Self-assembling cyclic peptides: molecular dynamics studies of dimers in polar and nonpolar solvents

The self-assembly of cyclic D,L-alpha-peptides into hollow nanotubes is a crucial mechanistic step in their application as antibacterial and drug-delivery agents. To understand this process, molecular dynamics (MD) simulations were performed on dimers of cyclic peptides formed from cyclo [(-L-Trp-D-N-MeLeu-)4-]2 and cyclo [(-L-Trp-D-Leu-)4-]2 subunits in nonpolar (nonane) and polar (water) solvent. The dimers were observed to be stable only in nonpolar solvent over the full 10 ns length of the MD trajectory. The behavior of the dimers in different solvents is rationalized in terms of the intersubunit hydrogen bonding, hydrogen bonding with the solvent, and planarity of the rings. It is shown that the phi and psi dihedral angles of a single uncapped ring in nonane lie in the beta-sheet region of the Ramachandran plot, and the ring stays in a flat conformation. Steered MD (SMD) simulations based on Jarzynski's equality were performed to obtain the potential of mean force as a function of the distance between the two rings of the capped dimer in nonane. It is also shown that a single peptide subunit prefers to reside close to the nonane/water interface rather than in bulk solvent because of the amphiphilic character of the peptide ring. The present MD results build the foundation for using MD simulations to study the mechanism of the formation of cyclic peptide nanotubes in lipid bilayers.     

Efficient design of perovskite solar cell using mixed halide and copper oxide

Solar cells based on perovskites have emerged as a transpiring technology in the field of photovoltaic. These cells exhibit high power conversion efficiency. The perovskite material is observed to have good absorption in the entire visible spectrum which can be well illustrated by the quantum efficiency curve. In this paper, theoretical analysis has been done through device simulation for designing solar cell based on mixed halide perovskite. Various parameters have efficacy on the solar cell efficiency such as defect density, layer thickness, doping concentration, band offsets, etc. The use of copper oxide as the hole transport material has been analyzed. The analysis divulges that due to its mobility of charge carriers, it can be used as an alternative to spiro-OMeTAD. With the help of simulations, reasonable materials have been employed for the optimal design of solar cell based on perovskite material. With the integration of copper oxide into the solar cell structure, the results obtained are competent enough. The simulations have shown that with the use of copper oxide as hole transport material with mixed halide perovskite as absorber, the power conversion efficiency has improved by 6%.The open circuit voltage has shown an increase of 0.09 V, short circuit current density has increased by 2.32 m A/cm~2, and improvement in fill factor is 8.75%.     

Quantitative in vitro demonstration of two-photon photodynamic therapy using photofrin and visudyne

Photodynamic therapy (PDT), the combined action of a photosensitizer and light to produce a cytotoxic effect, is an approved therapy for a number of diseases. At present, clinical PDT treatments involve one-photon excitation of the photosensitizer. A major limitation is that damage may be caused to healthy tissues that have absorbed the drug and lie in the beam path. Two-photon excitation may minimize this collateral damage, as the probability of absorption increases with the square of the light intensity, enabling spatial confinement of the photosensitizer activation. A potential application is the treatment of the wet-form of age-related macular degeneration, the foremost cause of central vision loss in the elderly. Herein, the commercial photosensitizers Visudyne and Photofrin are used to demonstrate quantitative in vitro two-photon PDT. A uniform layer of endothelial cells (YPEN-1) was irradiated with a Ti:sapphire laser (300 fs, 865 nm, 90 MHz) using a confocal scanning microscope. Quantification of the two-photon PDT effect was achieved using the permeability stain Hoechst 33258 and a SYTOX Orange viability stain. Visudyne was found to be around seven times more effective as a two-photon photosensitizer than Photofrin under the conditions used, consistent with its higher two-photon absorption cross-section. We also demonstrate for the first time the quadratic intensity dependence of cellular two-photon PDT. This simple in vitro method for quantifying the efficacy of photosensitizers for two-photon excited PDT will be valuable to test specifically designed two-photon photosensitizers before proceeding to in vivo studies in preclinical animal models.     

CPT Violation in Atmospheric Neutrino Oscillation: A Two Flavour Matter Effects

We have studied CPT Violation in atmospheric neutrino oscillation considering two flavour framework with matter effects. We analyze the atmospheric neutrino data within the simplest scheme of two neutrino oscillation. We consider as special case of matter density profile, which are relevant for neutrino oscillations. In particular, we compute to constrain a specific from of CPT violation in matter by upper bound, \(|\Delta _{31}^{m}-\overline {\Delta _{31}^{m}}<<4.80\times 10^{-3}eV^{2}\) and \(|sin2\theta _{13}^{m}-sin2\bar {\theta _{13}^{m}}|<0.685.\) The dispersion relation for the CPT violation in neutrino oscillation in matter are discussed     

Aqua mediated indium(III) chloride catalyzed synthesis of fused pyrimidines and pyrazoles

The utilization of water as solvent and indium trichloride as promoter for the three-component combinatorial synthesis of a variety of bioactive pyrimidine and pyrazole derivatives (2–10) from aldehydes, 1,3-dicarbonyl compounds, and electron-rich amino heterocycles like 6-amino-1,3-dimethyl uracil and 3-methyl-1-phenyl-1H-pyrazol-5-amine catalyzed by indium trichloride under reflux has been studied. A new class of pyrimidine derivatives (2) has also been synthesized and the structure was confirmed by single crystal X-ray analysis. The reactions are environmentally benign, reaction product could be isolated easily and the catalyst could be recycled, which makes it an appealing synthetic protocol.     

A numerical solution of the linear Boltzmann equation using cubic B-splines

A numerical method using cubic B-splines is presented for solving the linear Boltzmann equation. The collision kernel for the system is chosen as the Wigner-Wilkins kernel. A total of three different representations for the distribution function are presented. Eigenvalues and eigenfunctions of the collision matrix are obtained for various mass ratios and compared with known values. Distribution functions, along with first and second moments, are evaluated for different mass and temperature ratios. Overall it is shown that the method is accurate and well behaved. In particular, moments can be predicted with very few points if the representation is chosen well. This method produces sparse matrices, can be easily generalized to higher dimensions, and can be cast into efficient parallel algorithms.     

LTNE thermoconvective instability in Newtonian rotating layer under magnetic field utilizing nanoparticles

Journal of Thermal Analysis and Calorimetry - In the present framework, the simultaneous effect of rotation, magnetic field, heat source and local thermal non-equilibrium (LTNE) is investigated on...