Quantum wave packet and quasiclassical trajectory studies of the reaction H(2S) + CH(X2Π; v = 0, j = 1) → C(1D) + H2(X1 ): Coriolis coupling effects and stereodynamics

The quantum mechanics (QM) and quasiclassical trajectory (QCT) calculations have been carried out for the title reaction with the ground minimal allowed rotational state of CH (j = 1) on the 1 ¹A′ potential energy surface. For the reaction probability at total angular momentum J = 0, a similar trend of the QM and QCT calculations is observed, and the QM results are larger than the latter almost in the whole considered energy range (0.1–1.5 eV). The QCT integral cross sections are larger than the QM results with centrifugal sudden approximation, while smaller than those from QM method including Coriolis coupling for collision energies bigger than 0.25 eV. The quantum wave‐packet computations show that the Coriolis coupling effects get more and more pronounced with increasing of J. In addition to the scalar properties, the stereodynamical properties, such as the average rotational alignment factor <P₂( j′?k )>, the angular distributions P(θ_r), P(?_r), P(θ_r,?_r), and the polarization‐dependent generalized differential cross sections have been explored in detail by QCT approach. © 2013 Wiley Periodicals, Inc.     

An accurate study of the dynamics of the C+OH reaction on the second excited 1(4)A" potential energy surface

The dynamics of the C((3)P)+OH(X(2)Π) → CO(a(3)Π)+H((2)S) on its second excited potential energy surface, 1(4)A", have been investigated in detail by means of an accurate quantum mechanical (QM) time-dependent wave packet (TDWP) approach. Reaction probabilities for values of the total angular momentum J up to 50 are calculated and integral cross sections for a collision energy range which extends up to 0.1 eV are shown. The comparison with quasi-classical trajectory (QCT) and statistical methods reveals the important role played by the double well structure existing in the potential energy surface. The TDWP differential cross sections exhibit a forward-backward symmetry which could be interpreted as indicative of a complex-forming mechanism governing the dynamics of the process. The QM statistical method employed in this study, however, is not capable to reproduce the main features of the possible insertion nature in the reactive collision. The ability to stop individual trajectories selectively at specific locations inside the potential energy surface makes the QCT version of the statistical approach a better option to understand the overall dynamics of the process.     

Cumulative reaction probabilities: A comparison between quasiclassical and quantum mechanical results

This article presents a quasiclassical trajectory (QCT) method for determining the cumulative reaction probability (CRP) as a function of the total energy. The method proposed is based on a discrete sampling using integer values of the total and orbital angular momentum quantum numbers for each trajectory and on the development of equations that have a clear counterpart in the quantum mechanical (QM) case. The calculations comprise cumulative reaction probabilities at a given total angular momentum J, as well as those summed over J. The latter are used to compute QCT rate constants. The method is illustrated by comparing QCT and exact QM results for the H+H2, H+D2, D+H2, and H+HD reactions. The agreement between QCT and QM results is very good, with small discrepancies between the two data sets indicating some genuine quantum effects. The most important of these involves the value of the CRP at low energies which, due to the absence of tunneling, is lower in the QCT calculations, causing the corresponding rate constants to be smaller. The second is the steplike structure that is clearly displayed in the QM CRP for J = 0, which is much smoother in the corresponding QCT results. However, when the QCT density of reactive states, i.e., the derivatives of the QCT CRP with respect to the energy, is calculated, a succession of maxima and minima is obtained which roughly resembles those found in the QM calculations, although the latter are considerably sharper. The analysis of the broad peaks in the QCT density of reactive states indicates that the distributions of collision times associated with the maxima are somewhat broader, with a tail extending to larger collision times, than those associated with the minima. In addition, the QM and QCT dynamics of the isotopic variants mentioned above are compared in the light of their CRPs. Issues such as the compliance of the QCT CRP with the law of microscopic reversibility, as well as the similarity between the CRPs for ortho and para species in the QM and QCT cases, are also addressed.     

Orientation effects in Cl + H2 inelastic collisions: characterization of the mechanisms

Based on quantum mechanical scattering (QM) calculations, we have analyzed the polarization of the product hydrogen molecule in Cl + H(2) (v = 0, j = 0) inelastic collisions. The spatial arrangements adopted by the rotational angular momentum and internuclear axis of the departing molecule have been characterized and used to prove that two distinct mechanisms, corresponding to different dynamical regimes, are responsible for the inelastic collisions. Such mechanisms, named as low-b and high-b, correlate with well defined ranges of impact parameter values, add in an essentially incoherent way, and can be clearly differentiated through the quantum mechanical polarization moment that measures the orientation of the products rotational angular momentum with respect to the scattering plane. Other directional effects turn out to fail when it comes to distinguishing the mechanisms. Quasiclassical trajectories (QCT) calculations have been used as a supplement to the purely quantum mechanical analysis. By combining QM and QCT results, which are in very good agreement, we have succeeded in obtaining a clear and meaningful picture of how the two types of collisions take place.     

Quantum mechanical and quasiclassical trajectory scattering calculations for the C(1D) + H2 reaction on the second excited 1 1A" potential energy surface

Time-independent quantum mechanical (QM) and quasiclassical trajectory (QCT) scattering calculations have been carried out for the C(1D) + H2 --> CH + H reaction at a collision energy of 80 meV on a newly developed ab initio potential energy surface [B. Bussery-Honvault et al., Phys. Chem. Chem. Phys. 7, 1476 (2005)] of 1 1A" symmetry, corresponding to the second singlet state 1 1B1 of CH2. A general good agreement has been found between the QM and QCT rotational distributions and differential cross sections (DCSs). In both cases, DCSs are strongly peaked in the forward direction with a small contribution in the backward direction in contrast with those obtained on the 1 1A' surface, which are nearly symmetric. Rotational distributions obtained on the 1 1A" surface are somewhat colder than those calculated on the 1 1A' surface. The specific dynamics and the contribution of the 1 1A" surface to the overall reactivity of this system are discussed.     

Searching for resonances in the reaction Cl+CH4-->HCl+CH3: quantum versus quasiclassical dynamics and comparison with experiments

A quantum-mechanical (QM) and quasiclassical trajectory (QCT) study was performed on the title reaction, using a pseudotriatomic ab initio based surface. Probabilities and integral cross sections present some clear peaks versus the collision energy E(col), which we assign to Feshbach resonances of the transition state, where the light H atom oscillates between the heavy Cl and CH(3) groups. For ground-state reactants, reactivity is essentially of quantum origin (QCT observables and oscillations are smaller, or much smaller, than QM ones), and the calculated integral cross section and product distributions are in reasonable agreement with the experiment. The reaction occurs through an abstraction mechanism, following both a direct and an indirect mechanism. The quasiclassical trajectory calculations show the participation of a short-lived collision complex in the microscopic reaction mechanism. Finally, QCT differential cross sections of Cl+CH(4)-->HCl (nu(')=0 and 1)+CH(3) oscillate versus E(col), whereas experimentally this only occurs for HCl (nu(')=1). This theoretical result and other oscillating properties found here could, however, be related to the existence of a Feshbach resonance for the production of HCl (nu(')=1), as suggested by experimentalists.     

A state-to-state dynamical study of the Br + H(2) reaction: comparison of quantum and classical trajectory results

We present a detailed theoretical investigation of the dynamics corresponding to the strongly endothermic Br + H(2) (v = 0-1, j = 0) → H + HBr reaction in the 0.85 to 1.9 eV total energy range. State-averaged and state-to-state results obtained through time-independent wave packet (TIWP) and time-independent quantum mechanical (TIQM) calculations and quasiclassical trajectories (QCT) are compared and analyzed. The agreement in the results obtained with both quantum mechanical results is very good overall. However, although QCT calculations reproduce the general features, their agreement with the QM results is sometimes only qualitative. The analysis of the mechanism based on state-averaged results turns out to be deceptive and conveys an oversimplified picture of the reaction consistent with a direct-rebound mechanism. Consideration of state-to-state processes, in contrast, unveils the existence of multiple mechanisms that give rise to a succession of maxima in the differential cross section (DCS). Such mechanisms correlate with different sets of partial waves and display similar collision times when analyzed through the time-dependent DCS.     

Product angular distribution for the H + CD4 --> HD + CD3 reaction

Using an analytical potential energy surface previously developed by our group, namely PES-2002, we analyzed the gas-phase reaction between a hydrogen atom and perdeuterated methane. We studied the effect of quasiclassical trajectory (QCT) and reduced dimensionality quantum-scattering (QM) calculations, with their respective limitations, on CD3 product angular distributions in the collision energy range 16.1-46.1 kcal x mol(-1). It was found that at low collision energy, 16.1 kcal x mol(-1), both the QCT and QM calculations yielded forward scattered CD3 products, i.e., a rebound mechanism. However, at high energies only the QM calculations on the PES-2002 surface reproduced the angular scattering found experimentally.     

Quantum and quasiclassical studies of the O(3P)+HCl-->OH+Cl(2P) reaction using benchmark potential surfaces

We have performed quantum mechanical (QM) dynamics calculations within the independent-state approximation with new benchmark triplet A" and A' surfaces [B. Ramachandran et al., J. Chem. Phys. 119, 9590 (2003)] for the rovibronic state-to-state measurements of the reaction O(3P)+HCl(v=2,j=1,6,9)-->OH(v'j')+Cl(2P) [Zhang et al., J. Chem. Phys. 94, 2704 (1991)]. The QM and experimental rotational distributions peak at similar OH(j') levels, but the QM distributions are significantly narrower than the measurements and previous quasiclassical dynamics studies. The OH(low j) populations observed in the measurements are nearly absent in the QM results. We have also performed quasiclassical trajectory with histogram binning (QCT-HB) calculations on these same benchmark surfaces. The QCT-HB rotational distributions, which are qualitatively consistent with measurements and classical dynamics studies using other surfaces, are much broader than the QM results. Application of a Gaussian binning correction (QCT-GB) dramatically narrows and shifts the QCT-HB rotational distributions to be in very good agreement with the QM results. The large QCT-GB correction stems from the special shape of the joint distribution of the classical rotational/vibrational action of OH products. We have also performed QM and QCT calculations for the transition, O+HCl(v=0,T=300 K)-->OH(v'j')+Cl from threshold to approximately 130 kcal mol(-1) collision energy as a guide for possible future hyperthermal O-atom measurements. We find in general a mixed energy release into translation and rotation consistent with a late barrier to reaction. Angular distributions at high collision energy are forward peaked, consistent with a stripping mechanism. Direct collisional excitation channel cross sections, O+HCl(v=0,T=300 K)-->O+HCl(v'=1), in the same energy range are large, comparable in magnitude to the reactive channel cross sections. Although the (3)A" state dominates most collision processes, above approximately 48 kcal mol(-1), the (3)A' state plays the major role in collisional excitation.     

Can quasiclassical trajectory calculations reproduce the extreme kinetic isotope effect observed in the muonic isotopologues of the H + H2 reaction?

Rate coefficients for the mass extreme isotopologues of the H + H(2) reaction, namely, Mu + H(2), where Mu is muonium, and Heμ + H(2), where Heμ is a He atom in which one of the electrons has been replaced by a negative muon, have been calculated in the 200-1000 K temperature range by means of accurate quantum mechanical (QM) and quasiclassical trajectory (QCT) calculations and compared with the experimental and theoretical results recently reported by Fleming et al. [Science 331, 448 (2011)]. The QCT calculations can reproduce the experimental and QM rate coefficients and kinetic isotope effect (KIE), k(Mu)(T)/k(Heμ)(T), if the Gaussian binning procedure (QCT-GB)--weighting the trajectories according to their proximity to the right quantal vibrational action--is applied. The analysis of the results shows that the large zero point energy of the MuH product is the key factor for the large KIE observed.     

On the dynamics of the H+ +D2(v=0,j=0)-->HD+D + reaction: a comparison between theory and experiment

The H+ +D2(v=0,j=0)-->HD+D + reaction has been theoretically investigated by means of a time independent exact quantum mechanical approach, a quantum wave packet calculation within an adiabatic centrifugal sudden approximation, a statistical quantum model, and a quasiclassical trajectory calculation. Besides reaction probabilities as a function of collision energy at different values of the total angular momentum, J, special emphasis has been made at two specific collision energies, 0.1 and 0.524 eV. The occurrence of distinctive dynamical behavior at these two energies is analyzed in some detail. An extensive comparison with previous experimental measurements on the Rydberg H atom with D2 molecules has been carried out at the higher collision energy. In particular, the present theoretical results have been employed to perform simulations of the experimental kinetic energy spectra.     

A QM/MM study of the binding of RAPTA ligands to cathepsin B

We have carried out quantum mechanical (QM) and QM/MM (combined QM and molecular mechanics) calculations, as well as molecular dynamics (MD) simulations to study the binding of a series of six RAPTA (Ru(II)-arene-1,3,5-triaza-7-phosphatricyclo-[3.3.1.1] decane) complexes with different arene substituents to cathepsin B. The recently developed QM/MM-PBSA approach (QM/MM combined with Poisson–Boltzmann solvent-accessible surface area solvation) has been used to estimate binding affinities. The QM calculations reproduce the antitumour activities of the complexes with a correlation coefficient (r ²) of 0.35–0.86 after a conformational search. The QM/MM-PBSA method gave a better correlation (r ² = 0.59) when the protein was fixed to the crystal structure, but more reasonable ligand structures and absolute binding energies were obtained if the protein was allowed to relax, indicating that the ligands are strained when the protein is kept fixed. In addition, the best correlation (r ² = 0.80) was obtained when only the QM energies were used, which suggests that the MM and continuum solvation energies are not accurate enough to predict the binding of a charged metal complex to a charged protein. Taking into account the protein flexibility by means of MD simulations slightly improves the correlation (r ² = 0.91), but the absolute energies are still too large and the results are sensitive to the details in the calculations, illustrating that it is hard to obtain stable predictions when full flexible protein is included in the calculations.     

Fast generation of broken‐symmetry states in a large system including multiple iron–sulfur assemblies: Investigation of QM/MM energies,clusters charges,and spin populations

A density functional theory study is presented regarding the energetics and the Mulliken population analyses of a quantum mechanical/molecular mechanical (QM/MM) system including multiple iron–sulfur clusters in the QM region. The [FeFe]‐hydrogenase from Desulfovibrio desulfuricans was studied, and both the active site (an Fe₆S₆ assembly generally referred to as the H‐cluster) and an ancillary Fe₄S₄ site were treated at the BP86‐RI/TZVP level. The antiferromagnetic coupling that characterizes both sites was modeled using the broken‐symmetry (BS) approach. For such a QM system, 36 different BS couplings can be defined, depending on the localization of spin excess on the various spin centers. All the BS states were obtained by means of an effective and simple method for spin localization, that is here described and compared with more sophisticated approaches already available in literature. The variation of the QM/MM energy among the various geometry‐optimized protein models was found to be less than 25 kJ mol^–1. This energy variation almost doubles if no geometry optimization is performed. A detailed analysis of the additive nature of these variations in QM/MM energy is reported. The Mulliken charges show very small variations among the 36 BS states, whereas the Mulliken spin populations were found to be somewhat more variable. The relevance of such variations is discussed in light of the available Mössbauer and Electron Paramagnetic Resonance (EPR) spectroscopic data for the enzyme. Finally, the influence of the basis set on the spin populations, charges, and structural parameters of the models was investigated, by means of QM/MM computations on the same system at the BP86‐RI/SVP level. © 2010 Wiley Periodicals, Inc. Int J Quantum Chem, 2011     

QCT and QM calculations of the Cl(2P) + NH3 reaction: influence of the reactant well on the dynamics

A detailed dynamics study, using both quasi-classical trajectory (QCT) and reduced-dimensional quantum mechanical (QM) calculations, was carried out to understand the reactivity and mechanism of the Cl((2)P) + NH(3)→ HCl + NH(2) gas-phase reaction, which evolves through deep wells in the entry and exit channels. The calculations were performed on an analytical potential energy surface recently developed by our group, PES-2010 [M. Monge-Palacios, C. Rangel, J. C. Corchado and J. Espinosa-Garcia, Int. J. Quantum. Chem., 2011], together with a simplified model surface, mod-PES, in which the reactant well is removed to analyze its influence. The main finding was that the QCT and QM methods show a change of the reaction probability with collision energy, suggesting a change of the atomic-level mechanism of reaction with energy. This change disappeared when the mod-PES was used, showing that the behaviour at low energies is a direct consequence of the existence of the reactant well. Analysis of the trajectories showed that different mechanisms operate depending on the collision energy. Thus, while at high energies (E(coll) > 5 kcal mol(-1)) practically all trajectories are direct, at low energies (E(coll) < 3 kcal mol(-1)) the trajectories are indirect, i.e., with the mediation of a trapping complex in the entry and/or the exit wells. The reactant complex allows repeated encounters between the reactants, increasing the reaction probability at low energies. The differential cross section results reinforce this change of mechanism, showing also the influence of the reactant well on this reaction. Thus, the PES-2010 surface yields a forward-backward symmetry in the scattering, while when the reactant well is removed with the mod-PES the shape is more isotropic.     

Dynamics of the D+ + H2 and H+ + D2 reactions: a detailed comparison between theory and experiment

An extensive set of experimental measurements on the dynamics of the H(+) + D(2) and D(+) + H(2) ion-molecule reactions is compared with the results of quantum mechanical (QM), quasiclassical trajectory (QCT), and statistical quasiclassical trajectory (SQCT) calculations. The dynamical observables considered include specific rate coefficients as a function of the translational energy, E(T), thermal rate coefficients in the 100-500 K temperature range. In addition, kinetic energy spectra (KES) of the D(+) ions reactively scattered in H(+) + D(2) collisions are also presented for translational energies between 0.4 eV and 2.0 eV. For the two reactions, the best global agreement between experiment and theory over the whole energy range corresponds to the QCT calculations using a gaussian binning (GB) procedure, which gives more weight to trajectories whose product vibrational action is closer to the actual integer QM values. The QM calculations also perform well, although somewhat worse over the more limited range of translational energies where they are available (E(T) < 0.6 eV and E(T) < 0.2 eV for the H(+) + D(2) and D(+) + H(2) reactions, respectively). The worst agreement is obtained with the SQCT method, which is only adequate for low translational energies. The comparison between theory and experiment also suggests that the most reliable rate coefficient measurements are those obtained with the merged beams technique. It is worth noting that none of the theoretical approaches can account satisfactorily for the experimental specific rate coefficients of H(+) + D(2) for E(T)≤ 0.2 eV although there is a considerable scatter in the existing measurements. On the whole, the best agreement with the experimental laboratory KES is obtained with the simulations carried out using the state resolved differential cross sections (DCSs) calculated with the QCT-GB method, which seems to account for most of the observed features. In contrast, the simulations with the SQCT data predict kinetic energy spectra (KES) considerably cooler than those experimentally determined.     

Corroboration of theory for H + D2 --> D + HD (v' = 3, j' = 0) reactive scattering dynamics

The differential cross section (DCS) for the reaction H + D2 --> D + HD (v' = 3, j' = 0) exhibits particularly rich dynamics; in addition to the expected direct recoil backscattering feature, a surprising time-delayed forward scattering feature appears that has been attributed to glory scattering arising from nearside and farside interference. This fact leads to a complex DCS that depends strongly on the collision energy. Its accurate calculation requires a fully quantum mechanical (QM) treatment. We report improved measurements of this DCS over the collision energy range 1.55 < or = E(coll) < or = 1.82 eV. Previous measurements using the core extraction method, while generally in agreement with theory, lacked sufficient resolution to capture all of the noteworthy behavior of the system; in the present work, we use ion imaging to observe many previously unresolved features of the DCS, particularly in the forward-scattered region. Agreement with QM calculations is found at all collision energies, reconciling an earlier discrepancy between experiment and theory near E(coll) = 1.54 eV.     

Semiclassical S matrix theory for a compound state resonance in the reactive collinear H + H2 collision

The broad compound state resonance found in quantum mechanical calculations of the collinear H + H₂ reaction is shown to correspond semiclassically to multiple collisions of the atoms within the collision complex. The quantitative agreement between QM and SC results is quite reasonable.