Related papers: Void distributions reveal structural link between …
Numerous experiments demonstrate a high level of promiscuity and structural disorder in organismal proteomes. Here we ask the question what makes a protein promiscuous, i.e., prone to non-specific interactions, and structurally disordered.…
We use a simple fragmentation model to describe the statistical behavior of the Voronoi cell patterns generated by a set of points in 1D and in 2D. In particular, we are interested in the distribution of sizes of these Voronoi cells. Our…
Interactions between an edge dislocation and a void in copper are investigated by means of molecular dynamics simulation. The depinning stresses of the leading partial and of the trailing partial show qualitatively different behaviors. The…
Rigid particles pack into structures, such as sand dunes on the beach, whose overall stability is determined by the average number of contacts between particles. However, when packing spatially extended objects with flexible shapes,…
Despite being used for decades as stabilizers, amino acids (AAs) remain mysterious components of many medical and biological formulations. Hypotheses on their role vary ranging from hydrotropic to protein-specific effects (stabilization…
Obtaining general relations between macroscopic properties of random assemblies, such as density, and the microscopic properties of their constituent particles, such as shape, is a foundational challenge in the study of amorphous materials.…
We study the self-organization of spherical particles in an oscillating flow through experiments inside an oscillating box. The interactions between the particles and the time-averaged (steady streaming) flow lead to the formation of either…
Spatial self-similarity is a hallmark of critical phenomena. We investigate the dynamic process of percolation, in which bonds are incrementally inserted to an empty lattice until fully occupied, and track the gaps describing the changes in…
A collection of spherical particles can be packed tightly together into an amorphous packing known as "random close packing" (RCP). This structure is of interest as a model for the arrangement of molecules in simple liquids and glasses, as…
Proteins tend to bury hydrophobic residues inside their core during the folding process to provide stability to the protein structure and to prevent aggregation. Nevertheless, proteins do expose some 'sticky' hydrophobic residues to the…
The present paper presents an experimental and numerical investigation of the dispersion of the gaseous jet flow and co-flow for the simple unit cell (SUC) and body centered cubic (BCC) configuration of particles in packed beds. The…
The elastic properties of a material with spherical voids of equal volume are analysed using a new model, with particular attention paid to the hexagonal close-packed and the face-centred cubic arrangement of voids. Void fractions well…
We analyse structure and dynamics in simulated high-concentration hard sphere colloidal suspensions by means of calculations based on the void space. We show that remoteness, a quantity measuring the scale of spaces, is useful in studying…
We measure the two-point density correlations and Voronoi cell distributions of cyclically sheared granular spheres obtained with a fluorescence technique and compare them with random packing of frictionless spheres. We find that the radial…
We develop coarse-grained models that describe the dynamic encapsidation of functionalized nanoparticles by viral capsid proteins. We find that some forms of cooperative interactions between protein subunits and nanoparticles can…
We consider dense random packing of disks with a power-law distribution of radii and investigate their correlation properties. We study the corresponding structure factor, mass-radius relation and pair distribution function of the disk…
The intricate three-dimensional geometries of protein tertiary structures underlie protein function and emerge through a folding process from one-dimensional chains of amino acids. The exact spatial sequence and configuration of amino…
During directional solidification of the solvent in a colloidal suspension, the colloidal particles segregate from the growing solid, forming high-particle-density regions with structure on a hierarchy of length scales ranging from that of…
Despite recent breakthroughs in understanding how protein sequence relates to structure and function, considerably less attention has been paid to the general features of protein surfaces beyond those regions involved in binding and…
We show that gels formed by arrested spinodal decomposition of protein solutions exhibit elastic properties in two distinct frequency domains, both elastic moduli exhibiting a remarkably strong dependence on volume fraction. Considering the…