Scanning probe microscopy

K Bian, C Gerber, AJ Heinrich, DJ Müller… - Nature Reviews …, 2021‏ - nature.com
Scanning probe microscopy (SPM), a key invention in nanoscience, has by now been
extended to a wide spectrum of basic and applied fields. Its application to basic science led …

Cellulosomes: bacterial nanomachines for dismantling plant polysaccharides

L Artzi, EA Bayer, S Moraïs - Nature Reviews Microbiology, 2017‏ - nature.com
Cellulosomes are multienzyme complexes that are produced by anaerobic cellulolytic
bacteria for the degradation of lignocellulosic biomass. They comprise a complex of …

Molecular dynamics simulations of large macromolecular complexes

JR Perilla, BC Goh, CK Cassidy, B Liu… - Current opinion in …, 2015‏ - Elsevier
Connecting dynamics to structural data from diverse experimental sources, molecular
dynamics simulations permit the exploration of biological phenomena in unparalleled detail …

Rationally designed synthetic protein hydrogels with predictable mechanical properties

J Wu, P Li, C Dong, H Jiang, B Xue, X Gao… - Nature …, 2018‏ - nature.com
Designing synthetic protein hydrogels with tailored mechanical properties similar to naturally
occurring tissues is an eternal pursuit in tissue engineering and stem cell and cancer …

QwikMD—integrative molecular dynamics toolkit for novices and experts

JV Ribeiro, RC Bernardi, T Rudack, JE Stone… - Scientific reports, 2016‏ - nature.com
The proper functioning of biomolecules in living cells requires them to assume particular
structures and to undergo conformational changes. Both biomolecular structure and motion …

The role of single-protein elasticity in mechanobiology

AEM Beedle, S Garcia-Manyes - Nature Reviews Materials, 2023‏ - nature.com
In addition to biochemical signals and genetic considerations, mechanical forces are rapidly
emerging as a master regulator of human physiology. However, the molecular mechanisms …

Next generation methods for single-molecule force spectroscopy on polyproteins and receptor-ligand complexes

B Yang, Z Liu, H Liu, MA Nash - Frontiers in Molecular Biosciences, 2020‏ - frontiersin.org
Single-molecule force spectroscopy with the atomic force microscope provides molecular
level insights into protein function, allowing researchers to reconstruct energy landscapes …

The physics of pulling polyproteins: a review of single molecule force spectroscopy using the AFM to study protein unfolding

ML Hughes, L Dougan - Reports on Progress in Physics, 2016‏ - iopscience.iop.org
One of the most exciting developments in the field of biological physics in recent years is the
ability to manipulate single molecules and probe their properties and function. Since its …

Molecular mechanism of extreme mechanostability in a pathogen adhesin

LF Milles, K Schulten, HE Gaub, RC Bernardi - Science, 2018‏ - science.org
High resilience to mechanical stress is key when pathogens adhere to their target and
initiate infection. Using atomic force microscopy–based single-molecule force spectroscopy …

[HTML][HTML] PyContact: rapid, customizable, and visual analysis of noncovalent interactions in MD simulations

M Scheurer, P Rodenkirch, M Siggel, RC Bernardi… - Biophysical journal, 2018‏ - cell.com
Molecular dynamics (MD) simulations have become ubiquitous in all areas of life sciences.
The size and model complexity of MD simulations are rapidly growing along with increasing …