Published in Biochemistry on February 25, 2003
The molecular basis for the chemical denaturation of proteins by urea. Proc Natl Acad Sci U S A (2003) 3.82
Counteraction of urea-induced protein denaturation by trimethylamine N-oxide: a chemical chaperone at atomic resolution. Proc Natl Acad Sci U S A (2004) 1.33
Use of urea and glycine betaine to quantify coupled folding and probe the burial of DNA phosphates in lac repressor-lac operator binding. Biochemistry (2005) 1.31
Why Hofmeister effects of many salts favor protein folding but not DNA helix formation. Proc Natl Acad Sci U S A (2010) 1.30
Quantifying why urea is a protein denaturant, whereas glycine betaine is a protein stabilizer. Proc Natl Acad Sci U S A (2011) 1.27
Late steps in the formation of E. coli RNA polymerase-lambda P R promoter open complexes: characterization of conformational changes by rapid [perturbant] upshift experiments. J Mol Biol (2007) 1.18
Dynamics, energetics, and structure in protein folding. Biochemistry (2006) 1.13
Formation of a wrapped DNA-protein interface: experimental characterization and analysis of the large contributions of ions and water to the thermodynamics of binding IHF to H' DNA. J Mol Biol (2007) 1.04
Introductory lecture: interpreting and predicting Hofmeister salt ion and solute effects on biopolymer and model processes using the solute partitioning model. Faraday Discuss (2013) 1.02
Temperature-dependent structural changes in intrinsically disordered proteins: formation of alpha-helices or loss of polyproline II? Protein Sci (2010) 1.02
Quantifying accumulation or exclusion of H(+), HO(-), and Hofmeister salt ions near interfaces. Chem Phys Lett (2008) 0.95
Quantifying functional group interactions that determine urea effects on nucleic acid helix formation. J Am Chem Soc (2013) 0.89
Structure and dynamics of urea/water mixtures investigated by vibrational spectroscopy and molecular dynamics simulation. J Phys Chem B (2013) 0.88
Osmolyte-induced perturbations of hydrogen bonding between hydration layer waters: correlation with protein conformational changes. J Phys Chem B (2009) 0.84
Urea-temperature phase diagrams capture the thermodynamics of denatured state expansion that accompany protein unfolding. Protein Sci (2013) 0.83
Getting specificity from simplicity in putative proteins from the prebiotic earth. Proc Natl Acad Sci U S A (2007) 0.83
Chemical Interactions of Polyethylene Glycols (PEGs) and Glycerol with Protein Functional Groups: Applications to Effects of PEG and Glycerol on Protein Processes. Biochemistry (2015) 0.81
Guanidine hydrochloride-induced unfolding of the three heme coordination states of the CO-sensing transcription factor, CooA. Biochemistry (2009) 0.77
Equilibrium unfolding of the PDZ domain of β2-syntrophin. Biophys J (2012) 0.75
Cooperative alpha-helix unfolding in a protein-DNA complex from hydrogen-deuterium exchange. Protein Sci (2006) 0.75
Novel computer program for fast exact calculation of accessible and molecular surface areas and average surface curvature. J Comput Chem (2002) 3.00
Mechanism of bacterial transcription initiation: RNA polymerase - promoter binding, isomerization to initiation-competent open complexes, and initiation of RNA synthesis. J Mol Biol (2011) 2.50
Crowding and confinement effects on protein diffusion in vivo. J Bacteriol (2006) 1.84
Hofmeister salt effects on surface tension arise from partitioning of anions and cations between bulk water and the air-water interface. J Phys Chem B (2007) 1.77
The exclusion of glycine betaine from anionic biopolymer surface: why glycine betaine is an effective osmoprotectant but also a compatible solute. Biochemistry (2004) 1.52
Thermodynamic origin of hofmeister ion effects. J Phys Chem B (2008) 1.50
Roles of cytoplasmic osmolytes, water, and crowding in the response of Escherichia coli to osmotic stress: biophysical basis of osmoprotection by glycine betaine. Biochemistry (2003) 1.48
Real-time footprinting of DNA in the first kinetically significant intermediate in open complex formation by Escherichia coli RNA polymerase. Proc Natl Acad Sci U S A (2007) 1.44
Protein surface salt bridges and paths for DNA wrapping. Curr Opin Struct Biol (2002) 1.37
Cytoplasmic protein mobility in osmotically stressed Escherichia coli. J Bacteriol (2008) 1.34
Preferential interactions of glycine betaine and of urea with DNA: implications for DNA hydration and for effects of these solutes on DNA stability. Biochemistry (2004) 1.31
Use of urea and glycine betaine to quantify coupled folding and probe the burial of DNA phosphates in lac repressor-lac operator binding. Biochemistry (2005) 1.31
Protein diffusion in the periplasm of E. coli under osmotic stress. Biophys J (2011) 1.30
Why Hofmeister effects of many salts favor protein folding but not DNA helix formation. Proc Natl Acad Sci U S A (2010) 1.30
Interactions of the osmolyte glycine betaine with molecular surfaces in water: thermodynamics, structural interpretation, and prediction of m-values. Biochemistry (2009) 1.29
Quantifying why urea is a protein denaturant, whereas glycine betaine is a protein stabilizer. Proc Natl Acad Sci U S A (2011) 1.27
Separation of preferential interaction and excluded volume effects on DNA duplex and hairpin stability. Proc Natl Acad Sci U S A (2011) 1.26
Partitioning of atmospherically relevant ions between bulk water and the water/vapor interface. Proc Natl Acad Sci U S A (2006) 1.23
The effects of upstream DNA on open complex formation by Escherichia coli RNA polymerase. Proc Natl Acad Sci U S A (2004) 1.22
Late steps in the formation of E. coli RNA polymerase-lambda P R promoter open complexes: characterization of conformational changes by rapid [perturbant] upshift experiments. J Mol Biol (2007) 1.18
Evidence for a tyrosine-adenine stacking interaction and for a short-lived open intermediate subsequent to initial binding of Escherichia coli RNA polymerase to promoter DNA. J Mol Biol (2008) 1.17
Urea-amide preferential interactions in water: quantitative comparison of model compound data with biopolymer results using water accessible surface areas. J Phys Chem B (2007) 1.16
Large changes in cytoplasmic biopolymer concentration with osmolality indicate that macromolecular crowding may regulate protein-DNA interactions and growth rate in osmotically stressed Escherichia coli K-12. J Mol Recognit (2004) 1.16
Application of the local-bulk partitioning and competitive binding models to interpret preferential interactions of glycine betaine and urea with protein surface. Biochemistry (2004) 1.11
Effect of the number of nucleic acid oligomer charges on the salt dependence of stability (DeltaG 37degrees) and melting temperature (Tm): NLPB analysis of experimental data. Biochemistry (2004) 1.10
Generalized derivation of an exact relationship linking different coefficients that characterize thermodynamic effects of preferential interactions. Biophys Chem (2002) 1.08
Probing DNA binding, DNA opening, and assembly of a downstream clamp/jaw in Escherichia coli RNA polymerase-lambdaP(R) promoter complexes using salt and the physiological anion glutamate. Biochemistry (2010) 1.07
One-step DNA melting in the RNA polymerase cleft opens the initiation bubble to form an unstable open complex. Proc Natl Acad Sci U S A (2010) 1.05
Formation of a wrapped DNA-protein interface: experimental characterization and analysis of the large contributions of ions and water to the thermodynamics of binding IHF to H' DNA. J Mol Biol (2007) 1.04
Methods of changing biopolymer volume fraction and cytoplasmic solute concentrations for in vivo biophysical studies. Methods Enzymol (2007) 1.00
Probing the protein-folding mechanism using denaturant and temperature effects on rate constants. Proc Natl Acad Sci U S A (2013) 0.98
Interactions of the KWK6 cationic peptide with short nucleic acid oligomers: demonstration of large Coulombic end effects on binding at 0.1-0.2 M salt. Nucleic Acids Res (2004) 0.96
DNA binding mode transitions of Escherichia coli HU(alphabeta): evidence for formation of a bent DNA--protein complex on intact, linear duplex DNA. J Mol Biol (2008) 0.95
Thermodynamics and folding pathway of tetraloop receptor-mediated RNA helical packing. J Mol Biol (2008) 0.91
Preferential interactions in aqueous solutions of urea and KCl. Biophys Chem (2003) 0.90
Key roles of the downstream mobile jaw of Escherichia coli RNA polymerase in transcription initiation. Biochemistry (2012) 0.90
Gibbs-Duhem-based relationships among derivatives expressing the concentration dependences of selected chemical potentials for a multicomponent system. Biophys Chem (2004) 0.89
Quantifying functional group interactions that determine urea effects on nucleic acid helix formation. J Am Chem Soc (2013) 0.89
Quantifying additive interactions of the osmolyte proline with individual functional groups of proteins: comparisons with urea and glycine betaine, interpretation of m-values. Biochemistry (2013) 0.87
Interactions of cationic ligands and proteins with small nucleic acids: analytic treatment of the large coulombic end effect on binding free energy as a function of salt concentration. Biochemistry (2006) 0.86
Using surface tension data to predict differences in surface and bulk concentrations of nonelectrolytes in water. J Phys Chem C Nanomater Interfaces (2009) 0.84
Quantifying the roles of water and solutes (denaturants, osmolytes, and Hofmeister salts) in protein and model processes using the solute partitioning model. Methods Mol Biol (2009) 0.83
Nonspecific DNA binding and bending by HUαβ: interfaces of the three binding modes characterized by salt-dependent thermodynamics. J Mol Biol (2011) 0.83
Asymptotic solution of the cylindrical nonlinear Poisson-Boltzmann equation at low salt concentration: analytic expressions for surface potential and preferential interaction coefficient. Proc Natl Acad Sci U S A (2002) 0.82
Positioning the Intracellular Salt Potassium Glutamate in the Hofmeister Series by Chemical Unfolding Studies of NTL9. Biochemistry (2016) 0.80
Correction to "quantifying functional group interactions that determine urea effects on nucleic Acid helix formation". J Am Chem Soc (2013) 0.78
Using solutes and kinetics to probe large conformational changes in the steps of transcription initiation. Methods Mol Biol (2015) 0.78
Rapid quench mixing to quantify kinetics of steps in association of Escherichia coli RNA polymerase with promoter DNA. Methods Enzymol (2003) 0.77
Contributions of the histidine side chain and the N-terminal alpha-amino group to the binding thermodynamics of oligopeptides to nucleic acids as a function of pH. Biochemistry (2010) 0.76