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Empirical entropic contributions in computational docking: Evaluation in APS reductase complexes

Max W. Chang、Richard K. Belew、Kate S. Carroll 等 5 位作者2008-03-19Journal of Computational Chemistry

The results from reiterated docking experiments may be used to evaluate an empirical vibrational entropy of binding in ligand-protein complexes. We have tested several methods for evaluating the vibrational contribution to binding of 22 nucleotide analogues to the enzyme APS reductase. These include two cluster size m…

Protein Structure and DynamicsEnzyme Structure and FunctionPeptidase Inhibition and Analysis

Structure of wild-type Plk-1 kinase domain in complex with a selective DARPin

Tiago M. Bandeiras、R.C. Hillig、Pedro M. Matias 等 19 位作者2008-03-19Acta Crystallographica Section D Biological Crystallography

As a key regulator of mitosis, the Ser/Thr protein polo-like kinase-1 (Plk-1) is a well validated drug target in cancer therapy. In order to enable structure-guided drug design, determination of the crystal structure of the kinase domain of Plk-1 was attempted. Using a multi-parallel cloning and expression approach, a…

Protein Structure and DynamicsMicrotubule and mitosis dynamicsEnzyme Structure and Function

Ultrahigh-Q photonic crystal cavity created by modulating air hole radius of a waveguide

Soon-Hong Kwon、T. Sünner、M. Kamp 等 4 位作者2008-03-19Optics Express

We propose an ultrahigh quality factor (Q) photonic crystal slab cavity created by the local modulation of the air hole radius in the waveguide. In the cavity, photons are confined between two mirror regions with larger air holes and the lifetime of photons is greatly enhanced by introducing tapered regions with linea…

Photonic and Optical DevicesPhotonic Crystals and ApplicationsOptical Coatings and Gratings

Acetylene Cyclotrimerization Catalyzed by TiO2 and VO2 in the Gas Phase: A DFT Study

Yanping Ma、Wei Xue、Zhe‐Chen Wang 等 5 位作者2008-03-19The Journal of Physical Chemistry A

Density functional theory (DFT) calculations have been used to investigate acetylene cyclotrimerization catalyzed by titanium and vanadium dioxides. The calculated results illustrate that the overall process is highly favorable at room temperature from both thermodynamic and kinetic points of view. The mechanism of C2…

Advanced Chemical Physics StudiesCatalytic Processes in Materials ScienceCatalysis and Oxidation Reactions

Analysis and prediction of protein folding rates using quadratic response surface models

Liang‐Tsung Huang、M. Michael Gromiha2008-03-19Journal of Computational Chemistry

Understanding the relationship between amino acid sequences and folding rates of proteins is an important task in computational and molecular biology. In this work, we have systematically analyzed the composition of amino acid residues for proteins with different ranges of folding rates. We observed that the polar res…

Protein Structure and DynamicsEnzyme Structure and FunctionMachine Learning in Bioinformatics

Electronically excited states and visible region photodissociation spectroscopy of Aum+⋅Arn clusters (m=7–9): Molecular dimensionality transition?

Alexia N. Gloess、Holger Schneider、J. Mathias Weber 等 4 位作者2008-03-19The Journal of Chemical Physics

Photodissociation spectra were determined for Au(m)(+) . Ar(n) (m=7; n=0-3 and m=8,9; n=0,1) in the photon energy range of 2.14-3.02 eV. Experimental data were compared with predictions of dipole allowed transitions using time-dependent density functional theory (TDDFT) as applied to cluster structures from both DFT (…

Advanced Chemical Physics StudiesQuantum Dots Synthesis And PropertiesMolecular Junctions and Nanostructures

Supramolecular Self-Assembled Ni(II), Fe(II), and Co(II) ABA Triblock Copolymers

Manuela Chiper、Michaël A. R. Meier、Daan Wouters 等 7 位作者2008-03-19Macromolecules

The self-assembly of amphiphilic metallo-supramolecular A- b -B- b -A triblock copolymers containing a B block formed from a bisfunctional terpyridine monomer and an A block based on a monofunctional terpyridine polymer is described. These polymers have been prepared by a polycondensation approach, based on metal–liga…

Metal-Organic Frameworks: Synthesis and ApplicationsSupramolecular Chemistry and ComplexesSupramolecular Self-Assembly in Materials

Slow crack growth resistance in resin blends of chromium and metallocene catalyzed ethylene‐hexene copolymers for pipe applications

Rafael García、A. Carrero、M. Aroca 等 5 位作者2008-03-19Polymer Engineering and Science

Abstract A bimodal system has been developed by blending a high density and linear medium density ethylene‐hexene copolymers synthesized with chromium and metallocene catalysts, respectively. The resistance to slow crack growth examined by the Pennsylvania Edge‐Notch Tensile test (PENT test‐ASTM F1473) and the crack o…

Mechanical Behavior of CompositesCorrosion Behavior and InhibitionPolymer crystallization and properties

Approximate Pore-Level Modeling for Apparent Viscosity of Polymer-Enhanced Foam in Porous Media

Chun Huh、W. R. Rossen2008-03-19SPE Journal

Summary Foam is used in the oil industry in a variety of applications, and polymer is sometimes added to increase foam's stability and effectiveness. A variety of surfactant and polymer combinations have been employed to generate polymer-enhanced foam (PEF), typically anionic surfactants and anionic polymers, to reduc…

Enhanced Oil Recovery TechniquesInnovative Microfluidic and Catalytic Techniques InnovationPickering emulsions and particle stabilization

The Dependence of Spectral Impedance on Disc Microelectrode Radius

Ashish K. Ahuja、Matthew R. Behrend、John J. Whalen 等 5 位作者2008-03-19IEEE Transactions on Biomedical Engineering

As microelectrodes gain widespread use for electrochemical sensing, biopotential recording, and neural stimulation, it becomes important to understand the dependence of electrochemical impedance on microelectrode size. It has been shown mathematically that a disc electrode, coplanar in an insulating substrate and expo…

Conducting polymers and applicationsAnalytical Chemistry and SensorsNeuroscience and Neural Engineering

Molecular quenching and relaxation in a plasmonic tunable system

Guillaume Baffou、Christian Girard、Erik Dujardin 等 5 位作者2008-03-19Physical Review B

Molecular fluorescence decay is significantly modified when the emitting molecule is located near a plasmonic structure. When the lateral sizes of such structures are reduced to nanometer-scale cross sections, they can be used to accurately control and amplify the emission rate. In this Rapid Communication, we extend…

Gold and Silver Nanoparticles Synthesis and ApplicationsPlasmonic and Surface Plasmon ResearchThermal Radiation and Cooling Technologies

Thermochemistry of Methyl and Ethyl Nitro, RNO2, and Nitrite, RONO, Organic Compounds

Rubik Asatryan、Joseph W. Bozzelli、John M. Simmie2008-03-19The Journal of Physical Chemistry A

Computational quantum theory is employed to determine the thermochemical properties of n-alkyl nitro and nitrite compounds: methyl and ethyl nitrites, CH3ONO and C2H5ONO, plus nitromethane and nitroethane, CH3NO2 and C2H5NO2, at 298.15 K using multilevel G3, CBS-QB3, and CBS-APNO composite methods employing both atomi…

Atmospheric chemistry and aerosolsThermal and Kinetic AnalysisChemical Thermodynamics and Molecular Structure

Prediction of Vibrational Frequencies of UO22+ at the CCSD(T) Level

Virgil E. Jackson、Raluca Craciun、David A. Dixon 等 5 位作者2008-03-19The Journal of Physical Chemistry A

Electronic structure calculations at the coupled cluster (CCSD(T)) and density functional theory levels with relativistic effective core potentials and large basis sets were used to predict the isolated uranyl ion frequencies. The effects of anharmonicity and spin-orbit corrections on the harmonic frequencies were cal…

Advanced Chemical Physics StudiesRadioactive element chemistry and processingNuclear Materials and Properties

Entanglement Relaxation Time in Polyethylene: Simulation versus Experimental Data

Javier Ramos、Juan F. Vega、Doros N. Theodorou 等 4 位作者2008-03-19Macromolecules

A combined computer simulation and experimental study describing the viscoelastic properties of linear polyethylene is presented. For the simulation, a set of C 1000 polyethylene models were equilibrated using advanced Monte Carlo moves. Then, MD trajectories were calculated. From these simulations the entanglement mo…

Polymer crystallization and propertiesProbabilistic and Robust Engineering DesignRheology and Fluid Dynamics Studies

Interface Modification on TiO2 Electrode Using Dendrimers in Dye-Sensitized Solar Cells

Toshio Nakashima、Norifusa Satoh、Ken Albrecht 等 4 位作者2008-03-19Chemistry of Materials

The interface modification of dye-sensitized solar cells (DSSCs) in order to remove I 3 − on the TiO 2 electrodes is important for improving their performance. The suppression of the back electron transfer by a modified interface improves the open-circuit voltage. In this study, we demonstrated that the suppression me…

TiO2 Photocatalysis and Solar CellsQuantum Dots Synthesis And PropertiesConducting polymers and applications

Synthesis of Methyl-Substituted Main-Chain-Type Organoboron Quinolate Polymers and Their Emission Color Tuning

Yuuya Nagata、Yoshiki Chujo2008-03-19Macromolecules

Highly fluorescent main-chain-type organoboron quinolate polymers were prepared by means of Sonogashira−Hagihara coupling reaction between diyne monomers and methyl-substituted diiodo-organoboron quinolates. By combining methyl substitution of quinolinol ligands and incorporation of organoboron quinolate into polymer…

Catalytic Cross-Coupling ReactionsLuminescence and Fluorescent MaterialsOrganoboron and organosilicon chemistry

New Approach To Measure Protein Binding Based on a Parallel Artificial Membrane Assay and Human Serum Albumin

Elisabet Lázaro、Philip J. Lowe、Xavier Briand 等 4 位作者2008-03-19Journal of Medicinal Chemistry

We report here a new, label-free approach to measure serum protein binding constants. The assay is able to measure HSA K d values in the milli-molar to micromolar range. The protein is not immobilized on any surface and the assay self-corrects for nonspecific adsorption. No mass balance is required to get accurate bin…

Drug Transport and Resistance MechanismsPolymer Surface Interaction StudiesProtein Interaction Studies and Fluorescence Analysis

Reduced Band Gap Dithieno[3,2-b:2‘,3‘-d]pyrroles: New n-Type Organic Materials via Unexpected Reactivity

Ted M. Pappenfus、B.J. Hermanson、Tyler J. Helland 等 8 位作者2008-03-19Organic Letters

Direct addition of tetracyanoethylene to N-(p-hexylphenyl)dithieno[3,2-b:2',3'-d]pyrrole yields not only the aromatic mono- and bis-tricyanovinyl-substituted products but also a quinoidal product with dicyanomethylene groups. The analogous reaction with dithieno[3,2-b:2',3'-d]thiophene yields exclusively the aromatic…

Organic Electronics and PhotovoltaicsConducting polymers and applicationsPhotochromic and Fluorescence Chemistry

Structural Evolution of Fly Ash Based Geopolymers in Alkaline Environments

Sindhunata、John L. Provis、Grant C. Lukey 等 5 位作者2008-03-19Industrial & Engineering Chemistry Research

The effects of immersion in alkaline solutions on the gel structure and pore network of fly ash based geopolymers are investigated. Immersion in carbonate or hydroxide solutions of up to pH 14 results in very little leaching of framework components (Si or Al) from the geopolymer gel, and a largely unchanged mesoporous…

Concrete and Cement Materials ResearchRecycling and utilization of industrial and municipal waste in materials productionNuclear materials and radiation effects

Enhancing the signal-to-noise ratio of an infrared photodetector with a circular metal grating

Ravi Bhat、Nicolae C. Panoiu、S. R. J. Brueck 等 4 位作者2008-03-19Optics Express

We use finite-difference time-domain (FDTD) simulations to demonstrate enhanced infrared absorption in a photodetector covered with a microstructured metal film consisting of a metal-plasmon grating collector/ concentrator and sub-wavelength detector well; for circular gratings we use radial FDTD, and for linear grati…

Plasmonic and Surface Plasmon ResearchPhotonic and Optical DevicesOptical Coatings and Gratings