Search results for "Biomolecule"

Structure and dynamics of amorphous polymers: computer simulations compared to experiment and theory

2004

This contribution considers recent developments in the computer modelling of amorphous polymeric materials. Progress in our capabilities to build models for the computer simulation of polymers from the detailed atomistic scale up to coarse-grained mesoscopic models, together with the ever-improving performance of computers, have led to important insights from computer simulations into the structural and dynamic properties of amorphous polymers. Structurally, chain connectivity introduces a range of length scales from that of the chemical bond to the radius of gyration of the polymer chain covering 2–4 orders of magnitude. Dynamically, this range of length scales translates into an even larg…

KINETICS OF POLYMER EJECTION FROM CAPSID CONFINEMENT: SCALING CONSIDERATIONS AND COMPUTER EXPERIMENT

2012

We investigate the ejection dynamics of a flexible polymer chain out of confined environment by means of scaling considerations and Monte Carlo simulations. Situations of this kind arise in different physical contexts, including a flexible synthetic polymer partially confined in a nanopore and a viral genome partially ejected from its capsid. In the case of cylindric confinement the entropic driving force which pulls the chain out of the pore is argued to be constant once a few persistent lengths are out of the pore. We demonstrate that in this case the ejection dynamics follows a [Formula: see text]-law with elapsed time t. The mean ejection time τ depends nonmonotonically on chain length…

Counterion-Mediated Crossing of the Cyanine Limit in Crystals and Fluid Solution: Bond Length Alternation and Spectral Broadening Unveiled by Quantum…

2020

Absorption spectra of cyanine⊕·Br⊖ salts show a remarkable solvent dependence in non/polar solvents, exhibiting narrow, sharp band shapes in dichloromethane but broad features in toluene; this chan...

Halogen bonding enhances nonlinear optical response in poled supramolecular polymers

2015

We demonstrate that halogen bonding strongly enhances the nonlinear optical response of poled supramolecular polymer systems. We compare three nonlinear optical chromophores with similar electronic structures but different bond-donating units, and show that both the type and the strength of the noncovalent interaction between the chromophores and the polymer matrix play their own distinctive roles in the optical nonlinearity of the systems. acceptedVersion Peer reviewed

Pulling Single Adsorbed Bottle-Brush Polymers off a Flat Surface: A Monte Carlo Simulation

2013

Force versus extension behavior of flexible chains and semiflexible bottle-brush polymers adsorbed from a good solvent on a planar substrate is studied by Monte Carlo simulation of the bond fluctua...

Modification of Polymers in Supercritical Carbon Dioxide

2003

The interaction of scFluids and polymers are governed by the intermolecular forces between solvent-solvent, solvent-polymer segment, and polymer segment-segment pairs. Because of its symmetry, within reasonable pressure values, CO2 does not have a dipole moment, but it does have a quadrupole moment significant over a much shorter distance than dipolar interactions. The quadrupole moment and the Lewis acidity of CO2 imparts to the carbon dioxide the peculiarity to be a solvent for selected classes of polymers like perfluorinated polyacrylates, polysiloxanes and polyether-polycarbonate diblock copolymers [1–3].

1988

The unperturbed dimensions parameter KΘ is one of the most important characteristics of a polymer chain. For binary systems (polymer/solvent) and mostly for ternary systems (polymer/solvent(1)/solvent(2)) the KΘ values show large discrepancies with respect to those under thetaconditions in a single solvent. These discrepancies can be explained by considering that the interaction parameter χ (and consequently the coil dimensions or the number of intramolecular contacts between polymer segments) changes with molecular weight M. Assuming this dependency, a modified Stockmayer-Fixman equation is proposed from which a unique value of KΘ for a given polymer, independent of M, is obtained. The use…

Anomalous diffusion in polymer melts

2002

Abstract We present a study of the anomalous diffusion regimes in polymer melt dynamics performing a Monte Carlo (MC) simulation of the bond-fluctuation lattice model. Special emphasis is laid on the crossover from a Rouse-like motion to the behavior predicted by reptation theory. For the longest chains of N=400 the high statistical accuracy of the data allows for clear identification of the subdiffusive regimes in the center of mass motion and the monomer displacement. They are well compatible with those predicted by reptation theory. Furthermore a detailed analysis of the different short time anomalous diffusion regimes in the melt dynamics of polymer chains is presented and it is shown t…

Dipolar Relaxation in Functionalized Poly-p-phenylenes Bearing Ultrastrong Dipoles Perpendicular to the Backbone

2018

Local polymer dynamics are studied in polymers bearing dipoles rigidly attached to the backbone. The compounds are based on cyano-substituted dihydrobenzimidazoles bearing ultrastrong dipole moments (∼12 D per repeat unit) incorporated in a poly-p-phenylene backbone, giving rise to polymers with rigid dipoles perpendicular to the chain. They belong to type B polymers according to the Stockmayer classification. They are ideal model systems for studying rotational isomers in the gas phase and the self-assembly and local dynamics in the solid state. Gas phase calculations (DFT) provided the dipole moments, the energetic barriers, and the backbone conformation as a function of the dipole streng…

Interfaces in immiscible polymer blends: A Monte Carlo simulation approach on the CRAY T3E

1999

Polymeric materials pose a challenge for Monte Carlo simulations because of the widely spread length and time scales involved. Using large scale computer simulations we investigate the interfacial structure in a partially compatible polymer mixture. The problem is studied in the framework of a coarse grained lattice model - the bond fluctuation model on the simple cubic lattice, choosing N = 32 and lattice linear dimensions L × L × D up to 512 × 512 × 64. We employ a two dimensional geometric decomposition scheme to implement this algorithm on the CRAY T3E. The algorithm scales very well with the number of processors. The structure of polymer coils near interfaces between coexisting phases …