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Ira R Cooke

Publications and source records attributed to Ira R Cooke.

3 recordsLinked to original sources

Coupling between lipid shape and membrane curvature.

Using molecular dynamics simulations, we examine the behavior of lipids whose preferred curvature can be systematically varied. This curvature is imposed by controlling the headgroup size of a coarse-grained lipid model recently developed by us. To validate this approach, we examine self-assembly of each individual lipid type and observe the complete range of expected bilayer and micelle phases. We then examine binary systems consisting of lipids with positive and negative preferred curvature and find a definite sorting effect. Lipids with positive preferred curvature are found in greater proportions in outer monolayers with the opposite observed for lipids with negative preferred curvature. We also observe a similar, but slightly stronger effect for lipids in a developing spherical bud formed by adhesion to a colloid (e.g., a viral capsid). Importantly, the magnitude of this effect in both cases was large only for regions with strong mean curvature (radii of curvature <10 nm). Our results suggest that lipid shape must act in concert with other physico-chemical effects such as phase transitions or interactions with proteins to produce strong sorting in cellular pathways.

Colloids↗

Solvent-free model for self-assembling fluid bilayer membranes: stabilization of the fluid phase based on broad attractive tail potentials.

We present a simple and highly adaptable method for simulating coarse-grained lipid membranes without explicit solvent. Lipids are represented by one head bead and two tail beads, with the interaction between tails being of key importance in stabilizing the fluid phase. Two such tail-tail potentials were tested, with the important feature in both cases being a variable range of attraction. We examined phase diagrams of this range versus temperature for both functional forms of the tail-tail attraction and found that a certain threshold attractive width was required to stabilize the fluid phase. Within the fluid-phase region we find that material properties such as area per lipid, orientational order, diffusion constant, interleaflet flip-flop rate, and bilayer stiffness all depend strongly and monotonically on the attractive width. For three particular values of the potential width we investigate the transition between gel and fluid phases via heating or cooling and find that this transition is discontinuous with considerable hysteresis. We also investigated the stretching of a bilayer to eventually form a pore and found excellent agreement with recent analytic theory.

Biophysics↗

Tunable generic model for fluid bilayer membranes.

We present a model for the efficient simulation of generic bilayer membranes. Individual lipids are represented by one head bead and two tail beads. By means of simple pair potentials these robustly self-assemble to a fluid bilayer state over a wide range of parameters, without the need for an explicit solvent. The model shows the expected elastic behavior on large length scales, and its physical properties (e.g., fluidity or bending stiffness) can be widely tuned via a single parameter. In particular, bending rigidities in the experimentally relevant range are obtained, at least within 3-30 k(B) T. The model is naturally suited to study many physical topics, including self-assembly, fusion, bilayer melting, lipid mixtures, rafts, and protein-bilayer interactions.

Journal Article↗