Atomic force microscopy-based force spectroscopy and multiparametric imaging of biomolecular and cellular systems

DJ Müller, AC Dumitru, C Lo Giudice… - Chemical …, 2020 - ACS Publications
During the last three decades, a series of key technological improvements turned atomic
force microscopy (AFM) into a nanoscopic laboratory to directly observe and chemically …

Insights into protein–ligand interactions: mechanisms, models, and methods

X Du, Y Li, YL Xia, SM Ai, J Liang, P Sang… - International journal of …, 2016 - mdpi.com
Molecular recognition, which is the process of biological macromolecules interacting with
each other or various small molecules with a high specificity and affinity to form a specific …

Protein ensembles: how does nature harness thermodynamic fluctuations for life? The diverse functional roles of conformational ensembles in the cell

G Wei, W Xi, R Nussinov, B Ma - Chemical reviews, 2016 - ACS Publications
All soluble proteins populate conformational ensembles that together constitute the native
state. Their fluctuations in water are intrinsic thermodynamic phenomena, and the …

Force-dependent conformational switch of α-catenin controls vinculin binding

M Yao, W Qiu, R Liu, AK Efremov, P Cong… - Nature …, 2014 - nature.com
Force sensing at cadherin-mediated adhesions is critical for their proper function. α-Catenin,
which links cadherins to actomyosin, has a crucial role in this mechanosensing process. It …

The role of dynamic conformational ensembles in biomolecular recognition

DD Boehr, R Nussinov, PE Wright - Nature chemical biology, 2009 - nature.com
Molecular recognition is central to all biological processes. For the past 50 years,
Koshland's' induced fit'hypothesis has been the textbook explanation for molecular …

Induced fit, conformational selection and independent dynamic segments: an extended view of binding events

P Csermely, R Palotai, R Nussinov - Trends in biochemical sciences, 2010 - cell.com
Single molecule and NMR measurements of protein dynamics increasingly uncover the
complexity of binding scenarios. Here, we describe an extended conformational selection …

Single reconstituted neuronal SNARE complexes zipper in three distinct stages

Y Gao, S Zorman, G Gundersen, Z Xi, L Ma, G Sirinakis… - Science, 2012 - science.org
Soluble N-ethylmaleimide–sensitive factor attachment protein receptor (SNARE) proteins
drive membrane fusion by assembling into a four-helix bundle in a zippering process. Here …

Hidden dynamics in the unfolding of individual bacteriorhodopsin proteins

H Yu, MGW Siewny, DT Edwards, AW Sanders… - Science, 2017 - science.org
Protein folding occurs as a set of transitions between structural states within an energy
landscape. An oversimplified view of the folding process emerges when transiently …

Single-molecule dissection of stacking forces in DNA

F Kilchherr, C Wachauf, B Pelz, M Rief, M Zacharias… - Science, 2016 - science.org
INTRODUCTION In DNA double helices, hydrogen bonds connect the base pairs across the
two strands, and stacking bonds act along the helical axis between neighboring base pairs …

Force probing surfaces of living cells to molecular resolution

DJ Müller, J Helenius, D Alsteens… - Nature chemical biology, 2009 - nature.com
Biological processes rely on molecular interactions that can be directly measured using
force spectroscopy techniques. Here we review how atomic force microscopy can be applied …