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X-ray Crystallography02:18

X-ray Crystallography

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The size of the unit cell and the arrangement of atoms in a crystal may be determined from measurements of the diffraction of X-rays by the crystal, termed X-ray crystallography.
Diffraction
Diffraction is the change in the direction of travel experienced by an electromagnetic wave when it encounters a physical barrier whose dimensions are comparable to those of the wavelength of the light. X-rays are electromagnetic radiation with wavelengths about as long as the distance between neighboring...
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Crystal Field Theory
To explain the observed behavior of transition metal complexes (such as colors), a model involving electrostatic interactions between the electrons from the ligands and the electrons in the unhybridized d orbitals of the central metal atom has been developed. This electrostatic model is crystal field theory (CFT). It helps to understand, interpret, and predict the colors, magnetic behavior, and some structures of coordination compounds of transition metals.
CFT focuses on...
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Crystal Field Theory - Tetrahedral and Square Planar Complexes02:46

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Tetrahedral Complexes
Crystal field theory (CFT) is applicable to molecules in geometries other than octahedral. In octahedral complexes, the lobes of the dx2−y2 and dz2 orbitals point directly at the ligands. For tetrahedral complexes, the d orbitals remain in place, but with only four ligands located between the axes. None of the orbitals points directly at the tetrahedral ligands. However, the dx2−y2 and dz2 orbitals (along the Cartesian axes) overlap with the ligands less than the dxy,...
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X-ray Diffraction of Biological Samples01:10

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X-ray diffraction or XRD is an analytical tool that utilizes X-rays to study ordered structures such as crystalline organic and inorganic samples, polycrystalline materials, proteins, carbohydrates, and drugs.
According to Bragg's law, when X-rays strike the sample positioned on a stage, the rays are  scattered by the electron clouds around the sample atoms. The  X-ray diffraction or scattering is caused by constructive interference of the X-ray waves that reflect off the internal...
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Crystallization is a phase transformation process in which crystals are precipitated from a supersaturated solution or formed from other sources. During crystallization, atoms or molecules arrange themselves into a well-defined, rigid crystal lattice to minimize energy.
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Quantum crystallography: A perspective.

Lou Massa1, Chérif F Matta2,3

  • 1Hunter College & the PhD Program of the Graduate Center, City University of New York, New York.

Journal of Computational Chemistry
|November 15, 2017
PubMed
Summary
This summary is machine-generated.

Quantum crystallography aims to extract quantum mechanics from X-ray data. A new method, the kernel energy method (KEM), enables deriving quantum mechanical properties of biological molecules from scattering data.

Keywords:
Clinton equationsN-representabilityX-ray diffractiondensity matrixelectron densityidempotent density matrixkernel energy methodprojector density matrixquantum crystallographyquantum theory of atoms in molecules

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Area of Science:

  • Crystallography
  • Quantum Mechanics
  • Computational Chemistry

Background:

  • Quantum crystallography seeks to fully extract quantum mechanical information from X-ray scattering data.
  • Current methods require conversion of X-ray diffraction data into electron densities reflecting N-electron wave function antisymmetry.
  • A formalism exists for determining constrained idempotent one-body density matrices, ensuring N-representability.

Purpose of the Study:

  • To present a perspective on achieving complete quantum mechanics extraction from X-ray scattering data.
  • To detail a method for converting X-ray diffraction data into electron densities that capture N-electron wave function antisymmetry.
  • To demonstrate the application of the kernel energy method (KEM) in quantum crystallography for biological molecules.

Main Methods:

  • Development of a formalism for constrained idempotent one-body density matrix determination.
  • Implementation of the kernel energy method (KEM) for fragmenting large molecules.
  • Application of KEM within quantum crystallography to extract quantum mechanical density matrices.

Main Results:

  • The developed formalism ensures pure-state N-representability in the single determinant sense.
  • Quantum mechanical density matrices of large molecules were successfully extracted from X-ray scattering data using KEM.
  • KEM facilitates the derivation of quantum mechanical properties for biological molecules, even with a low data-to-parameters ratio.

Conclusions:

  • Extraction of complete quantum mechanics from X-ray scattering data is achievable.
  • The kernel energy method provides a viable approach for quantum crystallography.
  • This method enables the study of quantum mechanical properties in complex biological systems using X-ray data.