atomic structures into electron microscopy maps using molecular dynamics.

A novel method to flexibly fit atomic structures into electron microscopy (EM) maps using molecular dynamics simulations is presented. The simulations incorporate the EM data as an external potential added to the molecular dynamics force field, allowing all internal features present in the EM map to be used in the fitting process, while the model remains fully flexible and stereochemically corr...

Biomolecular interactions measured by atomic force microscopy.

Atomic force microscopy (AFM) is nowadays frequently applied to determine interaction forces between biological molecules. Starting with the detection of the first discrete unbinding forces between ligands and receptors by AFM only several years ago, measurements have become more and more quantitative. At the same time, theories have been developed to describe and understand the dynamics of the...

Atomistic Simulations of Atomic Force Microscopy

Multiparametric Atomic Force Microscopy Imaging of Biomolecular and Cellular Systems.

There is a need in biochemical research for new tools that can image and manipulate biomolecular and cellular systems at the nanoscale. During the past decades, there has been tremendous progress in developing atomic force microscopy (AFM) techniques to analyze biosystems, down to the single-molecule level. Force-distance (FD) curve-based AFM in particular has enabled researchers to map and qua...

Filming Biomolecular Processes by High-Speed Atomic Force Microscopy

Microscopy Toshio Ando,*,†,‡,§ Takayuki Uchihashi,†,‡,§ and Simon Scheuring †Department of Physics, and ‡Bio-AFM Frontier Research Center, Kanazawa University, Kakuma-machi, Kanazawa 920-1192, Japan CREST, Japan Science and Technology Agency, 4-1-8 Honcho, Kawaguchi 332-0012, Japan U1006 INSERM/Aix-Marseille Universite,́ Parc Scientifique et Technologique de Luminy Bat̂iment Inserm TPR2 bloc 5, 1...