X-ray Diffraction and the Electrostatic Potential

Author(s):  
Philip Coppens

The distribution of positive and negative charge in a crystal fully defines physical properties like the electrostatic potential and its derivatives, the electric field, and the gradient of the electric field. The electrostatic potential at a point in space, defined as the energy required to bring a positive unit of charge from infinite distance to that point, is an important function in the study of chemical reactivity. As electrostatic forces are relatively long-range forces, they determine the path along which an approaching reactant will travel towards a molecule. A nucleophilic reagent will first be attracted to the regions where the potential is positive, while an electrophilic reagent will approach the negative regions of the molecule. As the electrostatic potential is of importance in the study of intermolecular interactions, it has received considerable attention during the past two decades (see, e.g., articles on the molecular potential of biomolecules in Politzer and Truhlar 1981). It plays a key role in the process of molecular recognition, including drug-receptor interactions, and is an important function in the evaluation of the lattice energy, not only of ionic crystals. This chapter deals with the evaluation of the electrostatic potential and its derivatives by X-ray diffraction. This may be achieved either directly from the structure factors, or indirectly from the experimental electron density as described by the multipole formalism. The former method evaluates the properties in the crystal as a whole, while the latter gives the values for a molecule or fragment “lifted” out of the crystal. Like other properties derived from the charge distribution, the experimental electrostatic potential will be affected by the finite resolution of the experimental data set. But as the contribution of a structure factor F(H) to the potential is proportional to H−2, as shown below, convergence is readily achieved. A summary of the dependence of electrostatic properties of the magnitude of the scattering vector H is given in Table 8.1, which shows that the electrostatic potential is among the most accessible of the properties listed.


1993 ◽  
Vol 48 (1-2) ◽  
pp. 85-90 ◽  
Author(s):  
Zhengwei Su ◽  
Philip Coppens

It has been shown (Z. Su and P. Coppens, Acta Cryst. A 48, 188 (1992)) that the electrostatic potential, the electric field, and the electric field gradient (EFG) can be expressed in closed forms in terms of the positions and the charge-density parameters of individual atoms, whose aspherical density is described by a pseudoatom model (e.g., N. Hansen and P. Coppens, Acta Cryst. A 34, 909(1978)). A F o r t r a n program Molprop91 based on this method has been written (Z. Su, State Univ. of New York at Buffalo 1991). The method has been applied to the title compounds. Low-temperature X-ray diffraction data of fully deuterated benzene (G. A. Jeffrey, J. R. Ruble, Y. Yeon, and C. Lemann, private communication, 1991), /-alanine (R. Destro, R. E. Marsh, and R. Bianchi, J. Phys. Chem. 92, 966 (1988) and d,/-histidine (N. Li, Ph.D. thesis, State University of New York at Buffalo 1989) were analyzed using the least-squares deformation density refinement program Lsmol90 (amodified version of M o l l y ) . Molprop91 was subsequently used to calculate the electrostatic-potential maps in selected sections, and at the nuclear positions. For the latter, the EFGs were also evaluated. The electrostatic potentials were used to fit net atomic charges and estimate the molecular energies. Errors in the derived quantities are given.



Author(s):  
William F. Tivol ◽  
Murray Vernon King ◽  
D. F. Parsons

Feasibility of isomorphous substitution in electron diffraction is supported by a calculation of the mean alteration of the electron-diffraction structure factors for hemoglobin crystals caused by substituting two mercury atoms per molecule, following Green, Ingram & Perutz, but with allowance for the proportionality of f to Z3/4 for electron diffraction. This yields a mean net change in F of 12.5%, as contrasted with 22.8% for x-ray diffraction.Use of the hydration chamber in electron diffraction opens prospects for examining many proteins that yield only very thin crystals not suitable for x-ray diffraction. Examination in the wet state avoids treatments that could cause translocation of the heavy-atom labels or distortion of the crystal. Combined with low-fluence techniques, it enables study of the protein in a state as close to native as possible.We have undertaken a study of crystals of rat hemoglobin by electron diffraction in the wet state. Rat hemoglobin offers a certain advantage for hydration-chamber work over other hemoglobins in that it can be crystallized from distilled water instead of salt solutions.



Author(s):  
A. R. Lang

AbstractX-ray topography provides a non-destructive method of mapping point-by-point variations in orientation and reflecting power within crystals. The discovery, made by several workers independently, that in nearly perfect crystals it was possible to detect individual dislocations by X-ray diffraction contrast started an epoch of rapid exploitation of X-ray topography as a new, general method for assessing crystal perfection. Another discovery, that of X-ray Pendellösung, led to important theoretical developments in X-ray diffraction theory and to a new and precise method for measuring structure factors on an absolute scale. Other highlights picked out for mention are studies of Frank-Read dislocation sources, the discovery of long dislocation helices and lines of coaxial dislocation loops in aluminium, of internal magnetic domain structures in Fe-3 wt.% Si, and of stacking faults in silicon and natural diamonds.



Author(s):  
Armando Reyes-Montero ◽  
Fernando Rubio-Marcos ◽  
Luis Edmundo Fuentes-Cobas ◽  
Adolfo Del Campo ◽  
Rosalba Castañeda-Guzmán ◽  
...  


2003 ◽  
Vol 9 (5) ◽  
pp. 419-427 ◽  
Author(s):  
Victor A. Streltsov ◽  
Philip N.H. Nakashima ◽  
Andrew W.S. Johnson

Current X-ray diffraction techniques intended for “ideally imperfect” specimens provide structure factors only on a relative scale and ever-present multiple scattering in strong low-angle Bragg reflections is difficult to correct. Multiple scattering is implicit in the quantitative convergent beam electron diffraction (QCBED) method, which provides absolutely scaled structure factors. Conventional single crystal X-ray diffraction has proved adequate in softer materials where crystal perfection is limited. In hard materials, the highly perfect nature of the crystals is often a difficulty, due to the inadequacy of the conventional corrections for multiple scattering (extinction corrections). The present study on α-Al2O3 exploits the complementarity of synchrotron X-ray measurements for weak and medium intensities and QCBED measurement of the strong low-angle reflections. Two-dimensional near zone axis QCBED data from different crystals at various accelerating voltages, thicknesses, and orientations have been matched using Bloch-wave and multislice methods. The reproducibility of QCBED data is better than 0.5%. The low-angle strong QCBED structure factors were combined with middle and high-angle extinction-free data from synchrotron X-ray diffraction measurements. Static deformation charge density maps for α-Al2O3 have been calculated from a multipole expansion model refined using the combined QCBED and X-ray data.



2021 ◽  
Vol 118 (13) ◽  
pp. 132903
Author(s):  
Mao-Hua Zhang ◽  
Changhao Zhao ◽  
Lovro Fulanović ◽  
Jürgen Rödel ◽  
Nikola Novak ◽  
...  


2017 ◽  
Vol 111 (8) ◽  
pp. 082907 ◽  
Author(s):  
Seiji Nakashima ◽  
Osami Sakata ◽  
Hiroshi Funakubo ◽  
Takao Shimizu ◽  
Daichi Ichinose ◽  
...  


2019 ◽  
Vol 75 (a2) ◽  
pp. e271-e271
Author(s):  
Lucy Saunders ◽  
Mark Warren ◽  
Hamish Yeung ◽  
Arkadiy Simonov ◽  
Chloe Coates ◽  
...  


2000 ◽  
Vol 56 (s1) ◽  
pp. s74-s74
Author(s):  
P. Pernot-Rejmánková ◽  
J. Baruchel ◽  
W. Laprus


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