MolQube

Quantum Mechanics

Embrace the Power of Cloud-Based and Automated Solutions for Quantum Mechanics, Enabling Researchers and Practitioners to Optimize Their Workflows.

Methods

Each method has its strengths and limitations, and the choice of method depends on the nature of the problem, the size of the system, and the desired level of accuracy.

DFT

Equation

Schrödinger

Approach

Electron density rather than the wave function

System Size

Large

Excited States

CPU Time

High

HF

Equation

Schrödinger

Approach

Slater determinant wave function

System Size

Small

Excited States

Supported

CPU Time

Low

Semi Empirical

Equation

Simplified equations that include empirical parameters

Approach

Empirical parameters

System Size

Any

Excited States

CPU Time

Low

Input Preparation

Quantum mechanical calculations require certain inputs. These inputs include the molecular structure, the level of theory used, the basis set used, and other parameters. If one input is wrong, all calculations can be wrong.

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Molecular Geometry

The molecular geometry defines the positions of atoms in the molecule, including their coordinates in space (x, y, z) and the connectivity of atoms through chemical bonds. It is specified by providing the Cartesian coordinates of each atom or by specifying bond lengths, bond angles, and dihedral angles. The molecular geometry is crucial for accurately describing the system under study.

Level of Theory

The level of theory determines the mathematical approximations and computational methods employed to solve the Schrödinger equation. It specifies the theoretical framework used in the calculations. Different levels of theory have varying levels of accuracy and computational complexity. Examples include Hartree-Fock (HF), density functional theory (DFT), and post-Hartree-Fock methods like Møller-Plesset perturbation theory (MP2) or coupled cluster theory (CCSD).

Basis Set

The basis set represents the mathematical functions used to approximate the wave functions of electrons in the molecule. It defines the electron density around the atoms and is instrumental in solving the Schrödinger equation. Commonly used basis sets include Gaussian-type orbitals (GTOs), Slater-type orbitals (STOs), or plane waves. Basis sets can vary in size and complexity, and different basis sets have different levels of accuracy and computational cost.

Hamiltonian

The Hamiltonian operator represents the total energy of the system and includes kinetic energy, potential energy, and any additional terms that may be present, such as external fields or interactions. The Hamiltonian operator describes the behavior of the system and is a fundamental input in quantum mechanics calculations.

Electron Correlation Treatment

Electron correlation effects must be treated in order to obtain an accurate calculation of the electronic energy. Electron correlation effects arise from the interaction between electrons in a molecule, and they can significantly affect the accuracy of the calculation. Methods for treating electron correlation, such as MP2, CCSD, or various flavors of multi-reference methods, must be specified if higher accuracy is desired.

Boundary Conditions

Quantum mechanics calculations can be performed under different boundary conditions, depending on the nature of the system. For example, periodic boundary conditions can be applied for studying periodic systems like crystals, while open boundary conditions are suitable for finite systems. The appropriate boundary conditions need to be specified to accurately describe the system. including periodic boundary conditions (pbc) that expand the considered structure in three directions.

Solvent Effects

If the system is in a solvent environment, the effects of the solvent on the electronic structure can be considered. Continuum solvation models (e.g., PCM) or explicit solvent models can be employed to account for the solvent effects on the system. The choice of solvent model and its parameters should be included in the input.

Symmetry

Symmetry plays a crucial role in quantum mechanics calculations. The symmetry of the system can be utilized to reduce the computational cost and improve efficiency. Symmetry-adapted basis sets and symmetry constraints are often employed to take advantage of the system’s symmetry properties.

Calculations

Computational software for quantum mechanical calculations uses various algorithms and techniques to solve mathematical equations of quantum mechanics. These software packages provide a user-friendly interface and employ numerical methods to perform calculations efficiently.

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Solving Equation

The software employs numerical methods to solve equation or approximate its solutions. Different algorithms, such as iterative methods, matrix diagonalization, or density functional theory (DFT) approaches, are employed depending on the chosen level of theory and basis set.

Energy Calculation

Once the wave function is obtained, the software calculates the electronic energy of the system using the Hamiltonian operator. This involves applying the Hamiltonian operator to the wave function and evaluating the resulting energy.

Optimization and Convergence

Many quantum mechanics calculations involve optimizing the molecular geometry to find the lowest energy configuration of the system. The software utilizes optimization algorithms to iteratively adjust the positions of atoms to minimize the energy. Convergence criteria are employed to determine when the optimization process has reached a stable solution.

Frequency calculations

These calculations are typically performed after optimizing the molecular geometry and obtaining the electronic energy of the system. The steps in frequency calculation include: Hessian Matrix Calculation, Mass-Weighted Hessian, Diagonalization, Infrared (IR) and Raman Activities.

Data Analysis

After quantum computations, different types of data can be extracted. This provides valuable insight into the electronic structure, energetics, spectroscopic properties, and reactivity of molecules. After simulation, data extraction is necessary to understand, validate, and verify molecular properties and to establish structure-property relationships.

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Molecular Geometry

The optimized molecular geometry, including the positions of atoms and bond lengths, bond angles, and dihedral angles. This information helps in understanding the structure and shape of the molecule.

Electronic Energy

The total electronic energy of the system, which represents the energy associated with the electrons in the molecule. It provides a measure of the stability of the molecule and is used for comparing different molecular conformations or calculating reaction energies.

Electronic Structure

The electronic structure information includes molecular orbital energies, orbital occupancy, and electron density distribution. It helps in understanding the distribution of electrons within the molecule and the nature of chemical bonding.

Dipole Moment

The dipole moment is a measure of the overall charge distribution within a molecule. It provides information about the polarity of the molecule and is relevant for studying intermolecular interactions and molecular properties.

Ionization Potential and Electron Affinity

The ionization potential represents the energy required to remove an electron from a molecule, while the electron affinity corresponds to the energy change when an electron is added. These values provide insights into the molecule’s reactivity and its tendency to lose or gain electrons.

Vibrational Frequencies

The vibrational frequencies represent the characteristic frequencies at which the atoms within a molecule vibrate. These frequencies are obtained from frequency calculations and are crucial for studying molecular vibrations and interpreting experimental spectroscopic data.

Infrared (IR) and Raman Activities

The IR and Raman activities provide information about the intensity and selection rules for vibrational transitions. They are useful for analyzing experimental vibrational spectra and understanding the molecular vibrations.

Reaction Energetics

Quantum calculations can determine reaction energies and activation energies, providing insights into the thermodynamics and kinetics of chemical reactions. These data help in understanding reaction mechanisms and predicting reaction rates.

Thermodynamic Properties

Quantum calculations can provide thermodynamic properties such as enthalpy, entropy, and Gibbs free energy. These properties are relevant for studying chemical equilibria, phase transitions, and reaction spontaneity.

NMR Chemical Shifts

Nuclear Magnetic Resonance (NMR) chemical shifts can be calculated using quantum mechanics. These shifts provide information about the local chemical environment of atomic nuclei and aid in the identification and characterization of molecules.

Electronic Excited States

Quantum calculations can determine electronic excited states, such as singlet and triplet states, and their corresponding energies. This information is essential for studying photochemical reactions, electronic transitions, and the absorption and emission spectra of molecules.

Charge Distributions

Quantum calculations can provide insights into the distribution of electron density and charges within a molecule. This information helps in understanding electron delocalization, charge transfer, and electrostatic interactions.

Electron Density Maps

Electron density maps can be generated to visualize the electron distribution within a molecule. These maps provide a spatial representation of electron density and help in understanding bonding, reactivity, and intermolecular interactions.

Molecular Orbitals

The calculated molecular orbitals provide insights into the electronic structure and bonding within a molecule. They help in understanding the distribution of electrons and orbital interactions.

Molecular Properties

Various molecular properties can be calculated, including polarizability, first hyperpolarizability, rotational constants, and magnetic properties (such as magnetic moments and magnetic susceptibilities). These properties are important for studying molecular spectroscopy, response to external fields, and material properties.

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