Electron Density Distribution in LiB3O5 at 293 K

1997 ◽  
Vol 53 (6) ◽  
pp. 870-879 ◽  
Author(s):  
C. Le Hénaff ◽  
N. K. Hansen ◽  
J. Protas ◽  
G. Marnier

The electron density distribution in lithium triborate LiB3O5 has been studied at room temperature by X-ray diffraction using Ag K \alpha radiation up to 1.02 Å−1 [1439 unique reflections with I > 3\sigma(I)]. Conventional refinements with a free-atom model yield R(F) = 0.0223, wR(F) = 0.0299, S = 1.632. Atom charge refinements show that the lithium should be considered a monovalent ion. Multipolar refinements were undertaken up to fourth order, imposing local non-crystallographic symmetry constraints in order to avoid phase problems leading to meaningless multipole populations due to the non-centrosymmetry of the structure (space group: Pn a21). The residual indices decreased to: R(F) = 0.0147, wR(F) = 0.0193, S = 1.106. The net charges are in good agreement with what can be expected in borate chemistry. Deformation density maps are analysed in terms of \sigma and \pi bonding. The experimental electron distribution in the p z orbitals of triangular B atoms and surrounding O atoms has been analysed by introducing idealized hybridized states. In parallel, the electron density has been determined from ab initio Hartree–Fock calculations on fragments of the structure. Agreement with the X-ray determination is very good and confirms the nature of bonding in the crystal. The amount of transfer of \pi electrons from the oxygen to the triangular B atoms is estimated to be 0.22 electrons by theory.

1999 ◽  
Vol 55 (3) ◽  
pp. 273-284 ◽  
Author(s):  
Sandrine Kuntzinger ◽  
Nour Eddine Ghermani

The electron density distribution in α-spodumene, LiAl(SiO3)2, was derived from high-resolution X-ray diffraction experiments. The results obtained from both Mo Kα- and Ag Kα-wavelength data sets are reported. The features of the Si—O and Al—O bonds are related to the geometrical parameters of the Si—O—Al and Si—O—Si bridges on the one hand and to the O...Li+ interaction on the other. Kappa refinements against the two data sets yielded almost the same net charges for the Si (+1.8 e) and O (−1.0 e) atoms in spodumene. However, the Al net charge obtained from the Ag Kα data (+1.9 e) is larger than the net charge derived from the Mo Kα data (+1.5 e). This difference correlates with a more contracted Al valence shell revealed by the shorter X-ray wavelength (κ = 1.4 for the Ag Kα data set). The derived net charges were used to calculate the Madelung potential at the spodumene atomic sites. The electrostatic energy for the chemical formula LiAl(SiO3)2 was −8.60 e2 Å−1 (−123.84 eV) from the net charges derived from the Ag Kα data and −6.97 e2 Å−1 (−100.37 eV) from the net charges derived from the Mo Kα data.


2019 ◽  
Vol 2019 (6) ◽  
pp. 875-884 ◽  
Author(s):  
Maxim G. Chegerev ◽  
Alexandr V. Piskunov ◽  
Kseniya V. Tsys ◽  
Andrey G. Starikov ◽  
Klaus Jurkschat ◽  
...  

2002 ◽  
Vol 14 (22) ◽  
pp. 5477-5484 ◽  
Author(s):  
Yasuhiko Takahashi ◽  
Xioali Ji ◽  
Taichiro Nishio ◽  
Hiromoto Uwe ◽  
Ken-ichi Ohshima

2014 ◽  
Vol 70 (a1) ◽  
pp. C1752-C1752
Author(s):  
Rino Saiga ◽  
Susumu Takekoshi ◽  
Naoya Nakamura ◽  
Akihisa Takeuchi ◽  
Kentaro Uesugi ◽  
...  

In macromolecular crystallography, an electron density distribution is traced to build a model of the target molecule. We applied this method to model building for electron density maps of a brain network. Human cerebral tissue was stained with heavy atoms [1]. The sample was then analyzed at the BL20XU beamline of SPring-8 to obtain a three-dimensional map of X-ray attenuation coefficients representing the electron density distribution. Skeletonized wire models were built by placing and connecting nodes in the map [2], as shown in the figure below. The model-building procedures were similar to those reported for crystallographic analyses of macromolecular structures, while the neuronal network was automatically traced by using a Sobel filter. Neuronal circuits were then analytically resolved from the skeletonized models. We suggest that X-ray microtomography along with model building in the electron density map has potential as a method for understanding three-dimensional microstructures relevant to biological functions.


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