Using Packing Defects in Heterogeneous Biological Membrane as a Lens to Explore Protein Localization Propensity and Small Molecule Permeability

Abstract

Plasma membrane (PM) heterogeneity has long been implicated in various cellular functions. However, mechanistic principles governing functional regulations of lipid environment is not well understood due to the inherent complexities associated with the relevant length and time scales that limit both direct experimental measurements and their interpretation. In this context, computer simulation holds immense potential to investigate molecular-level interactions that lead to PM heterogeneity and the related functions. Herein, we investigate spatial and dynamic heterogeneity in model membranes with coexisting liquid ordered and liquid disordered phases and characterize the membrane order in terms of the topological changes in lipid local environment using the non-affine parameter (NAP) frame-work. Furthermore, we probe the packing defects in membrane with coexisting fluid phases, which can be considered as the conjugate of membrane order assessed in terms of the NAP. In doing so, we formalize the connection between membrane packing and local membrane order and use that to explore the mechanistic principles behind preferential localization of proteins in mixed phase membranes and membrane permeability of small molecules. Our observations suggest that heterogeneity in mixed phase membranes follow some generic features, where functions may arise based on packing-related basic design principles. SignificanceFunctionally important complex lateral and transverse structures in biological membrane result from the differential molecular interactions among a rich variety of lipids and other building blocks. The nature of molecular packing in membrane is a manifestation of these interactions. In this work, using some of the ideas from the Physics of amorphous materials and glasses, we quantify the correlation between heterogeneous membrane organization and the three dimensional packing defects. Subsequently, we investigate the packing-based molecular design-level features that drive preferential localization of peptides in heterogeneous membrane and membrane permeation of small molecules.