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At least 667 records · Page 37Linked to original sources

Quantitative structure-property relationships (QSPRs) on direct photolysis of PCDDs.

By the use of partial least squares (PLS) method and 27 quantum chemical descriptors computed by PM3 Hamiltonian, a statistically significant QSPR were obtained for direct photolysis quantum yields (Y) of selected Polychlorinated dibenzo-p-dioxins (PCDDs). The QSPR can be used for prediction. The direct photolysis quantum yields of the PCDDs are dependent on the number of chlorine atoms bonded with the parent structures, the character of the carbonoxygen bonds, and molecular polarity. Increasing bulkness and polarity of PCDDs lead to decrease of log Y values. Increasing the frontier molecular orbital energies (Elumo and Ehomo) and heat of formation (HOF) values leads to increase of log Y values.

Carbon↗

Quantitative structure-property relationships for direct photolysis quantum yields of selected polycyclic aromatic hydrocarbons

By the use of partial least squares (PLS) method and 11 quantum chemical descriptors computed by PM3 Hamiltonian, Quantitative Structure-Property Relationships (QSPRs) for direct photolysis quantum yields of selected polycyclic aromatic hydrocarbons (PAHs) were obtained. Direct photolysis quantum yields were predicted for PAHs for which experimental quantum yield values were lacking. Based on the QSPR models, significant PAH molecular characters governing their direct photolysis quantum yields were identified. It can generally be concluded that PAHs with large average molecular polarizability, molecular weight, and heat of formation values tend to have small photolysis quantum yields. PAHs with large values of the energy of the lowest unoccupied molecular orbital (Elumo), small values of the energy of the highest occupied molecular orbital (Ehomo), and large Elumo-Ehomo values, tend to have great photolysis quantum yields.

Journal Article↗

Computational complexity and fundamental limitations to fermionic quantum Monte Carlo simulations.

Quantum Monte Carlo simulations, while being efficient for bosons, suffer from the "negative sign problem" when applied to fermions--causing an exponential increase of the computing time with the number of particles. A polynomial time solution to the sign problem is highly desired since it would provide an unbiased and numerically exact method to simulate correlated quantum systems. Here we show that such a solution is almost certainly unattainable by proving that the sign problem is nondeterministic polynomial (NP) hard, implying that a generic solution of the sign problem would also solve all problems in the complexity class NP in polynomial time.

Journal Article↗

Quantum control of internal conversion in 24-vibrational-mode pyrazine.

Quantum control of the S(2)-->S(1) internal conversion in a complete 24-mode dimensionality model of pyrazine is demonstrated. The fully quantum mechanical study makes use of the recently developed "QP algorithm" for performing accurate computations of projected quantum dynamics and the role of overlapping resonances in control. The results are extremely encouraging, demonstrating active control over internal conversion so as to almost completely suppress the process over time scales of approximately 50-100 fs [well in excess of the natural internal conversion times (approximately 20 fs)] or to accelerate it to complete internal conversion in less than 5 fs. A number of new diagnostics are introduced to demonstrate the significance of overlapping-resonance contributions to control. Control is far better than for a reduced dimensionality model of pyrazine, presumably because of the increased degree of overlap between bound state resonances existing in the full dimensionality case.

Journal Article↗

SER-HIS-ASP catalytic triad in model non-aqueous solvent environment: a computational study.

Emerging new properties and applications of enzymes in organic solvents and ionic liquids are unabating. By applying a combined Quantum Mechanics/Continuum Mechanics computation on a prototypical catalytic triad serine-histidine-aspartate (SER-HIS-ASP) interacting with ethanol or acetonitrile molecules, the major difference between protic and aprotic solvents in effecting transition-state stabilization has been analyzed. Moderately polar aprotic solvent acetonitrile is predicted to be unable to stabilize the transition state in replacing the role of the oxyanion-hole environment, whereas protic ethanol solvent molecules of similar polarity to acetonitrile are adequate in re-gaining the enzymatic activities.

Acetonitriles↗

Quantitative structure-property relationships (QSPRs) on direct photolysis quantum yields of PCDDs.

By the use of partial least squares (PLS) method and 16 fundamental quantum chemical descriptors computed by PM3 Hamiltonian, quantitative structure-property relationships (QSPRs) were obtained for direct photolysis quantum yields of selected polychlorinated dibenzo-p-dioxins (PCDDs). Direct photolysis quantum yields for PCDDs without experimental quantum yield values were predicted. The QSPR results showed that it was mainly the number of chlorine atoms bonded to the parent structure, the largest positive atomic charge on a chlorine atom, the dipole moment, and the frontier molecular orbital energies (Ehomo and Elumo) that determine the direct photolysis quantum yields of the PCDDs. Increasing the number of chlorine atoms, dipole moment, and the largest positive atomic charge on a chlorine atom, leads to decrease of photolysis quantum yields. Increasing Elumo, Ehomo and Elumo - Ehomo values lead to increase of log Y values.

Chlorine↗

Experimental implementation of heat-bath algorithmic cooling using solid-state nuclear magnetic resonance.

The counter-intuitive properties of quantum mechanics have the potential to revolutionize information processing by enabling the development of efficient algorithms with no known classical counterparts. Harnessing this power requires the development of a set of building blocks, one of which is a method to initialize the set of quantum bits (qubits) to a known state. Additionally, fresh ancillary qubits must be available during the course of computation to achieve fault tolerance. In any physical system used to implement quantum computation, one must therefore be able to selectively and dynamically remove entropy from the part of the system that is to be mapped to qubits. One such method is an 'open-system' cooling protocol in which a subset of qubits can be brought into contact with an external system of large heat capacity. Theoretical efforts have led to an implementation-independent cooling procedure, namely heat-bath algorithmic cooling. These efforts have culminated with the proposal of an optimal algorithm, the partner-pairing algorithm, which was used to compute the physical limits of heat-bath algorithmic cooling. Here we report the experimental realization of multi-step cooling of a quantum system via heat-bath algorithmic cooling. The experiment was carried out using nuclear magnetic resonance of a solid-state ensemble three-qubit system. We demonstrate the repeated repolarization of a particular qubit to an effective spin-bath temperature, and alternating logical operations within the three-qubit subspace to ultimately cool a second qubit below this temperature. Demonstration of the control necessary for these operations represents an important step forward in the manipulation of solid-state nuclear magnetic resonance qubits.

Journal Article↗

Effect of quantum partial charges on the structure and dynamics of water in single-walled carbon nanotubes.

In this work, using quantum partial charges, computed from 6-31G(**)B3LYP density functional theory, in molecular dynamics simulations, we found that water inside (6,6) and (10,0) single-walled carbon nanotubes with similar diameters but with different chiralities has remarkably different structural and dynamical properties. Density functional calculations indicate that tubes with different chiralities have significantly different partial charges at the ends of tubes. The partial charges at the ends of a (10,0) tube are around 4.5 times higher than those of a (6,6) tube. Molecular dynamics simulations with the partial charges show different water dipole orientations. In the (10,0) tube, dipole vectors of water molecules at the end of the tube point towards the water reservoir resulting in the formation of an L defect in the center region. This is not observed in the (6,6) tube where dipole vectors of all the water molecules inside the tube point towards either the top or the bottom water reservoir. The water diffusion coefficient is found to increase in the presence of the partial charges. Water in the partially charged (10,0) tube has a lower diffusion coefficient compared to that of in the partially charged (6,6) tube.

Computer Simulation↗

Computation of the equation of state of the quantum hard-sphere fluid utilizing several path-integral strategies.

The compressibility factor of the quantum hard-sphere fluid within the region (rho(N) (*)</=0.8,lambda(B) (*)</=0.9) is computed by following four distinct routes involving the three pair radial correlation functions that are significant in the path-integral context, namely, instantaneous, pair linear response, and centroids. These functions are calculated with path-integral Monte Carlo simulations involving the Cao-Berne propagator. The first route to the equation of state is the instantaneous standard one, i.e., the usual volume derivative of the partition function expressed in terms of the instantaneous pair radial correlations. The other three routes stem from the extended compressibility theorem, which associates the isothermal compressibility with the three pair radial structures mentioned above and involves the solving of appropriate Ornstein-Zernike equations. An analysis of the error bars in the quantities computed is reported, and it is proven the usefulness of the centroid pair correlations to fix quantum equations of state. Also, the regions where the fluid-solid changes of phase should take place are identified with the use of indicators sensitive to order in the sample. The consistency of the current results is assessed and comparison with data available in the literature is made wherever possible.

Journal Article↗

An accurate method for computer-generating tungsten anode x-ray spectra from 30 to 140 kV.

A tungsten anode spectral model using interpolating polynomials (TASMIP) was used to compute x-ray spectra at 1 keV intervals over the range from 30 kV to 140 kV. The TASMIP is not semi-empirical and uses no physical assumptions regarding x-ray production, but rather interpolates measured constant potential x-ray spectra published by Fewell et al. [Handbook of Computed Tomography X-ray Spectra (U.S. Government Printing Office, Washington, D.C., 1981)]. X-ray output measurements (mR/mAs measured at 1 m) were made on a calibrated constant potential generator in our laboratory from 50 kV to 124 kV, and with 0-5 mm added aluminum filtration. The Fewell spectra were slightly modified (numerically hardened) and normalized based on the attenuation and output characteristics of a constant potential generator and metal-insert x-ray tube in our laboratory. Then, using the modified Fewell spectra of different kVs, the photon fluence phi at each 1 keV energy bin (E) over energies from 10 keV to 140 keV was characterized using polynomial functions of the form phi (E) = a0[E] + a1[E] kV + a2[E] kV2 + ... + a(n)[E] kVn. A total of 131 polynomial functions were used to calculate accurate x-ray spectra, each function requiring between two and four terms. The resulting TASMIP algorithm produced x-ray spectra that match both the quality and quantity characteristics of the x-ray system in our laboratory. For photon fluences above 10% of the peak fluence in the spectrum, the average percent difference (and standard deviation) between the modified Fewell spectra and the TASMIP photon fluence was -1.43% (3.8%) for the 50 kV spectrum, -0.89% (1.37%) for the 70 kV spectrum, and for the 80, 90, 100, 110, 120, 130 and 140 kV spectra, the mean differences between spectra were all less than 0.20% and the standard deviations were less than approximately 1.1%. The model was also extended to include the effects of generator-induced kV ripple. Finally, the x-ray photon fluence in the units of photons/mm2 per mR was calculated as a function of HVL, kV, and ripple factor, for various (water-equivalent) patient thicknesses (0, 10, 20, and 30 cm). These values may be useful for computing the detective quantum efficiency, DQE(f), of x-ray detector systems. The TASMIP algorithm and ancillary data are made available on line at http:/(/)www.aip.org/epaps/epaps.html.

Algorithms↗

Aharanov-Bohm interference and fractional statistics in a quantum Hall interferometer.

We compute the temperature, voltage, and magnetic field dependences of the conductance oscillations of a model interferometer designed to measure the fractional statistics of the quasiparticles in the fractional quantum Hall effect. The geometry is the same as that used in recent experiments. With appropriate assumptions concerning the relative areas of the inner and outer rings of the interferometer, we find the theoretical results, including the existence of super periodic Aharonov-Bohm oscillations, to be in remarkably good agreement with experiment. We then make additional experimental predictions with no adjustable parameters which, if verified, would confirm the proposed interpretation of the experiment as a measurement of fractional statistics.

Journal Article↗

Experimental implementation of local adiabatic evolution algorithms by an NMR quantum information processor.

Quantum adiabatic algorithm is a method of solving computational problems by evolving the ground state of a slowly varying Hamiltonian. The technique uses evolution of the ground state of a slowly varying Hamiltonian to reach the required output state. In some cases, such as the adiabatic versions of Grover's search algorithm and Deutsch-Jozsa algorithm, applying the global adiabatic evolution yields a complexity similar to their classical algorithms. However, using the local adiabatic evolution, the algorithms given by J. Roland and N.J. Cerf for Grover's search [J. Roland, N.J. Cerf, Quantum search by local adiabatic evolution, Phys. Rev. A 65 (2002) 042308] and by Saurya Das, Randy Kobes, and Gabor Kunstatter for the Deutsch-Jozsa algorithm [S. Das, R. Kobes, G. Kunstatter, Adiabatic quantum computation and Deutsh's algorithm, Phys. Rev. A 65 (2002) 062301], yield a complexity of order N (where N=2(n) and n is the number of qubits). In this paper, we report the experimental implementation of these local adiabatic evolution algorithms on a 2-qubit quantum information processor, by Nuclear Magnetic Resonance.

Journal Article↗

Hydrolysis of cyclic phosphates by ribonuclease A: a computational study using a simplified ab initio quantum model.

The second step in the enzyme-catalyzed hydrolysis of phosphate esters by ribonuclease A (RNase A) was studied using an ab initio quantum-based model of the active site including constrained parts of three critical residues, His-12, His-119, and Lys-41, and a small substrate. The competition between release of the cyclic phosphate intermediate and subsequent hydrolysis following transphosphorylation was explored to determine the electronic factors that contribute to preferential intermediate product release observed experimentally. The structural and energetic results obtained at both the RHF and MP2 levels reveal several contributing factors consistent with experimental observation. Although the intrinsic electronic effects tend to favor hydrolysis slightly with an overall activation free energy of approximately 70 kJ mol(-1), entropic and environmental effects favor release of the cyclic phosphate intermediate over hydrolysis. Exploration of the second, hydrolysis step also revealed interesting similarity with the transphosphorylation step, including the observation of autocatalysis by the substrate. Moreover, both steps of the overall RNase A reaction reveal multiple pathways involving proton transfers to sites of similar proton affinities. The anionic phosphate in both steps can act as a stable proton binding site as protons are moved around the active site throughout the progress of the reaction. These results suggest autocatalysis may be representative of more general behavior in enzymes containing highly charged substrates, especially phosphates.

Catalysis↗

Nonadiabatic dynamics of condensed phase rate processes.

The study of quantum rate processes occurring in condensed phase environments is difficult because of the large number of degrees of freedom involved. Since a full quantum mechanical treatment is not computationally feasible, one is motivated to use mixed quantum-classical dynamical methods. This type of dynamics is applicable when one can single out a few degrees of freedom to be quantum in nature while treating the remainder classically. We describe a method that is based on the quantum-classical Liouville equation, which clearly prescribes the details of the coupling between the quantum and classical degrees of freedom. With the aid of this machinery, we show how to compute rate constants of reactions involving quantum particles immersed in a classical bath. We illustrate the use of this method on a model for proton transfer in a molecular complex dissolved in a polar solvent.

Computer Simulation↗

Fractional and integer excitations in quantum antiferromagnetic spin 1/2 ladders.

Spectral densities are computed in unprecedented detail for quantum antiferromagnetic spin 1/2 two-leg ladders. These results were obtained due to a major methodical advance achieved by optimally chosen unitary transformations. The approach is based on dressed integer excitations. Considerable weight is found at high energies in the two-particle sector. Precursors of fractional spinon physics occur supporting the conclusion that there is no necessity to resort to fractional excitations in order to describe features at higher energies.

Journal Article↗

The helix-coil transition in heterogeneous peptides with specific side-chain interactions: theory and comparison with CD spectral data.

Natural and synthetic peptides that contain detectable intramolecular alpha-helical structure in aqueous solution have been used to evaluate the helical propensities for the common amino acids. Experimental spectroscopic data must be fit to a model of the helix-coil transition in order to determine quantitative stability constants for each amino acid. We present here a statistical mechanical description of helix formation in peptides or protein fragments that takes into account multiple internal conformations, heterogeneity in the stabilizing effects of different side chains, and specific side-chain-side-chain interactions. The model enables one to calculate values of [theta]222 for a given peptide using the length dependence of the helix signal computed by a quantum mechanical treatment of the n pi * transition that dominates the 222-nm band. In addition, the helical probability at any residue in the chain is readily computed, and should prove useful as nmr spectral data become available. The free energy of specific side-chain interactions, including ion pair formation, can be evaluated. Application of the analysis to experimental data on a pair of isomeric peptides, only one of which contains ion pairs, indicates that forming a single glutamate-lysine ion pair stabilizes the alpha-helix by 0.50 kcal/mole in 10 mM sodium ion and pH 7. A survey of the CD data measured for a variety of model peptides is presented, indicating that a single set of s values and sigma constant can account for some but not all of the available results.

Amino Acid Sequence↗

Using stereocartography for predicting efficacy of stereoinduction by chiral catalysts.

A computational method called stereocartography is used to examine regions around chiral catalysts that are most stereoinducing during Diels-Alder reactions. Geometries and atomic charges of catalysts are first generated quantum mechanically. The transition state of the reaction being catalyzed is then computed quantum mechanically and those enantiomeric transition states are used as probes to determine where around the catalyst stereoinduction is optimal. A description of how to treat catalysts with multiple conformations is given. In this article seven catalysts containing a variety of ligand motifs and metals were evaluated. The hypothesis that the region of maximum stereoinduction must be spatially coincident with the site of chemistry for a catalyst to be efficient is upheld.

Journal Article↗

Details and consequences of the nonadiabatic coupling in the Cl(2P) + H2 reaction.

In an investigation of nonadiabaticity in the Cl + H2 reaction we examine the various coupling terms responsible. By neglecting various of these terms, we show that the spin-orbit coupling in the Cl atom is primarily responsible for non Born-Oppenheimer effects in this reaction, and that the anisotropies in the contributing electronic potential energy surfaces as well as Coriolis terms, are considerably weaker in their effect. Neglect of all coupling except spin-orbit leads to little change in the calculated reaction probabilities both for the Born-Oppenheimer allowed [Cl(2P3/2) + H2] and Born-Oppenheimer forbidden [Cl(2P1/2) + H2] reactions. This implies that one can safely neglect the coupling between different values of the electronic projection quantum number omega. Consequently, the computational effort involved in an accurate quantum scattering treatment of this (and, hopefully, other similar reactions) can be substantially reduced.

Journal Article↗