Biomedical subjects

Satrajit Adhikari

Publications and source records attributed to Satrajit Adhikari.

5 recordsLinked to original sources

PubMed2007

Do intense electromagnetic fields annihilate/create conical intersections?

In this article the authors relate the possibility that an intense electric field affects topological features of a molecular system. For this purpose they studied a model based on the Mathieu equation. They found that such a field may affect the spatial distribution of the nonadiabatic coupling terms but not the position of the intersections. In other words an intense electric field does not create or annihilate conical intersections. It is shown that this conclusion is valid as long as the field is an analytic function of the coordinates in the region of interest. These findings can be extended to magnetic fields (or electromagnetic fields) as long as they are analytic functions in the region of interest.

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PubMed2006

A quantum-classical approach to the molecular dynamics of pyrazine with a realistic model Hamiltonian.

We investigate the molecular dynamics of pyrazine after excitation to the S2 electronic state by using the time-dependent discrete variable representation (TDDVR) method. The investigation has been carried out with a realistic 24-mode model Hamiltonian consisting of all the vibrational degrees of freedom of pyrazine molecule. First, we perform the simulation on a basic four-mode model, and then by including additional eight important modes and finally, by introducing 20 bath modes on the basic model. This sequential inclusion of bath modes demonstrates the effect of weak modes on the subsystem, where the calculations of energy and population transfer from basic model to the bath quantify the same effect. The spectral profile obtained by using TDDVR approach shows reasonably good agreement with the results calculated by quantum mechanical approach. It appears that the TDDVR approach for those large systems where quantum mechanical description is needed in a restricted region is a good compromise between accuracy and speed.

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PubMed2006

Extended Born-Oppenheimer equation for a three-state system.

We present explicit forms of nonadiabatic coupling (NAC) elements of nuclear Schrodinger equation (SE) for a coupled three-state electronic manifold in terms of mixing angles of real electronic basis functions. If the adiabatic-diabatic transformation (ADT) angles are the mixing angles of electronic bases, ADT matrix transforms away the NAC terms and brings diabatic form of SE. ADT and NAC matrices are shown to satisfy a curl condition with nonzero divergence. We have demonstrated that the formulation of extended Born-Oppenheimer (EBO) equation from any three-state BO system is possible only when there exists a coordinate-independent ratio of the gradients for each pair of mixing angles. On the contrary, since such relations among the mixing angles lead to zero curl, we explore its validity analytically around conical intersection(s) and support numerically considering two nuclear-coordinate-dependent three surface BO models. Numerical calculations are performed by using newly derived diabatic and EBO equations and expected transition probabilities are obtained.

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PubMed2005

A quantum-classical approach to the photoabsorption spectrum of pyrazine.

We have used the time-dependent discrete variable representation (TDDVR) method to simulate the photoabsorption spectrum of pyrazine. The time-dependent molecular dynamics of pyrazine after excitation to the S2 electronic state is considered as a benchmark to investigate the S2 absorption spectrum. We have carried out the dynamics on a basic four-mode model of pyrazine with the inclusion of five major modes as well as the rest of the vibrational modes as bath modes. Investigations reveal the effect of bath modes such as energy and population transfer from the subsystem to the bath. Calculated results demonstrate excellent agreement with traditional quantum-mechanical findings during the entire propagation and converge to the exact quantum results when enough gridpoints are used. It appears that TDDVR, as a numerical quantum dynamics methodology, is a good compromise between accuracy and speed.

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PubMed2004

Quantum-classical dynamics of scattering processes in adiabatic and diabatic representations.

We demonstrate the workability of a TDDVR based [J. Chem. Phys. 118, 5302 (2003)], novel quantum-classical approach, for simulating scattering processes on a quasi-Jahn-Teller model [J. Chem. Phys. 105, 9141 (1996)] surface. The formulation introduces a set of DVR grid points defined by the Hermite part of the basis set in each dimension and allows the movement of grid points around the central trajectory. With enough trajectories (grid points), the method converges to the exact quantum formulation whereas with only one grid point, we recover the conventional molecular dynamics approach. The time-dependent Schrodinger equation and classical equations of motion are solved self-consistently and electronic transitions are allowed anywhere in the configuration space among any number of coupled states. Quantum-classical calculations are performed on diabatic surfaces (two and three) to reveal the effects of symmetry on inelastic and reactive state-to-state transition probabilities, along with calculations on an adiabatic surface with ordinary Born-Oppenheimer approximation. Excellent agreement between TDDVR and DVR results is obtained in both the representations.

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