The protein folding 'speed limit'.

The protein folding problem. Annu Rev Biophys (2008) 4.43

Protein folding studied by single-molecule FRET. Curr Opin Struct Biol (2008) 4.33

Release of long-range tertiary interactions potentiates aggregation of natively unstructured alpha-synuclein. Proc Natl Acad Sci U S A (2005) 3.48

Fundamental aspects of protein-protein association kinetics. Chem Rev (2009) 3.43

Molecular simulation of ab initio protein folding for a millisecond folder NTL9(1-39). J Am Chem Soc (2010) 3.18

Optimized molecular dynamics force fields applied to the helix-coil transition of polypeptides. J Phys Chem B (2009) 3.17

Single-molecule fluorescence studies of protein folding and conformational dynamics. Chem Rev (2006) 3.08

Single reconstituted neuronal SNARE complexes zipper in three distinct stages. Science (2012) 2.98

Ab initio simulations of protein-folding pathways by molecular dynamics with the united-residue model of polypeptide chains. Proc Natl Acad Sci U S A (2005) 2.85

Ultrafast dynamics of protein collapse from single-molecule photon statistics. Proc Natl Acad Sci U S A (2007) 2.76

A natively unfolded yeast prion monomer adopts an ensemble of collapsed and rapidly fluctuating structures. Proc Natl Acad Sci U S A (2007) 2.62

An experimental survey of the transition between two-state and downhill protein folding scenarios. Proc Natl Acad Sci U S A (2008) 2.57

High-resolution x-ray crystal structures of the villin headpiece subdomain, an ultrafast folding protein. Proc Natl Acad Sci U S A (2005) 2.37

Experimental determination of upper bound for transition path times in protein folding from single-molecule photon-by-photon trajectories. Proc Natl Acad Sci U S A (2009) 2.29

Transient non-native hydrogen bonds promote activation of a signaling protein. Cell (2009) 2.12

Single-molecule fluorescence experiments determine protein folding transition path times. Science (2012) 2.00

Common structural transitions in explicit-solvent simulations of villin headpiece folding. Biophys J (2009) 1.96

Atomistic folding simulations of the five-helix bundle protein λ(6−85). J Am Chem Soc (2011) 1.94

Chemical, physical, and theoretical kinetics of an ultrafast folding protein. Proc Natl Acad Sci U S A (2008) 1.90

SNARE proteins: one to fuse and three to keep the nascent fusion pore open. Science (2012) 1.89

A microscopic view of miniprotein folding: enhanced folding efficiency through formation of an intermediate. Proc Natl Acad Sci U S A (2005) 1.82

Coordinate-dependent diffusion in protein folding. Proc Natl Acad Sci U S A (2009) 1.73

Protein folding by zipping and assembly. Proc Natl Acad Sci U S A (2007) 1.72

Molecular dynamics with the united-residue model of polypeptide chains. I. Lagrange equations of motion and tests of numerical stability in the microcanonical mode. J Phys Chem B (2005) 1.71

Molecular dynamics with the united-residue model of polypeptide chains. II. Langevin and Berendsen-bath dynamics and tests on model alpha-helical systems. J Phys Chem B (2005) 1.69

The kinetics of conformational fluctuations in an unfolded protein measured by fluorescence methods. Proc Natl Acad Sci U S A (2005) 1.67

Force field bias in protein folding simulations. Biophys J (2009) 1.67

Atomic-level description of ubiquitin folding. Proc Natl Acad Sci U S A (2013) 1.65

Quantifying internal friction in unfolded and intrinsically disordered proteins with single-molecule spectroscopy. Proc Natl Acad Sci U S A (2012) 1.64

Conformational changes during the nanosecond-to-millisecond unfolding of ubiquitin. Proc Natl Acad Sci U S A (2005) 1.61

Simulation protocols for coherent femtosecond vibrational spectra of peptides. J Phys Chem B (2006) 1.58

Mechanical control of the directional stepping dynamics of the kinesin motor. Proc Natl Acad Sci U S A (2007) 1.54

Dynamics of one-state downhill protein folding. Proc Natl Acad Sci U S A (2008) 1.52

Early events in protein folding explored by rapid mixing methods. Chem Rev (2006) 1.50

Kinetics are probe-dependent during downhill folding of an engineered lambda6-85 protein. Proc Natl Acad Sci U S A (2005) 1.49

Phosphorylation-induced structural changes in smooth muscle myosin regulatory light chain. Proc Natl Acad Sci U S A (2010) 1.48

Origins of barriers and barrierless folding in BBL. Proc Natl Acad Sci U S A (2008) 1.47

Tackling force-field bias in protein folding simulations: folding of Villin HP35 and Pin WW domains in explicit water. Biophys J (2010) 1.47

Protein folding kinetics and thermodynamics from atomistic simulation. Proc Natl Acad Sci U S A (2012) 1.46

Two-dimensional spectroscopy at infrared and optical frequencies. Proc Natl Acad Sci U S A (2007) 1.44

An expanding arsenal of experimental methods yields an explosion of insights into protein folding mechanisms. Nat Struct Mol Biol (2009) 1.43

Exploring one-state downhill protein folding in single molecules. Proc Natl Acad Sci U S A (2011) 1.42

Direct observation of ultrafast folding and denatured state dynamics in single protein molecules. Proc Natl Acad Sci U S A (2009) 1.39

Theoretical and experimental demonstration of the importance of specific nonnative interactions in protein folding. Proc Natl Acad Sci U S A (2008) 1.38

Multidimensional separations of ubiquitin conformers in the gas phase: relating ion cross sections to H/D exchange measurements. J Am Soc Mass Spectrom (2005) 1.37

Distinguishing between cooperative and unimodal downhill protein folding. Proc Natl Acad Sci U S A (2007) 1.35

The proteasome antechamber maintains substrates in an unfolded state. Nature (2010) 1.34

The Trp-cage: optimizing the stability of a globular miniprotein. Protein Eng Des Sel (2008) 1.29

Protein folding kinetics: barrier effects in chemical and thermal denaturation experiments. J Am Chem Soc (2007) 1.29

Extremely slow intramolecular diffusion in unfolded protein L. Proc Natl Acad Sci U S A (2010) 1.28

Local and long-range stability in tandemly arrayed tetratricopeptide repeats. Proc Natl Acad Sci U S A (2005) 1.28

Protein stability and folding kinetics in the nucleus and endoplasmic reticulum of eucaryotic cells. Biophys J (2011) 1.27

Ligand-induced global transitions in the catalytic domain of protein kinase A. Proc Natl Acad Sci U S A (2009) 1.25

Dissecting coherent vibrational spectra of small proteins into secondary structural elements by sensitivity analysis. Proc Natl Acad Sci U S A (2005) 1.25

Kinetic definition of protein folding transition state ensembles and reaction coordinates. Biophys J (2006) 1.25

Energy landscape analysis of native folding of the prion protein yields the diffusion constant, transition path time, and rates. Proc Natl Acad Sci U S A (2012) 1.24

The rough energy landscape of superfolder GFP is linked to the chromophore. J Mol Biol (2007) 1.23

Protein dynamics viewed by hydrogen exchange. Protein Sci (2012) 1.22

Exploring protein-folding ensembles: a variable-barrier model for the analysis of equilibrium unfolding experiments. Proc Natl Acad Sci U S A (2004) 1.21

Sensitivity of the folding/unfolding transition state ensemble of chymotrypsin inhibitor 2 to changes in temperature and solvent. Protein Sci (2005) 1.21

Mutations as trapdoors to two competing native conformations of the Rop-dimer. Proc Natl Acad Sci U S A (2007) 1.20

Diffusive reaction dynamics on invariant free energy profiles. Proc Natl Acad Sci U S A (2008) 1.19

Investigation of protein folding by coarse-grained molecular dynamics with the UNRES force field. J Phys Chem A (2010) 1.19

2D-IR experiments and simulations of the coupling between amide-I and ionizable side chains in proteins: application to the Villin headpiece. J Phys Chem B (2009) 1.17

Free-energy landscape of the GB1 hairpin in all-atom explicit solvent simulations with different force fields: Similarities and differences. Proteins (2011) 1.16

Solvent-tuning the collapse and helix formation time scales of lambda(6-85)*. Protein Sci (2006) 1.16

Single-molecule fluorescence probes dynamics of barrier crossing. Nature (2013) 1.15

Folding, misfolding, and amyloid protofibril formation of WW domain FBP28. Biophys J (2006) 1.13

Dynamics, energetics, and structure in protein folding. Biochemistry (2006) 1.13

Biomolecular dynamics: order-disorder transitions and energy landscapes. Rep Prog Phys (2012) 1.12

Protein hydrophobic collapse and early folding steps observed in a microfluidic mixer. Biophys J (2007) 1.11

Capillarity theory for the fly-casting mechanism. Proc Natl Acad Sci U S A (2010) 1.11

Contribution of the intrinsic disulfide to the assembly mechanism of islet amyloid. Protein Sci (2004) 1.09

Alpha-synuclein tertiary contact dynamics. J Phys Chem B (2007) 1.09

Identification of the minimal protein-folding nucleus through loop-entropy perturbations. Proc Natl Acad Sci U S A (2006) 1.09

Dominant folding pathways of a WW domain. Proc Natl Acad Sci U S A (2012) 1.07

Dehydration-driven solvent exposure of hydrophobic surfaces as a driving force in peptide folding. Proc Natl Acad Sci U S A (2007) 1.07

Hairpin folding rates reflect mutations within and remote from the turn region. Proc Natl Acad Sci U S A (2005) 1.07

Connecting the kinetics and energy landscape of tRNA translocation on the ribosome. PLoS Comput Biol (2013) 1.07

Excluded volume, local structural cooperativity, and the polymer physics of protein folding rates. Proc Natl Acad Sci U S A (2007) 1.06

A survey of lambda repressor fragments from two-state to downhill folding. J Mol Biol (2010) 1.06

Observation of noncooperative folding thermodynamics in simulations of 1BBL. Biophys J (2008) 1.04

Self-assembly of a simple membrane protein: coarse-grained molecular dynamics simulations of the influenza M2 channel. Biophys J (2008) 1.03

Highly anisotropic stability and folding kinetics of a single coiled coil protein under mechanical tension. J Am Chem Soc (2011) 1.03

Microscopic events in β-hairpin folding from alternative unfolded ensembles. Proc Natl Acad Sci U S A (2011) 1.03

Two-dimensional vibrational optical probes for peptide fast folding investigation. Proc Natl Acad Sci U S A (2006) 1.03

Minireview: structural insights into early folding events using continuous-flow time-resolved small-angle X-ray scattering. Biopolymers (2011) 1.03

Investigating how peptide length and a pathogenic mutation modify the structural ensemble of amyloid beta monomer. Biophys J (2012) 1.02

The capillarity picture and the kinetics of one-dimensional protein folding. Proc Natl Acad Sci U S A (2008) 1.02

Kinetics of chain motions within a protein-folding intermediate. Proc Natl Acad Sci U S A (2010) 1.01

Making connections between ultrafast protein folding kinetics and molecular dynamics simulations. Proc Natl Acad Sci U S A (2011) 1.00

Barrier-limited, microsecond folding of a stable protein measured with hydrogen exchange: Implications for downhill folding. Proc Natl Acad Sci U S A (2004) 1.00

Variations in the fast folding rates of the lambda-repressor: a hybrid molecular dynamics study. Biophys J (2004) 0.99

Fibrillation precursor of superoxide dismutase 1 revealed by gradual tuning of the protein-folding equilibrium. Proc Natl Acad Sci U S A (2012) 0.98

How kinetics within the unfolded state affects protein folding: an analysis based on markov state models and an ultra-long MD trajectory. J Phys Chem B (2013) 0.98

Single-molecule observation of helix staggering, sliding, and coiled coil misfolding. Proc Natl Acad Sci U S A (2012) 0.98

Ligand-driven vectorial folding of ribosome-bound human CFTR NBD1. Mol Cell (2011) 0.97

Force-field dependence of chignolin folding and misfolding: comparison with experiment and redesign. Biophys J (2012) 0.97

Direct quantification of the attempt frequency determining the mechanical unfolding of ubiquitin protein. J Biol Chem (2011) 0.96

Reaching the protein folding speed limit with large, sub-microsecond pressure jumps. Nat Methods (2009) 0.96

Probing the free-energy surface for protein folding with single-molecule fluorescence spectroscopy. Nature (2002) 6.92

Protein folding studied by single-molecule FRET. Curr Opin Struct Biol (2008) 4.33

Experimental tests of villin subdomain folding simulations. J Mol Biol (2003) 3.08

Single-molecule measurement of protein folding kinetics. Science (2003) 3.08

Polyproline and the "spectroscopic ruler" revisited with single-molecule fluorescence. Proc Natl Acad Sci U S A (2005) 3.01

Sub-microsecond protein folding. J Mol Biol (2006) 2.72

Characterizing the unfolded states of proteins using single-molecule FRET spectroscopy and molecular simulations. Proc Natl Acad Sci U S A (2007) 2.65

High-resolution x-ray crystal structures of the villin headpiece subdomain, an ultrafast folding protein. Proc Natl Acad Sci U S A (2005) 2.37

Experimental determination of upper bound for transition path times in protein folding from single-molecule photon-by-photon trajectories. Proc Natl Acad Sci U S A (2009) 2.29

Single-molecule fluorescence experiments determine protein folding transition path times. Science (2012) 2.00

Chemical, physical, and theoretical kinetics of an ultrafast folding protein. Proc Natl Acad Sci U S A (2008) 1.90

Effect of flexibility and cis residues in single-molecule FRET studies of polyproline. Proc Natl Acad Sci U S A (2007) 1.81

Measuring internal friction of an ultrafast-folding protein. Proc Natl Acad Sci U S A (2008) 1.69

Determination of ultrafast protein folding rates from loop formation dynamics. J Mol Biol (2005) 1.42

Effects of denaturants on the dynamics of loop formation in polypeptides. Biophys J (2006) 1.39

Estimating free-energy barrier heights for an ultrafast folding protein from calorimetric and kinetic data. J Phys Chem B (2008) 1.34

Native contacts determine protein folding mechanisms in atomistic simulations. Proc Natl Acad Sci U S A (2013) 1.33

Understanding the shape of sickled red cells. Biophys J (2004) 1.32

Evolution of allosteric models for hemoglobin. IUBMB Life (2007) 1.27

Relaxation rate for an ultrafast folding protein is independent of chemical denaturant concentration. J Am Chem Soc (2007) 1.25

Kinetics of intramolecular contact formation in a denatured protein. J Mol Biol (2003) 1.22

Solution structure of the ESCRT-I complex by small-angle X-ray scattering, EPR, and FRET spectroscopy. Proc Natl Acad Sci U S A (2011) 1.22

Extracting rate coefficients from single-molecule photon trajectories and FRET efficiency histograms for a fast-folding protein. J Phys Chem A (2010) 1.20

A tertiary two-state allosteric model for hemoglobin. Biophys Chem (2002) 1.18

Single-molecule fluorescence probes dynamics of barrier crossing. Nature (2013) 1.15

Distinguishing between protein dynamics and dye photophysics in single-molecule FRET experiments. Biophys J (2010) 1.15

Folding and aggregation kinetics of a beta-hairpin. Biochemistry (2006) 1.14

New insights into allosteric mechanisms from trapping unstable protein conformations in silica gels. Proc Natl Acad Sci U S A (2004) 1.11

Measuring dynamic flexibility of the coil state of a helix-forming peptide. J Mol Biol (2002) 1.11

Solution structure of the ESCRT-I and -II supercomplex: implications for membrane budding and scission. Structure (2012) 1.06

Evidence for a partially structured state of the amylin monomer. Biophys J (2009) 1.04

Making connections between ultrafast protein folding kinetics and molecular dynamics simulations. Proc Natl Acad Sci U S A (2011) 1.00

Sedimentation studies on human amylin fail to detect low-molecular-weight oligomers. Biophys J (2008) 1.00

Chemical physics of protein folding. Proc Natl Acad Sci U S A (2012) 0.98

Comparing a simple theoretical model for protein folding with all-atom molecular dynamics simulations. Proc Natl Acad Sci U S A (2013) 0.94

A tribute to Attila Szabo. J Phys Chem B (2008) 0.75

Tribute to Peter G. Wolynes. J Phys Chem B (2013) 0.75