Protein Aggregation at Solid/liquid Interfaces: a Monte Carlo Study with Explicit and Implicit Solvent Effects
Title | Protein Aggregation at Solid/liquid Interfaces: a Monte Carlo Study with Explicit and Implicit Solvent Effects PDF eBook |
Author | Rehman Fazeem |
Publisher | |
Pages | 185 |
Release | 2013 |
Genre | Amyloid beta-protein |
ISBN |
"Metropolis Monte Carlo (MC) simulations were performed with positively charged peptides in aqueous solution to study changes in peptide conformations at solid/liquid interface, and its effects on protein aggregation. Intermediate-resolution diblock model peptide, comprising of 10 units of ALA (non-polar) and LYS (polar) amino acid residues, was used for the simulations. In the first approach to modeling, solvent effects were considered explicitly. The explicit model was then used to study two peptide molecules, in helical structure, at solid/liquid interface. In order to increase the number of peptide molecules in the simulation box, with reduced computational cost, an implicit solvent model was developed with nonadditive hydrogen bonding and hydrophobic interaction potentials. The implicit model was used to simulate two peptides of helical structure at charged surfaces (to compare with the explicit model), and ten peptides of random coil structure with and without charged surfaces. The peptides were observed to always move towards the negatively charged surface and orient with residues of complimentary charge settling close to the surface, maximizing the electrostatic interactions. On reaching the surface, the peptides partially lose their secondary structure and clusters around the hydrophobic ends; this restructuring and dehydration of the peptides provides the entropic drive for adsorption and subsequent misfolding events. The 2- peptide-water-surface system in explicit model was also simulated with periodic switching of surface charge polarity, to induce a "shaking effect" in order to observe possible peptide configurational changes"--Abstract, page iii.
Proteins at Solid-Liquid Interfaces
Title | Proteins at Solid-Liquid Interfaces PDF eBook |
Author | Philippe Déjardin |
Publisher | Springer |
Pages | 330 |
Release | 2006-08-23 |
Genre | Science |
ISBN | 9783540326571 |
Monte Carlo Simulations of Protein Structure and Aggregation
Title | Monte Carlo Simulations of Protein Structure and Aggregation PDF eBook |
Author | |
Publisher | |
Pages | 76 |
Release | 1996 |
Genre | |
ISBN |
A Monte Carlo Study of Aggregation Effects on Regression Parameter Estimates
Title | A Monte Carlo Study of Aggregation Effects on Regression Parameter Estimates PDF eBook |
Author | Edwin Kuh |
Publisher | |
Pages | 32 |
Release | 1977 |
Genre | |
ISBN |
Studies of Solvent Effects by Reaction Field Theory and Monte Carlo Simulation
Title | Studies of Solvent Effects by Reaction Field Theory and Monte Carlo Simulation PDF eBook |
Author | Carmen Medina Llanos |
Publisher | |
Pages | 40 |
Release | 1988 |
Genre | Monte Carlo method |
ISBN | 9789155422431 |
Dissertation Abstracts International
Title | Dissertation Abstracts International PDF eBook |
Author | |
Publisher | |
Pages | 906 |
Release | 2008 |
Genre | Dissertations, Academic |
ISBN |
Monte Carlo Study of Colloidal Structure Formation at Fluid Interfaces
Title | Monte Carlo Study of Colloidal Structure Formation at Fluid Interfaces PDF eBook |
Author | Tim Meiler |
Publisher | |
Pages | |
Release | 2018 |
Genre | |
ISBN |