Global analysis of the ground-state wrapping conformation of a charged polymer on an oppositely charged nano-sphere

Critical adsorption of multiple polyelectrolytes onto a nanosphere: splitting the adsorption-desorption transition boundary

Employing extensive Monte Carlo computer simulations, we investigate in detail the properties of multichain adsorption of charged flexible polyelectrolytes (PEs) onto oppositely charged spherical nanoparticles (SNPs). We quantify the conditions of critical adsorption-the phase-separation curve between the adsorbed and desorbed states of the PEs-as a function of the SNP surface-charge density and the concentration of added salt. We study the degree of fluctuations of the PE-SNP electrostatic binding energy, which we use to quantify the emergence of the phase subtransitions, including a series of partially adsorbed PE configurations. We demonstrate how the phase-separation adsorption-desorption boundary shifts and splits into multiple subtransitions at low-salt conditions, thereby generalizing and extending the results for critical adsorption of a single PE onto the SNP. The current findings are relevant for finite concentrations of PEs around the attracting SNP, such as the conditions for PE adsorption onto globular proteins carrying opposite electric charges.

Critical adsorption of periodic and random polyampholytes onto charged surfaces

How different are the properties of critical adsorption of polyampholytes and polyelectrolytes onto charged surfaces? How important are the details of polyampholyte charge distribution on the onset of critical adsorption transition? What are the scaling relations governing the dependence of critical surface charge density on salt concentration in the surrounding solution? Here, we employ Metropolis Monte Carlo simulations and uncover the scaling relations for critical adsorption for quenched periodic and random charge distributions along the polyampholyte chains. We also evaluate and discuss the dependence of the adsorbed layer width on solution salinity and details of the charge distribution. We contrast our findings to the known results for polyelectrolyte adsorption onto oppositely charged surfaces, in particular, their dependence on electrolyte concentration.

Conformational properties of block-polyampholytes adsorbed on charged cylindrical surfaces

Polyampholytes are polymers that have positive and negative monomers along their chain. The adsorption of polyampholytes on charged surfaces has been the subject of a large number of theoretical, computational and experimental studies due to its importance in a variety of bio and nanothechnological systems. However, computational studies focusing on interaction between polyampholytes and cylindrical charged surfaces are rather scarce. This study, therefore, aims to investigate the conformational properties of block-polyampholytes in the presence of a negatively charged cylinder by means of Metropolis Monte Carlo simulations. Adopting a simplified model in which the electrolyte solution is treated at the Debye-Hückel level, the effects of the ionic strength, the linear charge density of the cylinder and the block length on monomers distributions have been investigated. It was found that increasing the salt concentration promotes a transition from a conformation characterized by large loops to a necklace-like conformation parallel to the surface. It was also shown that, at low cylinder charge density, the increase in salt concentration and the length of the blocks lead to a change in the orientation of the adsorbed chain.

Inverted critical adsorption of polyelectrolytes in confinement

What are the fundamental laws for the adsorption of charged polymers onto oppositely charged surfaces, for convex, planar, and concave geometries? This question is at the heart of surface coating applications, various complex formation phenomena, as well as in the context of cellular and viral biophysics. It has been a long-standing challenge in theoretical polymer physics; for realistic systems the quantitative understanding is however often achievable only by computer simulations. In this study, we present the findings of such extensive Monte-Carlo in silico experiments for polymer-surface adsorption in confined domains. We study the inverted critical adsorption of finite-length polyelectrolytes in three fundamental geometries: planar slit, cylindrical pore, and spherical cavity. The scaling relations extracted from simulations for the critical surface charge density σc-defining the adsorption-desorption transition-are in excellent agreement with our analytical calculations based on the ground-state analysis of the Edwards equation. In particular, we confirm the magnitude and scaling of σc for the concave interfaces versus the Debye screening length 1/κ and the extent of confinement a for these three interfaces for small κa values. For large κa the critical adsorption condition approaches the known planar limit. The transition between the two regimes takes place when the radius of surface curvature or half of the slit thickness a is of the order of 1/κ. We also rationalize how σc(κ) dependence gets modified for semi-flexible versus flexible chains under external confinement. We examine the implications of the chain length for critical adsorption-the effect often hard to tackle theoretically-putting an emphasis on polymers inside attractive spherical cavities. The applications of our findings to some biological systems are discussed, for instance the adsorption of nucleic acids onto the inner surfaces of cylindrical and spherical viral capsids.

Inferring coarse-grain histone-DNA interaction potentials from high-resolution structures of the nucleosome

The histone-DNA interaction in the nucleosome is a fundamental mechanism of genomic compaction and regulation, which remains largely unknown despite increasing structural knowledge of the complex. In this paper, we propose a framework for the extraction of a nanoscale histone-DNA force-field from a collection of high-resolution structures, which may be adapted to a larger class of protein-DNA complexes. We applied the procedure to a large crystallographic database extended by snapshots from molecular dynamics simulations. The comparison of the structural models first shows that, at histone-DNA contact sites, the DNA base-pairs are shifted outwards locally, consistent with locally repulsive forces exerted by the histones. The second step shows that the various force profiles of the structures under analysis derive locally from a unique, sequence-independent, quadratic repulsive force-field, while the sequence preferences are entirely due to internal DNA mechanics. We have thus obtained the first knowledge-derived nanoscale interaction potential for histone-DNA in the nucleosome. The conformations obtained by relaxation of nucleosomal DNA with high-affinity sequences in this potential accurately reproduce the experimental values of binding preferences. Finally we address the more generic binding mechanisms relevant to the 80% genomic sequences incorporated in nucleosomes, by computing the conformation of nucleosomal DNA with sequence-averaged properties. This conformation differs from those found in crystals, and the analysis suggests that repulsive histone forces are related to local stretch tension in nucleosomal DNA, mostly between adjacent contact points. This tension could play a role in the stability of the complex.

Electrostatic effect of H1-histone protein binding on nucleosome repeat length

Within a simple biophysical model we describe the effect of electrostatic binding of H1 histone proteins on the nucleosome repeat length in chromatin. The length of wrapped DNA optimizes its binding energy to the histone core and the elastic energy penalty of DNA wrapping. The magnitude of the effect predicted from our model is in agreement with the systematic experimental data on the linear variation of nucleosome repeat lengths with H1/nucleosome ratio (Woodcock C L et al 2006 Chromos. Res. 14 17-25). We compare our model to the data for different cell types and organisms, with a widely varying ratio of bound H1 histones per nucleosome. We underline the importance of this non-specific histone-DNA charge-balance mechanism in regulating the positioning of nucleosomes and the degree of compaction of chromatin fibers in eukaryotic cells.

Micellar structures in nanoparticle-multiblock copolymer complexes

Brownian dynamics simulation is employed to examine the structure changes of complexes composed of a hydrophobic nanoparticle and a multiblock copolymer molecule (MCP). The dependence of the structure transitions on the radius of the nanoparticle, on the interactions between the hydrophobic segments of the MCP, and on the interactions between the hydrophobic segments and hydrophobic nanoparticle is examined. It is shown that the multiblock copolymer adsorbed on a nanoparticle can acquire the structure of a micelle.To better characterize the micelle generated and the structure changes in the nanoparticle-MCP complex, the mass dipole moment of the complex [the distance between the center of mass of MCP and the center of the nanoparticle minus the radius of the nanoparticle (DCC)], the density profiles of MCP segments around its center of mass and around the nanoparticle, the radius of gyration of the MCP, and the thickness of the micelle around the nanoparticle are determined. It was found that, when structural transition of the complex occurs, the above quantities change dramatically. The present simulation may provide new insights regarding the drug-loaded micelle interacting with a virus represented by a nanoparticle.

Critical adsorption of polyelectrolytes onto charged Janus nanospheres

The conditions of critical polyelectrolyte adsorption onto spherical charged Janus nano-particles are exploited by Monte-Carlo computer simulations and theoretically.