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Effect of acetone accumulation on structure and dynamics of lipid membranes studied by molecular dynamics simulations. Comput Biol Chem 2013; 46:23-31. [DOI: 10.1016/j.compbiolchem.2013.04.005] [Citation(s) in RCA: 29] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/22/2013] [Revised: 04/27/2013] [Accepted: 04/29/2013] [Indexed: 12/30/2022]
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Abstract
Cholesterol plays an important role in regulating the properties of phospholipid membranes. To obtain a detailed understanding of the lipid-cholesterol interactions, we have developed a mesoscopic water-lipid-cholesterol model. In this model, we take into account the hydrophobic-hydrophilic interactions and the structure of the molecules. We compute the phase diagram of dimyristoylphosphatidylcholine-cholesterol by using dissipative particle dynamics and show that our model predicts many of the different phases that have been observed experimentally. In quantitative agreement with experimental data our model also shows the condensation effect; upon the addition of cholesterol, the area per lipid decreases more than one would expect from ideal mixing. Our calculations show that this effect is maximal close to the main-phase transition temperature, the lowest temperature for which the membrane is in the liquid phase, and is directly related to the increase of this main-phase transition temperature upon addition of cholesterol. We demonstrate that no condensation is observed if we slightly change the structure of the cholesterol molecule by adding an extra hydrophilic head group or if we decrease the size of the hydrophobic part of cholesterol.
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Peters GH, Hansen FY, Møller MS, Westh P. Effects of Fatty Acid Inclusion in a DMPC Bilayer Membrane. J Phys Chem B 2008; 113:92-102. [DOI: 10.1021/jp806205m] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Günther H. Peters
- Department of Chemistry, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark; Department of Life Sciences and Chemistry, Roskilde University, 4000 Roskilde, Denmark; and MEMPHYS-Center for Biomembrane Physics
| | - Flemming Y. Hansen
- Department of Chemistry, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark; Department of Life Sciences and Chemistry, Roskilde University, 4000 Roskilde, Denmark; and MEMPHYS-Center for Biomembrane Physics
| | - Martin S. Møller
- Department of Chemistry, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark; Department of Life Sciences and Chemistry, Roskilde University, 4000 Roskilde, Denmark; and MEMPHYS-Center for Biomembrane Physics
| | - Peter Westh
- Department of Chemistry, Technical University of Denmark, 2800 Kgs. Lyngby, Denmark; Department of Life Sciences and Chemistry, Roskilde University, 4000 Roskilde, Denmark; and MEMPHYS-Center for Biomembrane Physics
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Molecular dynamics simulations of microstructure and mixing dynamics of cryoprotective solvents in water and in the presence of a lipid membrane. Biophys Chem 2008; 136:23-31. [DOI: 10.1016/j.bpc.2008.04.004] [Citation(s) in RCA: 28] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/11/2008] [Revised: 04/07/2008] [Accepted: 04/08/2008] [Indexed: 11/20/2022]
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Matubayasi N, Shinoda W, Nakahara M. Free-energy analysis of the molecular binding into lipid membrane with the method of energy representation. J Chem Phys 2008; 128:195107. [DOI: 10.1063/1.2919117] [Citation(s) in RCA: 59] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
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Terama E, Ollila OHS, Salonen E, Rowat AC, Trandum C, Westh P, Patra M, Karttunen M, Vattulainen I. Influence of ethanol on lipid membranes: from lateral pressure profiles to dynamics and partitioning. J Phys Chem B 2008; 112:4131-9. [PMID: 18341314 DOI: 10.1021/jp0750811] [Citation(s) in RCA: 84] [Impact Index Per Article: 5.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Abstract
We have combined experiments with atomic-scale molecular dynamics simulations to consider the influence of ethanol on a variety of lipid membrane properties. We first employed isothermal titration calorimetry together with the solvent-null method to study the partitioning of ethanol molecules into saturated and unsaturated membrane systems. The results show that ethanol partitioning is considerably more favorable in unsaturated bilayers, which are characterized by their more disordered nature compared to their saturated counterparts. Simulation studies at varying ethanol concentrations propose that the partitioning of ethanol depends on its concentration, implying that the partitioning is a nonideal process. To gain further insight into the permeation of alcohols and their influence on lipid dynamics, we also employed molecular dynamics simulations to quantify kinetic events associated with the permeation of alcohols across a membrane, and to characterize the rotational and lateral diffusion of lipids and alcohols in these systems. The simulation results are in agreement with available experimental data and further show that alcohols have a small but non-vanishing effect on the dynamics of lipids in a membrane. The influence of ethanol on the lateral pressure profile of a lipid bilayer is found to be prominent: ethanol reduces the tension at the membrane-water interface and reduces the peaks in the lateral pressure profile close to the membrane-water interface. The changes in the lateral pressure profile are several hundred atmospheres. This supports the hypothesis that anesthetics may act by changing the lateral pressure profile exerted on proteins embedded in membranes.
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Affiliation(s)
- Emma Terama
- International Institute for Applied Systems Analysis, Schlossplatz 1, A-2361 Laxenburg, Austria
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Takajo Y, Matsuki H, Kaneshina S, Aratono M, Yamanaka M. Miscibility and interaction between 1-alkanol and short-chain phosphocholine in the adsorbed film and micelles. Colloids Surf B Biointerfaces 2007; 59:52-8. [PMID: 17560093 DOI: 10.1016/j.colsurfb.2007.04.005] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/17/2007] [Revised: 04/09/2007] [Accepted: 04/12/2007] [Indexed: 10/23/2022]
Abstract
The miscibility and interaction of 1-hexanol (C6OH) and 1-heptanol (C7OH) with 1,2-dihexanoyl-sn-glycero-3-phosphocholine (DHPC) in the adsorbed films and micelles were investigated by measuring the surface tension of aqueous C6OH-DHPC and aqueous C7OH-DHPC solutions. The surface density, the mean molecular area, the composition of the adsorbed film, and the excess Gibbs energy of adsorption g(H,E), were estimated. Further, the critical micelle concentration of the mixtures was determined from the surface tension versus molality curves; the micellar composition was calculated. The miscibility of the 1-alkanols and DHPC molecules in the adsorbed film and micelles was examined using the phase diagram of adsorption (PDA) and that of micellization (PDM). The PDA and the composition dependence of g(H,E) indicated the non-ideal mixing of the 1-alkanols and DHPC molecules due to the attractive interaction between the molecules in the adsorbed film, while the PDM indicated that the 1-alkanol molecules were not incorporated in the micelles within DHPC rich region. The dependence of the mean molecular area of the mixtures on the surface composition suggested that the packing property of the adsorbed film depends on the chain length of 1-alkanol: C6OH expands the DHPC adsorbed film more than C7OH.
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Affiliation(s)
- Yuichi Takajo
- Department of Chemistry, Faculty of Sciences, Kyushu University, 4-2-1 Ropponmatsu, Chuo-Ku, 810-8560 Fukuoka, Japan
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Nakano M, Fukuda M, Kudo T, Endo H, Handa T. Determination of interbilayer and transbilayer lipid transfers by time-resolved small-angle neutron scattering. PHYSICAL REVIEW LETTERS 2007; 98:238101. [PMID: 17677937 DOI: 10.1103/physrevlett.98.238101] [Citation(s) in RCA: 61] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/09/2007] [Indexed: 05/05/2023]
Abstract
We applied a time-resolved small-angle neutron scattering technique to the vesicle system of dimyristoylphosphatidylcholine for the first time to determine lipid kinetics. The observed kinetics could be explicitly represented by a simple model that includes two independent kinetic parameters, i.e., the rates of transbilayer and interbilayer exchange. This technique is perfectly suited for the determination of lipid exchange kinetics in equilibrium and applicable to evaluation of the activity of the factors relevant to lipid migration, such as translocase and lipid transfer proteins.
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Affiliation(s)
- Minoru Nakano
- Graduate School of Pharmaceutical Sciences, Kyoto University, Kyoto 606-8501, Japan.
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Pedersen UR, Peters GH, Westh P. Molecular packing in 1-hexanol–DMPC bilayers studied by molecular dynamics simulation. Biophys Chem 2007; 125:104-11. [PMID: 16887254 DOI: 10.1016/j.bpc.2006.07.005] [Citation(s) in RCA: 27] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2006] [Accepted: 07/12/2006] [Indexed: 12/20/2022]
Abstract
The structure and molecular packing density of a "mismatched" solute, 1-hexanol, in lipid membranes of dimyristoyl phosphatidylcholine (DMPC) was studied by molecular dynamics simulations. We found that the average location and orientation of the hexanol molecules matched earlier experimental data on comparable systems. The local density or molecular packing in DMPC-hexanol was elucidated through the average Voronoi volumes of all heavy (non-hydrogen) atoms. Analogous analysis was conducted on trajectories from simulations of pure 1-hexanol and pure (hydrated) DMPC bilayers. The results suggested a positive volume change, DeltaV(m), of 4 cm(3) mol(-1) hexanol partitioned at 310 K in good accordance with experimental values. Analysis of the apparent volumes of each component in the pure and mixed states further showed that DeltaV(m) reflects a balance between a substantial increase in the packing density of the alcohol upon partitioning and an even stronger loosening in the packing of the lipid. Furthermore, analysis of Voronoi volumes along the membrane normal identifies a distinctive depth dependence of the changes in molecular packing. The outer (interfacial) part of the lipid acyl chains (up to C8) is stretched by about 4%. Concomitantly, the average lateral area per chain decreases and these two effects compensate so that the overall packing density in the outer region, where the hexanol molecules are located, remains practically constant. The core of the bilayer (C9-C13) is slightly thinned. The average lateral area per chain in this region expands, resulting in a looser packing density. The net effect in the core is a 2-3% decrease in density corresponding to a total volume increase of approximately 14 cm(3) mol(-1) hexanol partitioned.
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Affiliation(s)
- Ulf R Pedersen
- Department of Life Sciences and Chemistry and MEMPHYS, Center for Biomembrane Physics, Roskilde University, 1 Universitetsvej, PO Box 260, DK-4000 Roskilde, Denmark
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Aagaard TH, Kristensen MN, Westh P. Packing properties of 1-alkanols and alkanes in a phospholipid membrane. Biophys Chem 2006; 119:61-8. [PMID: 16223560 DOI: 10.1016/j.bpc.2005.09.003] [Citation(s) in RCA: 42] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2005] [Revised: 09/11/2005] [Accepted: 09/12/2005] [Indexed: 11/26/2022]
Abstract
We have used vibrating tube densitometry to investigate the packing properties of four alkanes and a homologous series of ten alcohols in fluid-phase membranes of dimyristoyl phosphatidylcholine (DMPC). It was found that the volume change of transferring these compounds from their pure states into the membrane, DeltaV(m)(pure-->mem), was positive for small (C4-C6) 1-alkanols while it was negative for larger alcohols and all alkanes. The magnitude of DeltaV(m)(pure-->mem) ranged from about +4 cm3/mol for alcohols with an alkyl chain about half the length of the fatty acids of DMPC, to -10 to -15 cm3/mol for the alkanes and long chain alcohols. On the basis of these observations, previously published information on the structure of the membrane-solute complexes and the free volume properties of (pure) phospholipid membranes, we suggest that two effects dominate the packing properties of hydrophobic solutes in DMPC. First, perturbation of the tightly packed interfacial zone around the ester bonds and first few methylene groups of DMPC brings about a positive contribution to DeltaV(m)(pure-->mem). This effect dominates the volume behavior for alcohols like 1-butanol, 1-pentanol and 1-hexanol. More hydrophobic solutes penetrate into the membrane core, which is loosely packed. In this region, they partially occupy interstitial (or free-) volume, which bring about a denser molecular packing and generate a negative contribution to DeltaV(m)(pure-->mem).
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Affiliation(s)
- Thomas H Aagaard
- Department of Life Science and Chemistry, Roskilde University PO Box 260, DK-4000 Roskilde, Denmark
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Wang L, Schönhoff M, Möhwald H. Swelling of Polyelectrolyte Multilayer-Supported Lipid Layers. 1. Layer Stability and Lateral Diffusion. J Phys Chem B 2004. [DOI: 10.1021/jp036413e] [Citation(s) in RCA: 20] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Affiliation(s)
- Liying Wang
- Max-Planck Institute of Colloids and Interfaces, D-14424 Potsdam/Golm, Germany
| | - Monika Schönhoff
- Max-Planck Institute of Colloids and Interfaces, D-14424 Potsdam/Golm, Germany
| | - Helmuth Möhwald
- Max-Planck Institute of Colloids and Interfaces, D-14424 Potsdam/Golm, Germany
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Santos NC, Prieto M, Castanho MARB. Quantifying molecular partition into model systems of biomembranes: an emphasis on optical spectroscopic methods. BIOCHIMICA ET BIOPHYSICA ACTA 2003; 1612:123-35. [PMID: 12787930 DOI: 10.1016/s0005-2736(03)00112-3] [Citation(s) in RCA: 208] [Impact Index Per Article: 9.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Optical spectroscopies have been intensively used to determine partition coefficients by a plethora of methodologies. The present review is intended to give detailed and useful information for the determination of partition coefficients and addresses several relevant aspects, namely: (i) definition and calculation of the partition coefficient between aqueous and lipidic phases; (ii) partition coefficients vs. "binding" formalisms; (iii) advantages of spectroscopic methodologies over separation techniques; (iv) formalisms for various experimental approaches based on UV-Vis absorption or fluorescence parameters (fluorescence intensity, lifetime, anisotropy and quenching); (v) experimental hints, artifacts and model limitations; and (vi) a brief survey of nonoptical techniques.
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Affiliation(s)
- Nuno C Santos
- Instituto de Bioquímica, Faculdade de Medicina de Lisboa, Av. Prof. Egas Moniz, 1649-028 Lisbon, Portugal
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