Hybrid classical quantum force field for modeling very large molecules

A coherent computational scheme on a very large molecule in which the subsystem that undergoes the most important electronic changes is treated by a semiempirical quantum chemical method, though the rest of the molecule is described by a classical force field, has been proposed recently. The continuity between the two subsystems is obtained by a strictly localized bond orbital, which is assumed to have transferable properties determined on model molecules. The computation of the forces acting on the atoms is now operating, giving rise to a hybrid classical quantum force field (CQFF ) which allows full energy minimization and modeling chemical changes in large biomolecules. As an illustrative example, we study the short hydrogen bonds and the proton-exchange process in the histidine-aspartic acid system of the catalytic triad of human neutrophil elastase. The CQFF approach reproduces the crystallographic data quite well, in opposition to a classical force field. The method also offers the possibility of switching off the electrostatic interaction between the quantum and the classical subsystems, allowing us to analyze the various components of the perturbation exerted by the macromolecule in the reactive part. Molecular dynamics confirm a fast proton exchange between the three possible energy wells. The method appears to be quite powerful and applicable to other cases of chemical interest such as surface reactivity of nonmetallic solids. © 1996 John Wiley & Sons, Inc.     

Nitrogen-Broadening Parameters for Atmospheric Spectra Modelling of the ν3 Band of SF6

The infrared absorption of the ν₃ band region of SF_6, at temperatures spanning the 130 to 297 K range, has been reexamined using improved instrumentation with one goal: to estimate the broadening of parameters by nitrogen gas. These parameters are compared to previous literature predictions and an extended set of IR cross-sections is proposed and compared to other existing datasets.     

Variational symmetries and Lagrangian multiforms

Letters in Mathematical Physics - By considering the closure property of a Lagrangian multiform as a conservation law, we use Noether’s theorem to show that every variational symmetry of a...     

Influence of connectivity and porosity on ligand-based luminescence in zinc metal-organic frameworks

Applications of metal-organic frameworks (MOFs) require close correlation between their structure and function. We describe the preparation and characterization of two zinc MOFs based on a flexible and emissive linker molecule, stilbene, which retains its luminescence within these solid materials. Reaction of trans-4,4'-stilbene dicarboxylic acid and zinc nitrate in N,N-dimethylformamide (DMF) yielded a dense 2-D network, 1, featuring zinc in both octahedral and tetrahedral coordination environments connected by trans-stilbene links. Similar reaction in N,N-diethylformamide (DEF) at higher temperatures resulted in a porous, 3-D framework structure, 2. This framework consists of two interpenetrating cubic lattices, each featuring basic zinc carboxylate vertices joined by trans-stilbene, analogous to the isoreticular MOF (IRMOF) series. We demonstrate that the optical properties of both 1 and 2 correlate with the local ligand environments observed in the crystal structures. Steady-state and time-resolved spectroscopic measurements reveal that the stilbene linkers in the dense structure 1 exhibit a small degree of interchromophore coupling. In contrast, the stilbenoid units in 2 display very little interaction in this low-density 3-D framework, with excitation and emission spectra characteristic of monomeric stilbenes, similar to the dicarboxylic acid in dilute solution. In both cases, the rigidity of the stilbene linker increases upon coordination to the inorganic units through inhibition of torsion about the central ethylene bond, resulting in luminescent crystals with increased emission lifetimes compared to solutions of trans-stilbene. The emission spectrum of 2 is found to depend on the nature of the incorporated solvent molecules, suggesting use of this or related materials in sensor applications.     

Expedient BINOL derivative arylations

A dramatic improvement of our previous methodology based on a Suzuki–Miyaura cross-coupling to access 3,3′-disubstituted H₈-BINOLs using microwave heating is reported herein. These new conditions represent a large gain in term of atom-economy, reaction time, catalyst loading, and excess of reagents employed.     

An improved multimodal method for sound propagation in nonuniform lined ducts

An efficient method is proposed for modeling time harmonic acoustic propagation in a nonuniform lined duct without flow. The lining impedance is axially segmented uniform, but varies circumferentially. The sound pressure is expanded in term of rigid duct modes and an additional function that carries the information about the impedance boundary. The rigid duct modes and the additional function are known a priori so that calculations of the true liner modes, which are difficult, are avoided. By matching the pressure and axial velocity at the interface between different uniform segments, scattering matrices are obtained for each individual segment; these are then combined to construct a global scattering matrix for multiple segments. The present method is an improvement of the multimodal propagation method, developed in a previous paper [Bi et al., J. Sound Vib. 289, 1091-1111 (2006)]. The radial rate of convergence is improved from O(n(-2)), where n is the radial mode indices, to O(n(-4)). It is numerically shown that using the present method, acoustic propagation in the nonuniform lined intake of an aeroengine can be calculated by a personal computer for dimensionless frequency K up to 80, approaching the third blade passing frequency of turbofan noise.     

Plumes and waves in two-dimensional turbulent thermal convection

We have conducted a high-resolution, two-dimensional direct numerical simulation of Rayleigh-Bénard convection with stress-free and periodic boundary conditions at a Rayleigh (Ra) number of 10(8) and Prandtl (Pr) number of unity. An aspect-ratio three box has been considered. A single cell has been used as the initial condition. First, the flow develops into time-dependent convection with a strong asymmetry and highly convoluted thermal plumes delineating a large-scale circulation. Smaller thermal plumes detach from the boundary layer and extend over the entire cell, creating a local inversion of the temperature gradient adjacent to the boundary layers. Then the conditions leading to the formation of internal waves are fulfilled, as the local Richardson number decreases sufficiently small to cross the linear threshold of Ri=0.25. Together with the strong shear, convective rolls with a Kelvin-Helmholtz wavelike character are produced. The secondary boundary layer itself becomes unstable and produces smaller plumes. At later times, the large-scale circulation is destroyed and the internal waves disappear. A Reynolds number, based on the global scale, of Re=500, is attained at this stage. Only isolated thermal plumes and vortices are present. Thus, internal waves can be generated at finite Prandtl number fluids for sufficiently high Ra in the presence of a large-scale circulation. Spectral analysis reveals that the kinetic energy decays with a logarithmic slope of -3, while the logarithmic slope of the thermal variance has a value of around -5 / 3.     

On-Surface Synthesis and Characterization of Acene-Based Nanoribbons Incorporating Four-Membered Rings

A bottom up method for the synthesis of unique tetracene-based nanoribbons, which incorporate cyclobutadiene moieties as linkers between the acene segments, is reported. These structures were achieved through the formal [2+2] cycloaddition reaction of ortho-functionalized tetracene precursor monomers. The formation mechanism and the electronic and magnetic properties of these nanoribbons were comprehensively studied by means of a multitechnique approach. Ultra-high vacuum scanning tunneling microscopy showed the occurrence of metal-coordinated nanostructures at room temperature and their evolution into nanoribbons through formal [2+2] cycloaddition at 475 K. Frequency-shift non-contact atomic force microscopy images clearly proved the presence of bridging cyclobutadiene moieties upon covalent coupling of activated tetracene molecules. Insight into the electronic and vibrational properties of the so-formed ribbons was obtained by scanning tunneling microscopy, Raman spectroscopy, and theoretical calculations. Magnetic properties were addressed from a computational point of view, allowing us to propose promising candidates to magnetic acene-based ribbons incorporating four-membered rings. The reported findings will increase the understanding and availability of new graphene-based nanoribbons with high potential in future spintronics.     

Tuning of nanotube mechanical resonances by electric field pulling

We show here that field emission (FE) can be used to directly observe the vibration resonances nu(R) of carbon nanotubes (CNTs) and that the tension created by the applied field allows the tuning of these resonances by up to a factor of 10. The resonances are observable by the changes they create in the FE pattern or the emitted FE current. The tuning is shown to be linear in voltage and to follow from the basic physics of stretched strings. The method allows one to study the mechanical properties of individual multiwall carbon nanotubes within an ensemble and follow their evolution as the CNTs are modified. The tuning and detection should be useful for nanometric resonant devices.     

Maslov form and J-volume of totally real immersions

On every totally real submanifold Mⁿ of ⁿ, one can define a Maslov class analogous to the one defined for the Lagrangian submanifolds of ⁿ. We define here a closed 1-form, expressed in terms of the extrinsic local geometric invariants of Mⁿ and the complex structure of ⁿ, whose cohomology class is the Maslov class of Mⁿ. This generalizes to the totally real case, the result of Morvan (1981). This 1-form can still be defined if the ambient space ⁿ is substituted by a Kahler manifold , but it is not closed in general. However, we can build a variational problem on the space of totally real immersions, whose critical points are totally real submanifolds whose form defined above vanishes identically. In the case where , we give a characterization and many examples of such submanifolds. Finally we study the second variation and prove a stability result for the critical submanifolds of a Kahler manifold with non-positive Ricci tensor. This extends the well-known results on Lagrangian submanifolds of