PubRank

Peter G Wolynes

Author PubWeight™ 130.11‹?›

Top papers

Rank Title Journal Year PubWeight™‹?›
1 Theory of protein folding. Curr Opin Struct Biol 2004 7.64
2 Protein topology determines binding mechanism. Proc Natl Acad Sci U S A 2003 3.16
3 Stochastic gene expression as a many-body problem. Proc Natl Acad Sci U S A 2003 2.94
4 The experimental survey of protein-folding energy landscapes. Q Rev Biophys 2006 2.67
5 Water in protein structure prediction. Proc Natl Acad Sci U S A 2004 2.35
6 Theory of structural glasses and supercooled liquids. Annu Rev Phys Chem 2007 2.34
7 Localizing frustration in native proteins and protein assemblies. Proc Natl Acad Sci U S A 2007 2.33
8 Multiple-basin energy landscapes for large-amplitude conformational motions of proteins: Structure-based molecular dynamics simulations. Proc Natl Acad Sci U S A 2006 2.23
9 P versus Q: structural reaction coordinates capture protein folding on smooth landscapes. Proc Natl Acad Sci U S A 2006 2.01
10 A survey of flexible protein binding mechanisms and their transition states using native topology based energy landscapes. J Mol Biol 2005 1.99
11 Domain swapping is a consequence of minimal frustration. Proc Natl Acad Sci U S A 2004 1.93
12 Absolute rate theories of epigenetic stability. Proc Natl Acad Sci U S A 2005 1.89
13 Fly-casting in protein-DNA binding: frustration between protein folding and electrostatics facilitates target recognition. J Am Chem Soc 2007 1.85
14 Deciding fate in adverse times: sporulation and competence in Bacillus subtilis. Proc Natl Acad Sci U S A 2009 1.65
15 The energy landscape of modular repeat proteins: topology determines folding mechanism in the ankyrin family. J Mol Biol 2005 1.60
16 Consequences of localized frustration for the folding mechanism of the IM7 protein. Proc Natl Acad Sci U S A 2007 1.58
17 Simple energy landscape model for the kinetics of functional transitions in proteins. J Phys Chem B 2005 1.57
18 Role of water mediated interactions in protein-protein recognition landscapes. J Am Chem Soc 2003 1.56
19 Molecular level stochastic model for competence cycles in Bacillus subtilis. Proc Natl Acad Sci U S A 2007 1.54
20 Stabilizing IkappaBalpha by "consensus" design. J Mol Biol 2006 1.53
21 Microscopic theory of network glasses. Phys Rev Lett 2003 1.52
22 The physics and bioinformatics of binding and folding-an energy landscape perspective. Biopolymers 2003 1.52
23 Optimizing physical energy functions for protein folding. Proteins 2004 1.49
24 Self-consistent proteomic field theory of stochastic gene switches. Biophys J 2004 1.47
25 Origins of barriers and barrierless folding in BBL. Proc Natl Acad Sci U S A 2008 1.47
26 Symmetry and frustration in protein energy landscapes: a near degeneracy resolves the Rop dimer-folding mystery. Proc Natl Acad Sci U S A 2005 1.42
27 A funneled energy landscape for cytochrome c directly predicts the sequential folding route inferred from hydrogen exchange experiments. Proc Natl Acad Sci U S A 2005 1.42
28 Complex energy landscape of a giant repeat protein. Structure 2013 1.41
29 On the role of frustration in the energy landscapes of allosteric proteins. Proc Natl Acad Sci U S A 2011 1.39
30 Understanding stochastic simulations of the smallest genetic networks. J Chem Phys 2007 1.37
31 AWSEM-MD: protein structure prediction using coarse-grained physical potentials and bioinformatically based local structure biasing. J Phys Chem B 2012 1.35
32 Predictive energy landscapes for protein-protein association. Proc Natl Acad Sci U S A 2012 1.25
33 Folding funnels: the key to robust protein structure prediction. J Comput Chem 2002 1.25
34 The energy landscapes of repeat-containing proteins: topology, cooperativity, and the folding funnels of one-dimensional architectures. PLoS Comput Biol 2008 1.25
35 Mosaic energy landscapes of liquids and the control of protein conformational dynamics by glass-forming solvents. J Phys Chem B 2005 1.24
36 Protein frustratometer: a tool to localize energetic frustration in protein molecules. Nucleic Acids Res 2012 1.23
37 The folding and dimerization of HIV-1 protease: evidence for a stable monomer from simulations. J Mol Biol 2004 1.22
38 Electrostatic effects on funneled landscapes and structural diversity in denatured protein ensembles. Proc Natl Acad Sci U S A 2009 1.19
39 Abduction and asylum in the lives of transcription factors. Proc Natl Acad Sci U S A 2010 1.19
40 Frustration, specific sequence dependence, and nonlinearity in large-amplitude fluctuations of allosteric proteins. Proc Natl Acad Sci U S A 2011 1.15
41 Theory of aging in structural glasses. J Chem Phys 2004 1.14
42 Capillarity theory for the fly-casting mechanism. Proc Natl Acad Sci U S A 2010 1.11
43 Restriction versus guidance in protein structure prediction. Proc Natl Acad Sci U S A 2009 1.11
44 A second molecular biology revolution? The energy landscapes of biomolecular function. Phys Chem Chem Phys 2014 1.10
45 Constructing explicit magnetic analogies for the dynamics of glass forming liquids. J Chem Phys 2008 1.09
46 Facilitation, complexity growth, mode coupling, and activated dynamics in supercooled liquids. Proc Natl Acad Sci U S A 2008 1.08
47 Phenotypic variability of growing cellular populations. Proc Natl Acad Sci U S A 2007 1.07
48 Associative memory Hamiltonians for structure prediction without homology: alpha/beta proteins. Proc Natl Acad Sci U S A 2003 1.06
49 Frustration in the energy landscapes of multidomain protein misfolding. Proc Natl Acad Sci U S A 2013 1.06
50 Conformational switching upon phosphorylation: a predictive framework based on energy landscape principles. Biochemistry 2008 1.05
51 Scanning malleable transition state ensembles: comparing theory and experiment for folding protein U1A. Biochemistry 2005 1.04
52 Role of topology, nonadditivity, and water-mediated interactions in predicting the structures of alpha/beta proteins. J Am Chem Soc 2006 1.04
53 Overcoming residual frustration in domain-swapping: the roles of disulfide bonds in dimerization and aggregation. Phys Biol 2005 1.02
54 The capillarity picture and the kinetics of one-dimensional protein folding. Proc Natl Acad Sci U S A 2008 1.02
55 A universal origin for secondary relaxations in supercooled liquids and structural glasses. Nat Phys 2009 1.01
56 A variational approach to the stochastic aspects of cellular signal transduction. J Chem Phys 2006 1.01
57 The folding energy landscape and phosphorylation: modeling the conformational switch of the NFAT regulatory domain. FASEB J 2005 1.00
58 Quantitative criteria for native energetic heterogeneity influences in the prediction of protein folding kinetics. Proc Natl Acad Sci U S A 2008 0.99
59 The spectrum of biomolecular states and motions. HFSP J 2008 0.98
60 Induced fit, folding, and recognition of the NF-kappaB-nuclear localization signals by IkappaBalpha and IkappaBbeta. J Mol Biol 2006 0.97
61 Active contractility in actomyosin networks. Proc Natl Acad Sci U S A 2012 0.97
62 Extinction and resurrection in gene networks. Proc Natl Acad Sci U S A 2008 0.96
63 Nonequilibrium self-assembly of linear fibers: microscopic treatment of growth, decay, catastrophe and rescue. Phys Biol 2006 0.96
64 The ultimate fate of supercooled liquids. J Phys Chem A 2010 0.96
65 Bridging the gap between the mode coupling and the random first order transition theories of structural relaxation in liquids. Phys Rev E Stat Nonlin Soft Matter Phys 2005 0.96
66 Protein structure prediction using basin-hopping. J Chem Phys 2008 0.95
67 Variationally determined free energy profiles for structural models of proteins: characteristic temperatures for folding and trapping. J Phys Chem B 2008 0.95
68 Phi-value analysis of apo-azurin folding: comparison between experiment and theory. Biochemistry 2006 0.95
69 Establishing the entatic state in folding metallated Pseudomonas aeruginosa azurin. Proc Natl Acad Sci U S A 2007 0.95
70 Free energy landscapes for initiation and branching of protein aggregation. Proc Natl Acad Sci U S A 2013 0.94
71 Statistics of cellular signal transduction as a race to the nucleus by multiple random walkers in compartment/phosphorylation space. Proc Natl Acad Sci U S A 2006 0.93
72 The energy landscape, folding pathways and the kinetics of a knotted protein. PLoS Comput Biol 2010 0.93
73 Prediction of native-state hydrogen exchange from perfectly funneled energy landscapes. J Am Chem Soc 2011 0.92
74 Characterization of alkaline transitions in ferricytochrome c using carbon-deuterium infrared probes. Biochemistry 2008 0.92
75 Intermolecular forces and the glass transition. J Phys Chem B 2007 0.91
76 Funneling and frustration in the energy landscapes of some designed and simplified proteins. J Chem Phys 2013 0.91
77 Discrete kinetic models from funneled energy landscape simulations. PLoS One 2012 0.91
78 Thermodynamic-kinetic correlations in supercooled liquids: a critical survey of experimental data and predictions of the random first-order transition theory of glasses. J Phys Chem B 2005 0.91
79 Effective temperature in stochastic kinetics and gene networks. Biophys J 2006 0.90
80 On the surface of glasses. J Chem Phys 2008 0.90
81 Influence of decoys on the noise and dynamics of gene expression. Phys Rev E Stat Nonlin Soft Matter Phys 2012 0.90
82 On the spontaneous collective motion of active matter. Proc Natl Acad Sci U S A 2011 0.89
83 On the strength of glasses. Proc Natl Acad Sci U S A 2012 0.89
84 The origin of the boson peak and thermal conductivity plateau in low-temperature glasses. Proc Natl Acad Sci U S A 2003 0.89
85 Buffed energy landscapes: another solution to the kinetic paradoxes of protein folding. Proc Natl Acad Sci U S A 2003 0.88
86 The folding energy landscape and free energy excitations of cytochrome c. Acc Chem Res 2010 0.88
87 Nonequilibrium statistical mechanical models for cytoskeletal assembly: towards understanding tensegrity in cells. Phys Rev E Stat Nonlin Soft Matter Phys 2005 0.86
88 Communication: Effective temperature and glassy dynamics of active matter. J Chem Phys 2011 0.85
89 Simulation studies of the fidelity of biomolecular structure ensemble recreation. J Chem Phys 2006 0.84
90 Tensegrity and motor-driven effective interactions in a model cytoskeleton. J Chem Phys 2012 0.84
91 Stability and dynamics of crystals and glasses of motorized particles. Proc Natl Acad Sci U S A 2004 0.83
92 Gene-gene cooperativity in small networks. Biophys J 2009 0.83
93 The role of atomic level steric effects and attractive forces in protein folding. Proteins 2011 0.83
94 On the dephasing of genetic oscillators. Proc Natl Acad Sci U S A 2014 0.82
95 Protein structure prediction: do hydrogen bonding and water-mediated interactions suffice? Methods 2010 0.82
96 Chemical frustration in the protein folding landscape: grand canonical ensemble simulations of cytochrome c. Biochemistry 2009 0.81
97 The interplay of nonlinearity and architecture in equilibrium cytoskeletal mechanics. J Chem Phys 2011 0.81
98 Dynamical heterogeneity of the glassy state. J Phys Chem B 2014 0.80
99 Exploring the Free Energy Landscape of Nucleosomes. J Am Chem Soc 2016 0.78
100 Fluctuating mobility generation and transport in glasses. Phys Rev E Stat Nonlin Soft Matter Phys 2013 0.78
101 Microscopic theory of the glassy dynamics of passive and active network materials. J Chem Phys 2013 0.78
102 Analysis of single molecule folding studies with replica correlation functions. Chem Phys Lett 2009 0.77
103 The Aggregation Free Energy Landscapes of Polyglutamine Repeats. J Am Chem Soc 2016 0.76
104 Resolving the NFκB hetero-dimer binding paradox: Strain and frustration guide the binding of dimeric transcription factors. J Am Chem Soc 2017 0.75
105 Multiple Binding Configurations of Fis Protein Pairs on DNA: Facilitated Dissociation versus Cooperative Dissociation. J Am Chem Soc 2019 0.75
106 Microscopically based calculations of the free energy barrier and dynamic length scale in supercooled liquids: the comparative role of configurational entropy and elasticity. J Phys Chem B 2013 0.75
107 Comparing the Aggregation Free Energy Landscapes of Amyloid Beta(1-42) and Amyloid Beta(1-40). J Am Chem Soc 2017 0.75
108 Photon activation of glassy dynamics: A mechanism for photoinduced fluidization, aging, and information storage in amorphous materials. J Phys Chem B 2020 0.75
109 A scientific memoir. J Phys Chem B 2013 0.75
110 Subquadratic wavenumber dependence of the structural relaxation of supercooled liquid in the crossover regime. J Chem Phys 2010 0.75
111 Aging, Jamming, and the Limits of Stability of Amorphous Solids. J Phys Chem B 2017 0.75