A surprising simplicity to protein folding

D Baker - Nature, 2000 - nature.com
The polypeptide chains that make up proteins have thousands of atoms and hence millions
of possible inter-atomic interactions. It might be supposed that the resulting complexity …

Protein contact networks: an emerging paradigm in chemistry

L Di Paola, M De Ruvo, P Paci, D Santoni… - Chemical …, 2013 - ACS Publications
Topology is at the very heart of chemistry. This stems from the fact that chemical thought,
since its prescientific alchemic origins, focused on the mutual relations between different …

A simple model for calculating the kinetics of protein folding from three-dimensional structures

V Muñoz, WA Eaton - … of the National Academy of Sciences, 1999 - National Acad Sciences
An elementary statistical mechanical model was used to calculate the folding rates for 22
proteins from their known three-dimensional structures. In this model, residues come into …

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 …

Single-molecule protein folding: diffusion fluorescence resonance energy transfer studies of the denaturation of chymotrypsin inhibitor 2

AA Deniz, TA Laurence, GS Beligere… - Proceedings of the …, 2000 - National Acad Sciences
We report single-molecule folding studies of a small, single-domain protein, chymotrypsin
inhibitor 2 (CI2). CI2 is an excellent model system for protein folding studies and has been …

The middle way

RB Laughlin, D Pines, J Schmalian… - Proceedings of the …, 2000 - National Acad Sciences
Mesoscopic organization in soft, hard, and biological matter is examined in the context of our
present understanding of the principles responsible for emergent organized behavior …

Critical role of β-hairpin formation in protein G folding

EL McCallister, E Alm, D Baker - Nature structural biology, 2000 - nature.com
Abstract Comparison of the folding mechanisms of proteins with similar structures but very
different sequences can provide fundamental insights into the determinants of protein …

Ab initio protein structure prediction: progress and prospects

R Bonneau, D Baker - Annual review of biophysics and …, 2001 - annualreviews.org
▪ Abstract Considerable recent progress has been made in the field of ab initio protein
structure prediction, as witnessed by the third Critical Assessment of Structure Prediction …

Prediction of protein-folding mechanisms from free-energy landscapes derived from native structures

E Alm, D Baker - Proceedings of the National Academy of …, 1999 - National Acad Sciences
Guided by recent experimental results suggesting that protein-folding rates and mechanisms
are determined largely by native-state topology, we develop a simple model for protein …

Topology, stability, sequence, and length: defining the determinants of two-state protein folding kinetics

KW Plaxco, KT Simons, I Ruczinski, D Baker - Biochemistry, 2000 - ACS Publications
The fastest simple, single domain proteins fold a million times more rapidly than the slowest.
Ultimately this broad kinetic spectrum is determined by the amino acid sequences that …