Mass spectrometry-based protein footprinting for higher-order structure analysis: fundamentals and applications

XR Liu, MM Zhang, ML Gross - Chemical reviews, 2020 - ACS Publications
Proteins adopt different higher-order structures (HOS) to enable their unique biological
functions. Understanding the complexities of protein higher-order structures and dynamics …

Theory of protein folding: the energy landscape perspective

JN Onuchic, Z Luthey-Schulten… - Annual review of …, 1997 - annualreviews.org
▪ Abstract The energy landscape theory of protein folding is a statistical description of a
protein's potential surface. It assumes that folding occurs through organizing an ensemble of …

Insights from molecular dynamics simulations for computational protein design

MC Childers, V Daggett - Molecular systems design & engineering, 2017 - pubs.rsc.org
A grand challenge in the field of structural biology is to design and engineer proteins that
exhibit targeted functions. Although much success on this front has been achieved, design …

Probing protein folding and conformational transitions with fluorescence

CA Royer - Chemical reviews, 2006 - ACS Publications
Fluorescence arguably constitutes the most widely used experimental approach in the field
of protein folding. Hence, any review of the use of fluorescence to probe protein stability and …

Pathways to a protein folding intermediate observed in a 1-microsecond simulation in aqueous solution

Y Duan, PA Kollman - Science, 1998 - science.org
An implementation of classical molecular dynamics on parallel computers of increased
efficiency has enabled a simulation of protein folding with explicit representation of water for …

Protein folding: a perspective from theory and experiment

CM Dobson, A Šali, M Karplus - … Chemie International Edition, 1998 - Wiley Online Library
The mechanism of protein folding (represented schematically below) is one of the most
fascinating problems in the field of chemical reactions. This review presents the progess …

Folding funnels, binding funnels, and protein function

CJ Tsai, S Kumar, B Ma, R Nussinov - Protein Science, 1999 - cambridge.org
Folding funnels have been the focus of considerable attention during the last few years.
These have mostly been discussed in the general context of the theory of protein folding …

Microdroplet fusion mass spectrometry for fast reaction kinetics

JK Lee, S Kim, HG Nam… - Proceedings of the …, 2015 - National Acad Sciences
We investigated the fusion of high-speed liquid droplets as a way to record the kinetics of
liquid-phase chemical reactions on the order of microseconds. Two streams of micrometer …

Protein fluorescence

JR Lakowicz, JR Lakowicz - Principles of fluorescence spectroscopy, 1999 - Springer
Discussions of biochemical fluorescence frequently start with the subject of protein
fluorescence. This is because, among biopolymers, proteins are unique in displaying useful …

Single-molecule fluorescence studies of protein folding and conformational dynamics

X Michalet, S Weiss, M Jäger - Chemical reviews, 2006 - ACS Publications
Single-molecule measurements provide unique information on heterogeneous populations
of molecules: They give access to the complete distribution of observables (rather than only …