Search results for "Quantitative Biology"
showing 10 items of 1025 documents
Local dynamics in supramolecular polymer networks probed by magnetic particle nanorheology
2019
Transient supramolecular polymer networks are promising candidates as soft self-healing or stimuli-sensitive materials. In this paper, we employ a novel nanorheological approach, magnetic particle nanorheology (MPN), in order to better understand the local dynamic properties of model supramolecular networks from a molecular point of view. Hence, the bond strength between four-arm star-shaped polyethylene glycol (PEG) functionalized at the four extremities with terpyridine ligands is tuned by implementing different metal ions with variable complexation affinities for the ligand. We show that MNP allows for the evaluation of the strength and connectivity of the polymer networks by the estimat…
Mechanical Properties of Single Molecules and Polymer Aggregates
2013
This chapter deals with the mechanical properties of single polymer chains, aggregates, and supramolecular complexes. The topics discussed cover a broad range from fundamental statistical mechanics of the equilibrium elastic properties of single polymer chains to details of the behavior of binding pockets in biomolecular assemblies as observed by force spectroscopy. The first section treats the equilibrium mechanical properties of single polymer chains in various environments, investigated via extensive simulations employing coarse-grained models that have proven extremely successful in many branches of polymer physics, namely the bond-fluctuation model and the self-avoiding walk model. Apa…
Microscopic verification of dynamic scaling in dilute polymer solutions: A molecular-dynamics simulation
1991
The dynamics of a single polymer chain immersed in a large number of solvent particles is studied by molecular dynamics. This is the first simulation where chain length (30, 40, and 60 monomers) and statistical accuracy are sufficient to test the predictions of the Zimm model as a result of the particle-particle interactions: The short-time diffusion constant is in good agreement with the Kirkwood prediction, and the monomer motions exhibit the expected dynamic scaling. The long-range hydrodynamic interaction requires a data analysis that explicitly includes the periodic images via Ewald sums.
Bending of flexible magnetic rods.
2004
The flexible inextensible magnetic rod model is applied for the study of bending and buckling deformations of the paramagnetic particle chains linked by polymer molecules. It is shown that the existing experimental results can be reasonably well described by this model which takes into account the normal magnetic forces arising at chain bending deformation. By matching the experimentally observed shapes with our numerical simulation results different physical properties of the linked paramagnetic particle chains are determined.
Anomalous Diffusion and Relaxation of Collapsed Polymer Chains
1994
Time-dependent displacement of monomers and the centre-of-gravity motion of a polymer chain at various temperatures below the theta-temperature are studied by Monte Carlo simulation of an off-lattice model. While inner monomers diffuse Rouse-like, [ri(t) − ri(0)]2 t1/2, the centre of mass exhibits pronounced anomalous diffusion, [rc.m.(t) − rc.m.(0)]2 ta, where the exponent a seems to depend on temperature. The resulting anomalous dependence of the relaxation times on chain length is discussed in terms of scaling ideas. A possible relation to a glasslike freezing in of the collapsed globules is pointed out.
Counterion-mediated attraction and kinks on loops of semiflexible polyelectrolyte bundles.
2006
The formation of kinks in a loop of bundled polyelectrolyte filaments is analyzed in terms of the thermal fluctuations of charge density due to polyvalent counterions adsorbed on the polyelectrolyte filaments. It is found that the counterion-mediated attraction energy of filaments depends on their bending. By consideration of curvature elasticity energy and counterion-mediated attraction between polyelectrolyte filaments, the characteristic width of the kink and the number of kinks per loop is found to be in reasonable agreement with existing experimental data for rings of bundled actin filaments.
Structural properties of concave cylindrical brushes interacting with free chains
2011
We present a self-consistent field theoretical study of the microstructure of concave cylindrical brushes as a function of the cylinder radius, grafting density, grafted chain length, and the solvent quality. We show that the results for the radial monomer density profile and the distribution of the free ends are in good agreement with the corresponding molecular dynamics results. Part of the investigation is focused on the conformational behavior of a free macromolecule in a cylindrical brush. A central result is the observed non-monotonous variation of the size of a free chain in a brush-coated tube when the tube radius is systematically changed. An interpretation of this behavior which d…
Scaling concepts for polymer brushes and their test with computer simulation
2004
After a brief review of the scaling concepts for static and dynamic properties of polymer brushes in good solvents and Theta solvents, the Monte Carlo evidence is discussed. It is shown that under typical conditions the diameter of the last blob is of the order of 10-20% of the brush height, and therefore pronounced deviations from the self-consistent field predictions occur. In bad solvents, lateral microphase separation occurs leading to an irregular pattern of "dimples". Particularly interesting is the response of brushes to shear deformation, and the interaction between two interpenetrating brushes. Recent attempts to understand the resulting shear forces via molecular-dynamics simulati…
Interactions between polymer brush-coated spherical nanoparticles: the good solvent case.
2011
The interaction between two spherical polymer brushes is studied by molecular dynamics simulation varying both the radius of the spherical particles and their distance, as well as the grafting density and the chain length of the end-grafted flexible polymer chains. A coarse-grained bead-spring model is used to describe the macromolecules, and purely repulsive monomer-monomer interactions are taken throughout, restricting the study to the good solvent limit. Both the potential of mean force between the particles as a function of their distance is computed, for various choices of the parameters mentioned above, and the structural characteristics are discussed (density profiles, average end-to…
Elastic properties of polymer interfaces: Aggregation of pure diblock, mixed diblock, and triblock copolymers
2002
Block copolymers adsorbing to an interface between two immiscible homopolymers modify the elastic constants of this interface. Within self-consistent field calculations for Gaussian chains, we determine how the bending constants vary in dependence on the block copolymer concentration and architecture. Four phenomena are discussed. (i) When a tricritical or isotropic Lifshitz critical point is approached in a ternary mixture by varying the concentration of diblock copolymers or changing temperature, the elastic constants vanish. We determine the corresponding power laws, and show that the de Gennes--Taupin criterium for the stability of lamellar phases against undulations and the Ginzburg-La…