The Role of Atomic Polarization in the Thermodynamics of Chloroform Partitioning to Lipid Bilayers.
暂无分享,去创建一个
W F Drew Bennett | Toby W Allen | Igor Vorobyov | D Peter Tieleman | Sergei Noskov | D. Tieleman | I. Vorobyov | T. Allen | S. Noskov | W. F. D. Bennett | W. Bennett
[1] R. Cantor,et al. The lateral pressure profile in membranes: a physical mechanism of general anesthesia. , 1997, Toxicology letters.
[2] William L. Jorgensen,et al. Relative partition coefficients for organic solutes from fluid simulations , 1990 .
[3] D. Tieleman,et al. The MARTINI force field: coarse grained model for biomolecular simulations. , 2007, The journal of physical chemistry. B.
[4] E. Eger,et al. Anesthesia by n-alkanes not consistent with the Meyer-Overton hypothesis: determinations of the solubilities of alkanes in saline and various lipids. , 1993 .
[5] M. Klein,et al. Membrane structural perturbations caused by anesthetics and nonimmobilizers: a molecular dynamics investigation. , 2001, Biophysical journal.
[6] Toby W Allen,et al. Assessing atomistic and coarse-grained force fields for protein-lipid interactions: the formidable challenge of an ionizable side chain in a membrane. , 2008, The journal of physical chemistry. B.
[7] A. Pohorille,et al. Excess chemical potential of small solutes across water--membrane and water--hexane interfaces. , 1996, The Journal of chemical physics.
[8] Chau Pl,et al. New insights into the molecular mechanisms of general anaesthetics , 2010 .
[9] J. Changeux,et al. X-ray structures of general anaesthetics bound to a pentameric ligand-gated ion channel , 2011, Nature.
[10] M. Klein,et al. Distribution of halothane in a dipalmitoylphosphatidylcholine bilayer from molecular dynamics calculations. , 2000, Biophysical journal.
[11] A. Mark,et al. Coarse grained model for semiquantitative lipid simulations , 2004 .
[12] B. Rehberg,et al. The Membrane Lipid Cholesterol Modulates Anesthetic Actions on a Human Brain Ion Channel , 1995, Anesthesiology.
[13] Wen-Hua Chen,et al. Loosening and reorganization of fluid phospholipid bilayers by chloroform. , 2009, Journal of the American Chemical Society.
[14] B. Friedenson. Breast-cancer genomics. , 2003, The New England journal of medicine.
[15] K. Laasonen,et al. Structure, effective pair potential and properties of halothane , 1996 .
[16] Alexander D. MacKerell,et al. Polarizable empirical force field for alkanes based on the classical Drude oscillator model. , 2005, The journal of physical chemistry. B.
[17] R. Swendsen,et al. THE weighted histogram analysis method for free‐energy calculations on biomolecules. I. The method , 1992 .
[18] O. Berger,et al. Molecular dynamics simulations of a fluid bilayer of dipalmitoylphosphatidylcholine at full hydration, constant pressure, and constant temperature. , 1997, Biophysical journal.
[19] M. Klein,et al. Effects of anesthetics on the structure of a phospholipid bilayer: molecular dynamics investigation of halothane in the hydrated liquid crystal phase of dipalmitoylphosphatidylcholine. , 1998, Biophysical journal.
[20] Alexander D. MacKerell,et al. An Improved Empirical Potential Energy Function for Molecular Simulations of Phospholipids , 2000 .
[21] M. Klein,et al. Interaction of anesthetics with open and closed conformations of a potassium channel studied via molecular dynamics and normal mode analysis. , 2008, Biophysical journal.
[22] Chris Oostenbrink,et al. A biomolecular force field based on the free enthalpy of hydration and solvation: The GROMOS force‐field parameter sets 53A5 and 53A6 , 2004, J. Comput. Chem..
[23] H. Berendsen,et al. Interaction Models for Water in Relation to Protein Hydration , 1981 .
[25] H. C. Andersen,et al. Role of Repulsive Forces in Determining the Equilibrium Structure of Simple Liquids , 1971 .
[26] M. Klein,et al. Constant-pressure molecular dynamics investigation of cholesterol effects in a dipalmitoylphosphatidylcholine bilayer. , 1998, Biophysical journal.
[27] Toby W Allen,et al. Potential of mean force and pKa profile calculation for a lipid membrane-exposed arginine side chain. , 2008, The journal of physical chemistry. B.
[28] S. Yokono,et al. Interfacial preference of anesthetic action upon the phase transition of phospholipid bilayers and partition equilibrium of inhalation anesthetics between membrane and deuterium oxide. , 1981, Biochimica et biophysica acta.
[29] Alexander D. MacKerell,et al. Many-body polarization effects and the membrane dipole potential. , 2009, Journal of the American Chemical Society.
[30] J. Faraldo-Gómez,et al. Polarizable model of chloroform based on classical Drude oscillators , 2009 .
[31] C. Cramer,et al. Universal solvation model based on solute electron density and on a continuum model of the solvent defined by the bulk dielectric constant and atomic surface tensions. , 2009, The journal of physical chemistry. B.
[32] Alexander D. MacKerell,et al. Chapter 1 Considerations for Lipid Force Field Development , 2008 .
[33] Durba Sengupta,et al. Polarizable Water Model for the Coarse-Grained MARTINI Force Field , 2010, PLoS Comput. Biol..
[34] M. Klein,et al. Partitioning of anesthetics into a lipid bilayer and their interaction with membrane-bound peptide bundles. , 2006, Biophysical journal.
[35] Wilfred F van Gunsteren,et al. Comparison of thermodynamic properties of coarse-grained and atomic-level simulation models. , 2007, Chemphyschem : a European journal of chemical physics and physical chemistry.
[36] W. Shinoda,et al. Molecular Dynamics Study on the Effects of Chain Branching on the Physical Properties of Lipid Bilayers: 2. Permeability , 2004 .
[37] A. Pohorille,et al. Concentrations of anesthetics across the water-membrane interface; the Meyer-Overton hypothesis revisited. , 1998, Toxicology letters.
[38] I. Vorobyov,et al. Electrostatics of deformable lipid membranes. , 2010, Biophysical journal.
[39] A. Pohorille,et al. Interactions of anesthetics with the water-hexane interface. A molecular dynamics study. , 1997, The journal of physical chemistry. B.
[40] E. Eger,et al. Polyhalogenated and perfluorinated compounds that disobey the Meyer-Overton hypothesis. , 1994, Anesthesia and analgesia.
[41] William L. Jorgensen,et al. Molecular dynamics of proteins with the OPLS potential functions. Simulation of the third domain of silver pheasant ovomucoid in water , 1990 .
[42] U. Essmann,et al. Dynamical properties of phospholipid bilayers from computer simulation. , 1999, Biophysical journal.
[43] Alexander D. MacKerell,et al. All-atom empirical potential for molecular modeling and dynamics studies of proteins. , 1998, The journal of physical chemistry. B.
[44] Benoît Roux,et al. Hydration of Amino Acid Side Chains: Nonpolar and Electrostatic Contributions Calculated from Staged Molecular Dynamics Free Energy Simulations with Explicit Water Molecules , 2004 .
[45] Alexander D. MacKerell. Empirical force fields for biological macromolecules: Overview and issues , 2004, J. Comput. Chem..
[46] A. Pohorille,et al. Interactions of anesthetics with the membrane-water interface. , 1996, Chemical physics.
[47] V. Bondarenko,et al. NMR study of general anesthetic interaction with nAChR beta2 subunit. , 2008, Biophysical journal.
[48] Yan Xu,et al. Different distribution of fluorinated anesthetics and nonanesthetics in model membrane: a 19F NMR study. , 1997, Biophysical journal.
[49] R. Larson,et al. The MARTINI Coarse-Grained Force Field: Extension to Proteins. , 2008, Journal of chemical theory and computation.
[50] Alexander D. MacKerell,et al. An ab initio study on the torsional surface of alkanes and its effect on molecular simulations of alkanes and a DPPC bilayer. , 2005, The journal of physical chemistry. B.
[51] L. Firestone,et al. Nonanesthetic alcohols dissolve in synaptic membranes without perturbing their lipids. , 1989, Proceedings of the National Academy of Sciences of the United States of America.
[52] Gerrit Groenhof,et al. GROMACS: Fast, flexible, and free , 2005, J. Comput. Chem..
[53] H. Meyer. Zur Theorie der Alkoholnarkose , 1899, Archiv für experimentelle Pathologie und Pharmakologie.
[54] G. Chidichimo,et al. Disposition of chloroform in phosphatidylcholine membranes: a 2H- and 31P-NMR study , 1996 .
[55] S. Kaneko,et al. Membrane disordering induced by chloroform and carbon tetrachloride , 2003 .
[56] P. Seeman,et al. The membrane actions of anesthetics and tranquilizers. , 1972, Pharmacological reviews.
[57] Satyavani Vemparala,et al. Computational studies on the interactions of inhalational anesthetics with proteins. , 2010, Accounts of chemical research.
[58] Yan Xu,et al. Anesthetic modulation of protein dynamics: insight from an NMR study. , 2008, The journal of physical chemistry. B.
[59] Justin L MacCallum,et al. Computer simulation of the distribution of hexane in a lipid bilayer: spatially resolved free energy, entropy, and enthalpy profiles. , 2006, Journal of the American Chemical Society.
[60] Igor Vorobyov,et al. The electrostatics of solvent and membrane interfaces and the role of electronic polarizability , 2010 .
[61] Toby W Allen,et al. On the thermodynamic stability of a charged arginine side chain in a transmembrane helix , 2007, Proceedings of the National Academy of Sciences.
[62] Carsten Kutzner,et al. GROMACS 4: Algorithms for Highly Efficient, Load-Balanced, and Scalable Molecular Simulation. , 2008, Journal of chemical theory and computation.
[63] E Jakobsson,et al. Combined Monte Carlo and molecular dynamics simulation of fully hydrated dioleyl and palmitoyl-oleyl phosphatidylcholine lipid bilayers. , 1999, Biophysical journal.
[64] D. Chandler. Interfaces and the driving force of hydrophobic assembly , 2005, Nature.
[65] Alexander D. MacKerell,et al. Determination of Electrostatic Parameters for a Polarizable Force Field Based on the Classical Drude Oscillator. , 2005, Journal of chemical theory and computation.
[66] T. McIntosh,et al. Interaction of halothane with lipid bilayers. , 1979, Molecular pharmacology.
[67] W. L. Jorgensen,et al. Comparison of simple potential functions for simulating liquid water , 1983 .
[68] P. Tang,et al. Amphiphilic sites for general anesthetic action? Evidence from 129Xe-[1H] intermolecular nuclear Overhauser effects. , 1997, Biochimica et biophysica acta.
[69] Sandeep Patel,et al. Charge equilibration force fields for lipid environments: applications to fully hydrated DPPC bilayers and DMPC-embedded gramicidin A. , 2009, The journal of physical chemistry. B.
[70] M. H. Cheng,et al. Anesthetic binding in a pentameric ligand-gated ion channel: GLIC. , 2010, Biophysical journal.
[71] J. Johansson,et al. Nonanesthetics (Nonimmobilizers) and Anesthetics Display Different Microenvironment Preferences , 2001, Anesthesiology.
[72] J. Baber,et al. Distribution of general anesthetics in phospholipid bilayers determined using 2H NMR and 1H-1H NOE spectroscopy. , 1995, Biochemistry.
[73] D P Tieleman,et al. A computer perspective of membranes: molecular dynamics studies of lipid bilayer systems. , 1997, Biochimica et biophysica acta.
[74] G. Torrie,et al. Nonphysical sampling distributions in Monte Carlo free-energy estimation: Umbrella sampling , 1977 .
[75] D. Beglov,et al. Finite representation of an infinite bulk system: Solvent boundary potential for computer simulations , 1994 .
[76] M. Karplus,et al. CHARMM: A program for macromolecular energy, minimization, and dynamics calculations , 1983 .
[77] Jianpeng Ma,et al. CHARMM: The biomolecular simulation program , 2009, J. Comput. Chem..
[78] D. Cafiso,et al. Anesthetics reduce the magnitude of the membrane dipole potential. Measurements in lipid vesicles using voltage-sensitive spin probes. , 1995, Biochemistry.