Effect of simulation temperature on phospholipid bilayer–vesicle transition studied by coarse-grained molecular dynamics simulations
نویسنده
چکیده
Computer simulations of the spontaneous self-assembly of phospholipid vesicles (liposomes) have found a bicelle intermediate which curls up into a vesicle. Although coarse-grained (or intermediate-resolution) molecular dynamics simulation studies have been conducted at intermediate (323 K) to high (360 K) temperatures, it is unclear if there exists an ‘optimal’ temperature that accelerates the bicelle-to-vesicle transition process yet do not cause large deviation of structural properties as observed from simulations at the lower temperatures. Further, use of a lipid mixture that includes a certain fraction of lipids preferring negative curvature (such as dipalmitoylphosphatidylethanolamine or DPPE) has been shown to again accelerate the transition. But what is the interplay of the temperature and DPPE ratio in accelerating the transition? By conducting a systematic study of simulation temperatures (323 K, 330 K, 340 K, 350 K, 360 K, 380 K, and 400 K) and DPPE percentages (0, 10, 20, and 27) for dipalmitoylphosphatidylcholine (DPPC) bicelles, I found that 340 K and 10% DPPE would give a DPPC : DPPE vesicle (<20 nm diameter) with structural properties close to the reference state (pure DPPC vesicle at 323 K) but at a much reduced computational cost (about 12 lower). This simulation finding has implications in the acceleration of coarse-grained molecular dynamics simulations of large unilamellar vesicles (50–500 nm diameter) for drug delivery applications.
منابع مشابه
Molecular Dynamics Simulations of Freezing Behavior of Pure Water and 14% Water-NaCl Mixture Using the Coarse-Grained Model
We performed molecular dynamics simulations using the coarse-grained model to study the freezing behavior of pure water and 14% water-salt mixture in a wide range of temperatures for a very long time around 50 nanoseconds. For the salty water, an interface in nanoscale was used. For both systems, the f...
متن کاملMolecular dynamics simulation of interaction of Melittin and DMPC bilayer: Temperature dependence
The interaction between proteins and membranes has an important role in biological pro-cesses.We have calculated energies of interaction between Melittin and DMPC bilayer in differenttemperatures. We have used the CHARMM software for MD simulation under the canonical (N,V, E) ensemble at different temperatures. The computations have shown that water moleculeshave more penetration into the bilay...
متن کاملCoarse-grained model for phospholipid/cholesterol bilayer employing inverse Monte Carlo with thermodynamic constraints.
The authors introduce a coarse-grained (CG) model for a lipid membrane comprised of phospholipids and cholesterol at different molar concentrations, which allows them to study systems that are approximately 100 nm in linear size. The systems are studied in the fluid phase above the main transition temperature. The effective interactions for the CG model are extracted from atomic-scale molecular...
متن کاملSpontaneous buckling of lipid bilayer and vesicle budding induced by antimicrobial peptide magainin 2: a coarse-grained simulation study.
Molecular mechanisms of the action of antimicrobial peptides on bacterial membranes were studied by large scale coarse-grained simulations of magainin 2-dipalmitoylphosphatidylcholine/palmitoyloleoylphosphatidylglycerol (DPPC/POPG) mixed bilayer systems with spatial extents up to 0.1 μm containing up to 1600 peptides. Equilibrium simulations exhibit disordered toroidal pores stabilized by pepti...
متن کاملCoarse Grained Molecular Dynamics Simulation of Interaction between Hemagglutinin Fusion Peptides and Lipid Bilayer Membranes
Microscopic level interaction between fusion-peptides and lipid bilayer membranes plays a crucial role in membrane fusion, a key step of viral infection. In this paper, we use coarse-grained molecular dynamics (CGMD) simulations to study the interaction between hemagglutinin fusion-peptides and phospholipid bilayer membranes. With CGMD, we are able to simulate the interaction of fusion peptides...
متن کاملذخیره در منابع من
با ذخیره ی این منبع در منابع من، دسترسی به آن را برای استفاده های بعدی آسان تر کنید
عنوان ژورنال:
دوره شماره
صفحات -
تاریخ انتشار 2013