Analysis of Hydrogen Bonding and Stability of Protein Secondary Structures in Molecular Dynamics Simulation

Molecular Dynamics (MD) simulations provide an atomic level account of the molecular motions and have proven to be immensely useful in the investigation of the dynamical structure of proteins. Once an MD trajectory is obtained, specific interactions at the molecular level can be directly studied by setting up appropriate combinations of distance and angle monitors. However, if a study of the dynamical behavior of secondary structures in proteins becomes important, this approach can become unwieldy. We present herein a method to study the dynamical stability of secondary structures in proteins, based on a relatively simple analysis of backbone hydrogen bonds. The method was developed for studying the thermal unfolding of beta-lactamases, but can be extended to other systems and adapted to study relevant properties.

Mechanical properties of B-modified Ti-6Al-4V alloys

Minor addition of B to the Ti-6Al-4V alloy reduces the prior beta grain size by more than an order of magnitude. TiB formed in-situ in the process has been noted to decorate the grain boundaries. This microstructural modification influences the mechanical behavior of the Ti-6Al-4V alloy significantly. In this paper, an overview of our current research on tensile properties, fracture toughness as well as notched and un-notched fatigue properties of Ti-6Al-4V-xB with x varying between 0.0 to 0.55 wt.% is presented. A quantitative relationship between the microstructural length scales and the various mechanical properties have been developed. Moreover, the effect of the presence of hard and brittle TiB has also been studied.

Creep in TiO2 doped Zirconia: Implications for high strain rate superplasticity

In ceramics, dopants offer the possibility of higher creep rates by enhancing diffusion. The present study examines the potential for high strain rate superplasticity in a TiO2 doped zirconia, by conducting creep experiments together with microstructural characterization. It is shown that both pure and doped zirconia exhibit transitions in creep behaviour from Coble diffusion creep with n similar to 1 to an interface controlled process with n similar to 2. Doping with TiO2 enhances the creep rate by over an order of magnitude. There is evidence of substantial grain boundary sliding, consistent with diffusion creep.

A novel method for diameter estimation of small opaque objects using Fraunhofer diffraction

A novel optical method is proposed and demonstrated, for real-time dimension estimation of thin opaque cylindrical objects. The methodology relies on free-space Fraunhofer diffraction principle. The central region, of such tailored diffraction pattern obtained under suitable choice of illumination conditions, comprises of a pair of `equal intensity maxima', whose separation remains constant and independent of the diameter of the diffracting object. An analysis of `the intensity distribution in this region' reveals the following. At a point symmetrically located between the said maxima, the light intensity varies characteristically with diameter of the diffracting object, exhibiting a relatively stronger intensity modulation under spherical wave illumination than under a plane wave illumination. The analysis reveals further, that the said intensity variation with diameter is controllable by the illumination conditions. Exploiting these `hitherto unexplored' features, the present communication reports for the first time, a reliable method of estimating diameter of thin opaque cylindrical objects in real-time, with nanometer resolution from single point intensity measurement. Based on the proposed methodology, results of few simulation and experimental investigations carried-out on metallic wires with diameters spanning the range of 5 to 50 mu m, are presented. The results show that proposed method is well-suited for high resolution on-line monitoring of ultrathin wire diameters, extensively used in micro-mechanics and semiconductor industries, where the conventional diffraction-based methods fail to produce accurate results.

Novel gray coded pattern for unwrapping phase in fringe projection based 3D profiling

A method to reliably extract object profiles even with height discontinuities (that leads to 2n pi phase jumps) is proposed. This method uses Fourier transform profilometry to extract wrapped phase, and an additional image formed by illuminating the object of interest by a novel gray coded pattern for phase unwrapping. Simulation results suggest that the proposed approach not only retains the advantages of the original method, but also contributes significantly in the enhancement of its performance. Fundamental advantage of this method stems from the fact that both extraction of wrapped phase and unwrapping the same were done by gray scale images. Hence, unlike the methods that use colors, proposed method doesn't demand a color CCD camera and is ideal for profiling objects with multiple colors.

Stretch effects extracted from propagating spherical premixed flames with detailed chemistry

This paper is concerned with extracting stretch effects from outward propagating spherical flames with full chemistry. It is a continuation of a recently published study from this laboratory where it is shown that single-step chemistry is insufficient to explain the experimental results on methane, propane and hydrogen-air systems. Comparisons of the present full chemistry calculations with the experimental results for several fuel/air systems are good/excellent, with the exception of rich propane-air for which it is argued that soot chemistry with attendant radiation loss need to be invoked. The reversal in trends of stretch effects due to change in pressure, initial temperature and N-2 dilution (observed in experiments) can be predicted well by full chemistry but not with simple single-step chemistry. Analysis of the results shows the important role played by many intermediate species and explains why full chemistry is needed to predict stretch effects.

Combustion studies on concentrated distillery effluents

Studies on ignition and combustion of distillery effluent containing solids consisting of 38 +/- 2% inorganics and 62 +/- 2% of organics (cane sugar derivatives) have been carried out in order to investigate the role of droplet size and ambient temperature in the process of combustion. Experiments were conducted on in liquid droplets of effluent having solids concentration 65% and (2) spheres of died (100% solids) effluent of diameters ranging from 0.5 to 25 mm. These spheres were introduced into a furnace where air temperature ranged from 500 to 1000 degrees C, and they burned with two distinct regimes of combustion-flaming and glowing. The ignition delay of the 65% concentration effluent increases with diameter as in the case of nonvolatile droplets, while that of dried spheres appears to be independent of size. The ignition delay shows Arrhenius dependence on temperature. The flaming combustion involves a weight loss of 50-80%, depending on ambient temperature, and the flaming time is given by t(f) similar to d(0)(2), as in the case of liquid fuel droplets and wood spheres. Char glowing involves weight loss of an additional 10-20%, with glowing time behaving as t(c) similar to d(0)(2) as in the case of wood char, even though the inert content of effluent char is as large as 50% compared to 2-3% in wood char Char combustion has been modeled, and the results of this model compare well with the experimental results.

Effect of open joint on stress wave propagation

Stress wave characteristics are drastically altered by joints and other inhomogenities. This paper addresses the effect of an open joint on stress wave transmission. An elastodynamic analysis is developed to supplement and explain some recent observations by Fourney and Dick(1995) on open as well as filled joints. The analytical model developed here assuming spherical symmetry can be extended to filled joints between dissimilar media, but results are presented only for open joints separating identical materials. As a special case, stress wave transmission across a joint with no gap is also addressed.