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 …

How do small single-domain proteins fold?

SE Jackson - Folding and Design, 1998 - cell.com
Many small, monomeric proteins fold with simple two-state kinetics and show wide variation
in folding rates, from microseconds to seconds. Thus, stable intermediates are not a …

Topological and energetic factors: what determines the structural details of the transition state ensemble and “en-route” intermediates for protein folding? An …

C Clementi, H Nymeyer, JN Onuchic - Journal of molecular biology, 2000 - Elsevier
Recent experimental results suggest that the native fold, or topology, plays a primary role in
determining the structure of the transition state ensemble, at least for small, fast-folding …

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 mediated by solvation: water expulsion and formation of the hydrophobic core occur after the structural collapse

MS Cheung, AE García… - Proceedings of the …, 2002 - National Acad Sciences
The interplay between structure-search of the native structure and desolvation in protein
folding has been explored using a minimalist model. These results support a folding …

Polymer principles and protein folding

KA Dill - Protein Science, 1999 - cambridge.org
This paper surveys the emerging role of statistical mechanics and polymer theory in protein
folding. In the polymer perspective, the folding code is more a solvation code than a code of …

The fundamentals of protein folding: bringing together theory and experiment

CM Dobson, M Karplus - Current opinion in structural biology, 1999 - Elsevier
Experimental and theoretical studies together are providing insights into the mechanism by
which proteins fold. Our present knowledge of the essential aspects of the folding reaction is …

Fast kinetics and mechanisms in protein folding

WA Eaton, V Muñoz, SJ Hagen, GS Jas… - Annual review of …, 2000 - annualreviews.org
▪ Abstract This review describes how kinetic experiments using techniques with dramatically
improved time resolution have contributed to understanding mechanisms in protein folding …

Folding at the speed limit

WY Yang, M Gruebele - Nature, 2003 - nature.com
Many small proteins seem to fold by a simple process explicable by conventional chemical
kinetics and transition-state theory. This assumes an instant equilibrium between reactants …

The Levinthal paradox: yesterday and today

M Karplus - Folding and design, 1997 - cell.com
A change in the perception of the protein folding problem has taken place recently. The
nature of the change is outlined and the reasons for it are presented. An essential element is …