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Related Concept Videos

Hybridization of Atomic Orbitals II03:35

Hybridization of Atomic Orbitals II

sp3d and sp3d 2 Hybridization
Hybridization of Atomic Orbitals I03:24

Hybridization of Atomic Orbitals I

The mathematical expression known as the wave function, ψ, contains information about each orbital and the wavelike properties of electrons in an isolated atom. When atoms are bound together in a molecule, the wave functions combine to produce new mathematical descriptions that have different shapes. This process of combining the wave functions for atomic orbitals is called hybridization and is mathematically accomplished by the linear combination of atomic orbitals. The new orbitals that...
Conformations of Cyclohexane02:11

Conformations of Cyclohexane

Cyclohexane does not exist in a planar form due to the high angle and torsional strain it would experience in the planar structure. Instead, it adopts non-planar chair and boat conformations.
The chair form is the most stable and derives its name from its resemblance to the “easy chair.” In the chair conformation, two carbon atoms are arranged out-of-plane — one above and one below, minimizing the torsional strain. In the chair form, the bond angle is very close to the ideal tetrahedral value,...
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Newman Projections02:06

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Different notations are used to represent the three-dimensional structure of molecules on two-dimensional surfaces. One of the most commonly used representations is the dash-wedge formula. The dashed wedges, solid wedges, and the plane lines indicate the groups situated behind the plane, coming out of the plane, and in the plane, respectively.
The organic molecules rotate across the single bonds leading to numerous temporary three-dimensional structures of varying energy known as conformers.
Chair Conformation of Cyclohexane02:02

Chair Conformation of Cyclohexane

The chair conformation is the most stable form of cyclohexane due to the absence of angle and torsional strain. The absence of angle strain is a result of cyclohexane’s bond angle being very close to the ideal tetrahedral bond angle of 109.5° in its chair conformer. Similarly, the torsional strain is also absent owing to the perfectly staggered arrangement of bonds.
The hydrogen atoms linked to carbons are arranged in two different axial and equatorial orientations to achieve this staggered...

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Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
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Published on: April 8, 2020

Conical intersections in solution: formulation, algorithm, and implementation with combined quantum

Ganglong Cui1, Weitao Yang

  • 1Department of Chemistry, Duke University, Durham, North Carolina 27708, USA.

The Journal of Chemical Physics
|June 7, 2011
PubMed
Summary
This summary is machine-generated.

This study presents new methods for optimizing conical intersections in molecules within solutions or macromolecules. These techniques significantly reduce computational costs associated with complex molecular systems.

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Spatial Separation of Molecular Conformers and Clusters
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Last Updated: Jun 1, 2026

Computation of Atmospheric Concentrations of Molecular Clusters from ab initio Thermochemistry
12:11

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Published on: April 8, 2020

Spatial Separation of Molecular Conformers and Clusters
10:37

Spatial Separation of Molecular Conformers and Clusters

Published on: January 9, 2014

Area of Science:

  • Computational Chemistry
  • Theoretical Chemistry
  • Molecular Modeling

Background:

  • Conical intersections are crucial in molecular photophysics and photochemistry.
  • Optimizing conical intersections for gas-phase molecules is routine.
  • Current methods for solution/macromolecular systems are inefficient and computationally expensive.

Purpose of the Study:

  • To develop efficient methods for optimizing conical intersections in solution or macromolecules.
  • To address the challenges posed by high dimensionality and costly calculations in condensed phases.

Main Methods:

  • Sequential quantum mechanics/molecular mechanics (QM/MM) approaches.
  • QM/MM-minimum free energy path methods.
  • Two specific methods: sequential QM optimization with MM minimization (potential energy surfaces) and sequential QM optimization with MM sampling (free energy surfaces).

Main Results:

  • Reduced dimensionality of gradient difference and nonadiabatic coupling vectors by confining electronic changes to the QM subsystem.
  • Significant decrease in the number of costly gradient difference and nonadiabatic coupling vector evaluations compared to concurrent schemes.
  • Successful test optimizations of conical intersections for cyclopropanone and acetaldehyde in aqueous solution.

Conclusions:

  • The developed sequential QM/MM methods offer a computationally efficient way to optimize conical intersections for molecules in solution and macromolecules.
  • These methods overcome the limitations of existing approaches for condensed-phase systems.
  • The findings pave the way for more accurate theoretical studies of photochemical processes in complex environments.