Papers – Page 5 – TechConnect Briefs

Structure Based Design of Protein Ligands: A Study of Antibody-like Scaffolds Targeted Against the Anthrax Toxin

Shiflett P., Hong-Geller E., Allen D., Lauer S., Lehnert B., Lehnert N., Nolan J., Lehnert B., Lehnert N., Gupta G., Los Alamos National Laboratories, US

We have adopted structure-based approaches to enhance the affinities of two single chain antibodies, scFv1 and scFv4, that bind to two different epitopes on the Protective Antigen (PA), a toxin from Bacillus anthracis. In one [...]

The Photocycle Movie of Photoactive Yellow Protein from Nanoseconds to Seconds

Ren Z., Perman B., Srajer V., Teng T.-Y., Pradervand C., Bourgeois D., Schotte F., Ursby T., Kort R., Wulff M., Moffat K., University of Chicago, US

Photoactive yellow protein (PYP; Meyer, 1985; Meyer et al., 1987) from the photoautotrophic purple eubacterium Ectothiorhodospira halophila is a 14-kD, water-soluble, cytoplasmic blue-light receptor, in which a 4-hydroxycinnamic acid chromophore is covalently linked by a [...]

Towards Color Sensitivity of Protein Based Artificial Retina

Lensu L., Frydrych M., Aschi C., Parkkinen J., Parkkinen S., Parkkinen J., Parkkinen S., Jaaskelainen T., Lappeenranta Univeristy of Technology, FI

Bacteriorhodopsin (BR) has been studied as a material for molecular electronics applications. Thin film elements based on BR and its variants in polyvinylalcohol (PVA) have been produced to determine the photoelectrical properties of the material [...]

Molecular Dynamics Studies on Folic Acid and Fluorescein-Derivatized PAMAM Dendrimers

Lee I., Athey B.D., Wetzel A.W., Baker Jr. J.R., University of Michigan, US

Molecular dynamics simulations on PAMAM dendrimers were performed to design and optimize the condition for cancer cell targeting and imaging. Folic acid and fluorescein-conjugated dendrimers with a primary amine surface group (without capping) and with [...]

Stochastic Simulations of Cell-Cell Signalling in Hepatocytes

Gracheva M.E., Toral R., Gunton J.D., Lehigh University, US

We present results of a Monte Carlo simulation of stochastic effects for two models of intercellular calcium wave propagation in rat hepatocytes. Both models involve gap junction diffusion by a second messenger. In general taking [...]

Model of Photovoltage Response of Bacteriorhodopsin in PVA Films

Frydrych M., Lensu L., Aschi C., Parkkinen J., Parkkinen S., Parkkinen J., Parkkinen S., Jaaskelainen T., Lappeenranta University of Technology, FI

Bacteriorhodopsin (BR) is a light-transducing protein contained in a purple membrane of microorganism Halobacterium salinarium. Natural function of BR is to act as a light-driven proton pump in energy balancing mechanism of the bacterium. Numerous [...]

Applications of the Structural Comparison Algorithm for Simulated Annealing Optimizations and Stochastic Simulations

Curotto E., Beaver College, US

The use of a structural comparison algorithm as a potential energy surface attractor map is introduced. The numerical procedure determines if two structures of a Xn and Xn-YZ species are identical from the respective Cartesian [...]

RESCUER – the New and Effective Tool for Automatic Models Reduction – Application for Electro-Thermal Problems

Napieralski A., Zubert M., Napieralska M., Technical University of Lódz Al, PL

This paper presents some methods of thermal model reduction and translation into hardware description languages or other ones. The very effective model reduction is achieved owing to the application of higher order approximation and joint [...]

A 2D Visualization Tool for SUMMiT V Designs

Yarberry V.R., Jorgensen C.R., Sandia National Laboratories, US

This paper describes the 2D Process Visualizer, a CAD tool that enables a SUMMiT (Sandia Ultra-Planar Multilevel MEMS Technology) MEMS designer to visualize the results of applying the process sequence to a mask set by [...]

Modeling of Electromagnetic Fields in High Speed Electronic Interconnects Using a Least Squares FD-TD Algorithm

Tramel R.W., Turowski M., Przekwas A.J., Schultz J., Frey R.G., CFD Research Corporation, US

A new Finite-Surface Time-Domain (FS-TD) numerical method is presented which is a generalization of the classical Finite-Difference Time-Domain (FD-TD) method of Yee. The method is divergence/charge preserving on arbitrary grids. It reverts to the standard [...]