Published in Phys Rev E Stat Nonlin Soft Matter Phys on October 25, 2011
Lessons of slicing membranes: interplay of packing, free area, and lateral diffusion in phospholipid/cholesterol bilayers. Biophys J (2004) 1.77
Polyelectrostatic interactions of disordered ligands suggest a physical basis for ultrasensitivity. Proc Natl Acad Sci U S A (2007) 1.65
The hydrophobic effect and its role in cold denaturation. Cryobiology (2009) 1.64
Ordering effects of cholesterol and its analogues. Biochim Biophys Acta (2008) 1.56
Electrokinetic behavior of two touching inhomogeneous biological cells and colloidal particles: effects of multipolar interactions. Phys Rev E Stat Nonlin Soft Matter Phys (2004) 1.48
Solvation effects and driving forces for protein thermodynamic and kinetic cooperativity: how adequate is native-centric topological modeling? J Mol Biol (2003) 1.48
Structure of spheroidal HDL particles revealed by combined atomistic and coarse-grained simulations. Biophys J (2007) 1.45
Criteria for downhill protein folding: calorimetry, chevron plot, kinetic relaxation, and single-molecule radius of gyration in chain models with subdued degrees of cooperativity. Proteins (2006) 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
Under the influence of alcohol: the effect of ethanol and methanol on lipid bilayers. Biophys J (2005) 1.32
Recombinatoric exploration of novel folded structures: a heteropolymer-based model of protein evolutionary landscapes. Proc Natl Acad Sci U S A (2002) 1.28
The why and how of DNA unlinking. Nucleic Acids Res (2009) 1.26
Assessing the nature of lipid raft membranes. PLoS Comput Biol (2007) 1.26
Significance of sterol structural specificity. Desmosterol cannot replace cholesterol in lipid rafts. J Biol Chem (2005) 1.24
Anti-cooperativity and cooperativity in hydrophobic interactions: Three-body free energy landscapes and comparison with implicit-solvent potential functions for proteins. Proteins (2002) 1.23
Competition between native topology and nonnative interactions in simple and complex folding kinetics of natural and designed proteins. Proc Natl Acad Sci U S A (2010) 1.20
Systematic comparison of force fields for microscopic simulations of NaCl in aqueous solutions: diffusion, free energy of hydration, and structural properties. J Comput Chem (2004) 1.18
Coarse-grained model for phospholipid/cholesterol bilayer. J Chem Phys (2004) 1.17
Cationic DMPC/DMTAP lipid bilayers: molecular dynamics study. Biophys J (2004) 1.17
Atomic-scale structure and electrostatics of anionic palmitoyloleoylphosphatidylglycerol lipid bilayers with Na+ counterions. Biophys J (2006) 1.17
Three-dimensional "Mercedes-Benz" model for water. J Chem Phys (2009) 1.16
A structural model of latent evolutionary potentials underlying neutral networks in proteins. HFSP J (2007) 1.15
Control of calcium oxalate crystal growth by face-specific adsorption of an osteopontin phosphopeptide. J Am Chem Soc (2007) 1.12
Insight into the putative specific interactions between cholesterol, sphingomyelin, and palmitoyl-oleoyl phosphatidylcholine. Biophys J (2006) 1.11
Desolvation is a likely origin of robust enthalpic barriers to protein folding. J Mol Biol (2005) 1.10
Multiscale modeling of emergent materials: biological and soft matter. Phys Chem Chem Phys (2009) 1.09
Tilt: major factor in sterols' ordering capability in membranes. J Phys Chem B (2006) 1.09
Towards a consistent modeling of protein thermodynamic and kinetic cooperativity: how applicable is the transition state picture to folding and unfolding? J Mol Biol (2002) 1.08
What happens if cholesterol is made smoother: importance of methyl substituents in cholesterol ring structure on phosphatidylcholine-sterol interaction. Biophys J (2007) 1.07
Comparison of Secondary Structure Formation Using 10 Different Force Fields in Microsecond Molecular Dynamics Simulations. J Chem Theory Comput (2012) 1.07
Topological information embodied in local juxtaposition geometry provides a statistical mechanical basis for unknotting by type-2 DNA topoisomerases. J Mol Biol (2006) 1.05
Hydrophobic association of alpha-helices, steric dewetting, and enthalpic barriers to protein folding. Proc Natl Acad Sci U S A (2007) 1.05
Role of lipids in spheroidal high density lipoproteins. PLoS Comput Biol (2010) 1.04
Hydrophobicity within the three-dimensional Mercedes-Benz model: potential of mean force. J Chem Phys (2011) 1.03
Pressure and temperature dependence of hydrophobic hydration: volumetric, compressibility, and thermodynamic signatures. J Chem Phys (2007) 1.03
Interplay of unsaturated phospholipids and cholesterol in membranes: effect of the double-bond position. Biophys J (2008) 1.01
The flexible polyelectrolyte hypothesis of protein-biomineral interaction. Langmuir (2010) 1.01
Cholesterol induces specific spatial and orientational order in cholesterol/phospholipid membranes. PLoS One (2010) 1.00
Contact order dependent protein folding rates: kinetic consequences of a cooperative interplay between favorable nonlocal interactions and local conformational preferences. Proteins (2003) 1.00
Role of sterol type on lateral pressure profiles of lipid membranes affecting membrane protein functionality: Comparison between cholesterol, desmosterol, 7-dehydrocholesterol and ketosterol. J Struct Biol (2007) 1.00
Lateral diffusion in lipid membranes through collective flows. J Am Chem Soc (2007) 1.00
Classical electrostatics for biomolecular simulations. Chem Rev (2013) 1.00
Escape from Adaptive Conflict follows from weak functional trade-offs and mutational robustness. Proc Natl Acad Sci U S A (2012) 0.99
Matrix Gla protein inhibits ectopic calcification by a direct interaction with hydroxyapatite crystals. J Am Chem Soc (2011) 0.99
Simple two-state protein folding kinetics requires near-levinthal thermodynamic cooperativity. Proteins (2003) 0.98
Origins of chevron rollovers in non-two-state protein folding kinetics. Phys Rev Lett (2003) 0.97
Impact of cholesterol on voids in phospholipid membranes. J Chem Phys (2004) 0.96
Comparison of cholesterol and its direct precursors along the biosynthetic pathway: effects of cholesterol, desmosterol and 7-dehydrocholesterol on saturated and unsaturated lipid bilayers. J Chem Phys (2008) 0.96
Significance of cholesterol methyl groups. J Phys Chem B (2008) 0.96
Role of phosphatidylglycerols in the stability of bacterial membranes. Biochimie (2008) 0.95
Structural and theoretical studies indicate that the cylindrical protease ClpP samples extended and compact conformations. Structure (2010) 0.95
Influence of cis double-bond parametrization on lipid membrane properties: how seemingly insignificant details in force-field change even qualitative trends. J Chem Phys (2008) 0.95
Native topology of the designed protein Top7 is not conducive to cooperative folding. Biophys J (2009) 0.94
Influence of ethanol on lipid membranes: from lateral pressure profiles to dynamics and partitioning. J Phys Chem B (2008) 0.94
Electrorotation in graded colloidal suspensions. Phys Rev E Stat Nonlin Soft Matter Phys (2003) 0.93
Effects of molecular crowding on the dynamics of intrinsically disordered proteins. PLoS One (2012) 0.93
Evolutionary dynamics on protein bi-stability landscapes can potentially resolve adaptive conflicts. PLoS Comput Biol (2012) 0.92
Inferring global topology from local juxtaposition geometry: interlinking polymer rings and ramifications for topoisomerase action. Biophys J (2006) 0.92
Strain hardening, avalanches, and strain softening in dense cross-linked actin networks. Phys Rev E Stat Nonlin Soft Matter Phys (2008) 0.91
Effect of double bond position on lipid bilayer properties: insight through atomistic simulations. J Phys Chem B (2007) 0.91
Probing possible downhill folding: native contact topology likely places a significant constraint on the folding cooperativity of proteins with approximately 40 residues. J Mol Biol (2008) 0.91
Chevron behavior and isostable enthalpic barriers in protein folding: successes and limitations of simple Gō-like modeling. Biophys J (2005) 0.90
Ionic surfactant aggregates in saline solutions: sodium dodecyl sulfate (SDS) in the presence of excess sodium chloride (NaCl) or calcium chloride (CaCl(2)). J Phys Chem B (2009) 0.90
Crumpling of a stiff tethered membrane. Phys Rev Lett (2004) 0.90
Temperature dependence of three-body hydrophobic interactions: potential of mean force, enthalpy, entropy, heat capacity, and nonadditivity. J Am Chem Soc (2005) 0.90
Desolvation barrier effects are a likely contributor to the remarkable diversity in the folding rates of small proteins. J Mol Biol (2009) 0.90
Dynamics of water at membrane surfaces: Effect of headgroup structure. Biointerphases (2006) 0.90
α-helical structures drive early stages of self-assembly of amyloidogenic amyloid polypeptide aggregate formation in membranes. Sci Rep (2013) 0.90
Sparsely populated folding intermediates of the Fyn SH3 domain: matching native-centric essential dynamics and experiment. Proc Natl Acad Sci U S A (2004) 0.90
Action at hooked or twisted-hooked DNA juxtapositions rationalizes unlinking preference of type-2 topoisomerases. J Mol Biol (2010) 0.90
Quantitative analysis of the effects of photoswitchable distance constraints on the structure of a globular protein. Biochemistry (2012) 0.90
Polycation-π interactions are a driving force for molecular recognition by an intrinsically disordered oncoprotein family. PLoS Comput Biol (2013) 0.89
Microscopic mechanism for cold denaturation. Phys Rev Lett (2008) 0.89
Roles of electrostatics and conformation in protein-crystal interactions. PLoS One (2010) 0.89
Effect of monovalent salt on cationic lipid membranes as revealed by molecular dynamics simulations. J Phys Chem B (2005) 0.88
Response to comment by Almeida et al.: free area theories for lipid bilayers--predictive or not? Biophys J (2005) 0.88
Molecular dynamics study of charged dendrimers in salt-free solution: effect of counterions. J Chem Phys (2006) 0.88
Long-time correlations and hydrophobe-modified hydrogen-bonding dynamics in hydrophobic hydration. J Am Chem Soc (2012) 0.87
Solvation and desolvation effects in protein folding: native flexibility, kinetic cooperativity and enthalpic barriers under isostability conditions. Phys Biol (2005) 0.87
Comparing folding codes in simple heteropolymer models of protein evolutionary landscape: robustness of the superfunnel paradigm. Biophys J (2004) 0.87
Efficient chain moves for Monte Carlo simulations of a wormlike DNA model: excluded volume, supercoils, site juxtapositions, knots, and comparisons with random-flight and lattice models. J Chem Phys (2008) 0.87
Molecular dynamics simulations of the bacterial ABC transporter SAV1866 in the closed form. J Phys Chem B (2012) 0.86
Structural properties of ionic detergent aggregates: a large-scale molecular dynamics study of sodium dodecyl sulfate. J Phys Chem B (2007) 0.86
Molecular dynamics, crystallography and mutagenesis studies on the substrate gating mechanism of prolyl oligopeptidase. Biochimie (2012) 0.86
Phosphorylation of Ser136 is critical for potent bone sialoprotein-mediated nucleation of hydroxyapatite crystals. Biochem J (2010) 0.86
Coarse-grained model for phospholipid/cholesterol bilayer employing inverse Monte Carlo with thermodynamic constraints. J Chem Phys (2007) 0.85
Kinetic consequences of native state optimization of surface-exposed electrostatic interactions in the Fyn SH3 domain. Proteins (2011) 0.85
Role of glycolipids in lipid rafts: a view through atomistic molecular dynamics simulations with galactosylceramide. J Phys Chem B (2010) 0.85
Dielectrophoresis of charged colloidal suspensions. Phys Rev E Stat Nonlin Soft Matter Phys (2003) 0.85
Molecular dynamics simulations reveal fundamental role of water as factor determining affinity of binding of beta-blocker nebivolol to beta(2)-adrenergic receptor. J Phys Chem B (2010) 0.85
Microsecond molecular dynamics simulations of intrinsically disordered proteins involved in the oxidative stress response. PLoS One (2011) 0.85
Transition paths, diffusive processes, and preequilibria of protein folding. Proc Natl Acad Sci U S A (2012) 0.85
Replacing the cholesterol hydroxyl group with the ketone group facilitates sterol flip-flop and promotes membrane fluidity. J Phys Chem B (2008) 0.84
Static charges cannot drive a continuous flow of water molecules through a carbon nanotube. Nat Nanotechnol (2010) 0.84
Study of PEGylated lipid layers as a model for PEGylated liposome surfaces: molecular dynamics simulation and Langmuir monolayer studies. Langmuir (2011) 0.84
Ion dynamics in cationic lipid bilayer systems in saline solutions. J Phys Chem B (2009) 0.83
Effects of desolvation barriers and sidechains on local-nonlocal coupling and chevron behaviors in coarse-grained models of protein folding. Phys Chem Chem Phys (2014) 0.83
Influence of pyrene-labeling on fluid lipid membranes. J Phys Chem B (2006) 0.83
Explicit-chain model of native-state hydrogen exchange: implications for event ordering and cooperativity in protein folding. Proteins (2005) 0.83
Role of cardiolipins in the inner mitochondrial membrane: insight gained through atom-scale simulations. J Phys Chem B (2009) 0.83