Biomedical subjects

Qadir K Timerghazin

Publications and source records attributed to Qadir K Timerghazin.

4 recordsLinked to original sources

PubMed2006

Nonadiabatic ladder climbing during molecular collisions.

Combining classical molecular dynamics simulations with high level, multiconfigurational ab initio calculations, we demonstrate that even relatively mild collisions between ground state oxygen molecules can readily lead to the formation of highly reactive singlet oxygen molecules via a novel "ladder climbing" mechanism. We employ our findings to shed some light on two recent experiments that have remained poorly understood until now. The first one concerns the highly efficient cluster-catalyzed etching of silicon surfaces, whereas the second one involves a yet to be explained "dark channel" observed for the ozone photolysis in the stratosphere.

Journal Article↗

PubMed2006

Nonadiabatic trajectory studies of NaI(H2O)n photodissociation dynamics.

We have investigated the photodissociation dynamics of NaI(H(2)O)(n) [n = 1-4] clusters using the molecular dynamics with quantum transitions method and a quantum mechanics/molecular mechanics description of NaI(H(2)O)(n), which involves a semiempirical valence-bond approach to describe the NaI electronic structure and classical solvent-solvent and solute-solvent interaction potentials. Our simulation results show that the NaI(H(2)O)(n) excited-state population decay upon reaching the NaI curve-crossing region increases with cluster size due to the stabilization of the ionic branch of the NaI excited state by the surrounding water molecules, and the resulting increase in nonadiabatic transition probability. After reaching the curve-crossing region for the first time, however, the excited-state population decay resembles that of bare NaI because of rapid evaporation of 99% and 95% of the water molecules for NaI(H(2)O) and NaI(H(2)O)(n) [n = 2-4], respectively. This extensive evaporation is due to the reversed NaI polarity in the Franck-Condon region of the NaI first excited state, which causes strong repulsive NaI-H(2)O forces and induces rapid nonstatistical water evaporation, where product water molecules are formed more rotationally than translationally hot. A few water molecules (5% or less) remain transiently or permanently bound to NaI, forming long-lived clusters, when NaI remains predominantly ionic, i.e., remains in the excited state, after reaching the curve-crossing region. To connect simulation results with experiment, we have simulated femtosecond probe signals resulting from two-photon and one-photon excitation to the X and I NaI(+) probe states. In agreement with experimental findings, the probe signals resulting from the two-photon probe scheme, where excitation occurs from the covalent branch of the excited state, decay exponentially over the NaI first excited-state vibrational period, with very little evidence of long-time dynamics. The one-photon probe scheme (not used for experimental cluster studies) is shown to be less sensitive to solvation, in that excitation energies will remain similar over a range of cluster sizes, as the ionic branch of the excited state and the NaI(+) probe states are stabilized to the same extent by the presence of water molecules. The resulting probe signals are also more revealing of the NaI(H(2)O)(n) photodissociation dynamics than the two-photon probe signals, as they may allow monitoring of solvation effects on the NaI nonadiabatic dynamics and of successive evaporation of water molecules. Time-resolved photoelectron spectra provide limited additional information regarding the NaI(H(2)O)(n) photodissociation dynamics. A key consequence of the rapid water evaporation demonstrated here is that experimentally observed signals may arise from the photodissociation of much larger NaI(H(2)O)(n) parent clusters.

Computer Simulation↗

PubMed2006

Accurate ab initio potential for the Na+...I* complex.

High-level ab initio calculations employing the multireference configuration interaction and coupled clusters methods with a correlation-consistent sequence of basis sets have been used to obtain accurate potential energy curves for the complex of the sodium cation with the iodine atom. Potential curves for the first two electronic Lambda-S states have very different characters: the potential for the 2pi state has a well depth of approximately 10 kcal/mol, while the 2sigma state is essentially unbound. This difference is rationalized in terms of the anisotropic interaction of the quadrupole moment of the iodine atom with the sodium cation, which is stabilizing in the case of the 2pi state and destabilizing in the case of the 2sigma state. The effects of spin-orbit coupling have been accounted for with both ab initio and semiempirical approaches, which have been found to give practically the same results. Inclusion of spin-orbit interactions does not affect the X(omega = 32) ground state, which retains its 2pi character, but it results in two omega = 12 spin-orbit states, with mixed 2sigma and 2pi characters and binding energies roughly half of that of the ground spin-orbit state. Complete basis set (CBS) extrapolations of potential curves, binding energies, and equilibrium geometries were also performed, and used to calculate a number of rovibronic parameters for the Na+...I* complex and to parameterize model potentials. The final CBS-extrapolated and zero-point vibrational energy-corrected binding energy is 10.2 kcal/mol. Applications of the present results for simulations of NaI photodissociation femtosecond spectroscopy are discussed.

Journal Article↗

PubMed2003

Further insight into the relaxation dynamics of photoexcited I-(H2O)n clusters.

First-principles molecular dynamics simulations of the excited-state dynamics of I-(H2O)3 have been performed to gain some insight into the general features of the relaxation process of photoexcited I-(H2O)n clusters. The relaxation of excited I-(H2O)3 is characterized by rapid motion of water molecules and slow recoil motion of the iodine atom. Both solvent reorganization and iodine atom motion appear to be important for interpreting the existing femtosecond photoelectron spectroscopy experimental results.

Journal Article↗