Structural chemistry of fluoride and mixed-ligand fluoride complexes of gallium(III)

2017 ◽  
Vol 37 (3-4) ◽  
pp. 147-184 ◽  
Author(s):  
Ruven Davidovich ◽  
Pavel Fedorov ◽  
Arthur Popov
Keyword(s):  
Crystal Structures ◽  
Structural Information ◽  
Outer Sphere ◽  
Mixed Ligand ◽  
Structural Chemistry ◽  
X Ray Diffraction ◽  
Coordination Polyhedra ◽  
X Ray ◽  
Cell Parameters ◽  
Fluoride Complexes

AbstractThis article covers the structural chemistry of fluoride and mixed-ligand fluoride complexes of gallium(III), discusses more than 140 known crystal structures of anionic fluoride and mixed-ligand fluoride complexes and continues the discussion initiated in previous reviews dedicated to the stereochemistry and structural chemistry of group III–V metals fluoride complexes. Most of these structures have been established by single-crystal X-ray diffraction techniques, but some were characterized by powder X-ray diffraction methods. This paper offers a discussion of the geometry of gallium and outer sphere cation coordination polyhedra, the association of gallium atoms in dimer and polymer formations, types of cation-anion interactions, and their contributions in actual three-dimensional crystal structures. The structural information has been compiled in a single table containing phase compositions and the corresponding standard crystallographic data (such as crystal system, space group, unit cell parameters, number of formula units per cell [Z], reliability factors [R1], Ga-F, and Ga-O bond lengths).

Structural chemistry of anionic fluoride and mixed-ligand fluoride complexes of indium(III)

2016 ◽  
Vol 36 (3) ◽  
Author(s):  
Ruven L. Davidovich ◽  
Pavel P. Fedorov ◽  
Artur I. Popov
Keyword(s):  
Structural Information ◽  
Three Dimensional ◽  
Outer Sphere ◽  
Mixed Ligand ◽  
X Ray Diffraction ◽  
Crystal Lattices ◽  
Coordination Polyhedra ◽  
X Ray ◽  
Cell Parameters ◽  
Fluoride Complexes

AbstractA total of 88 crystal lattice structures of indium(III) anionic fluoride and mixed-ligand fluoride complexes have been discussed and systematized. Most of these structures have been established by single-crystal X-ray diffraction techniques, but some were characterized by powder X-ray diffraction methods. The presented crystallography data were compared with known isotypical compounds. This paper offers a discussion of the geometry of indium and outer sphere cation coordination polyhedra; the association of indium atoms in dimer, oligomer, and polymer formations (chains, layers, frameworks); types of cation-anion interactions; and their contributions in actual three-dimensional crystal structures including types of the crystal lattices formed. We also used structural examples of potassium fluoroindates(III) to describe the basics of the structural depolymerization model for fluoride compounds, which is used to depict the formation and transformation of complex metal fluorides and predict structural types of novel or uncharacterized fluorides in the corresponding compound series. For the readers’ convenience, we have compiled structural information in a single table containing phase compositions and corresponding standard crystallographic data (such as crystal system, space group, unit cell parameters, number of formula units per cell [

scholarly journals Crystallization and preliminary X-ray analysis of thePlasmodium falciparumapicoplast DNA polymerase

2015 ◽  
Vol 71 (3) ◽  
pp. 333-337 ◽  
Author(s):  
Morgan E. Milton ◽  
Jun-yong Choe ◽  
Richard B. Honzatko ◽  
Scott W. Nelson
Keyword(s):  
Dna Polymerase ◽  
Structural Information ◽  
Klenow Fragment ◽  
X Ray Diffraction ◽  
Dna Polymerase I ◽  
X Ray ◽  
Cell Parameters ◽  
A Genome ◽  
Reported Data ◽  
Polymerase I

Infection by the parasitePlasmodium falciparumis the leading cause of malaria in humans. The parasite has a unique and essential plastid-like organelle called the apicoplast. The apicoplast contains a genome that undergoes replication and repair through the action of a replicative polymerase (apPOL). apPOL has no direct orthologs in mammalian polymerases and is therefore an attractive antimalarial drug target. No structural information exists for apPOL, and the Klenow fragment ofEscherichia coliDNA polymerase I, which is its closest structural homolog, shares only 28% sequence identity. Here, conditions for the crystallization of and preliminary X-ray diffraction data from crystals ofP. falciparumapPOL are reported. Data complete to 3.5 Å resolution were collected from a single crystal (2 × 2 × 5 µm) using a 5 µm beam. The space groupP6522 (unit-cell parametersa=b= 141.8,c= 149.7 Å, α = β = 90, γ = 120°) was confirmed by molecular replacement. Refinement is in progress.

The structures of marialite (Me6) and meionite (Me93) in space groups P42/n and I4/m, and the absence of phase transitions in the scapolite series

2011 ◽  
Vol 26 (2) ◽  
pp. 119-125 ◽  
Author(s):  
Sytle M. Antao ◽  
Ishmael Hassan
Keyword(s):  
Phase Transitions ◽  
High Resolution ◽  
Crystal Structures ◽  
Unit Cell ◽  
X Ray Diffraction ◽  
Unit Cell Parameters ◽  
X Ray ◽  
Space Groups ◽  
Cell Parameters ◽  
The Mean

The crystal structures of marialite (Me6) from Badakhshan, Afghanistan and meionite (Me93) from Mt. Vesuvius, Italy were obtained using synchrotron high-resolution powder X-ray diffraction (HRPXRD) data and Rietveld structure refinements. Their structures were refined in space groups I4/m and P42/n, and similar results were obtained. The Me6 sample has a formula Ca0.24Na3.37K0.24[Al3.16Si8.84O24]Cl0.84(CO3)0.15, and its unit-cell parameters are a=12.047555(7), c=7.563210(6) Å, and V=1097.751(1) Å3. The average ⟨T1-O⟩ distances are 1.599(1) Å in I4/m and 1.600(2) Å in P42/n, indicating that the T1 site contains only Si atoms. In P42/n, the average distances of ⟨T2-O⟩=1.655(2) and ⟨T3-O⟩=1.664(2) Å are distinct and are not equal to each other. However, the mean ⟨T2,3-O⟩=1.659(2) Å in P42/n and is identical to the ⟨T2′-O⟩=1.659(1) Å in I4/m. The ⟨M-O⟩ [7]=2.754(1) Å (M site is coordinated to seven framework O atoms) and M-A=2.914(1) Å; these distances are identical in both space groups. The Me93 sample has a formula of Na0.29Ca3.76[Al5.54Si6.46O24]Cl0.05(SO4)0.02(CO3)0.93, and its unit-cell parameters are a=12.19882(1), c=7.576954(8) Å, and V=1127.535(2) Å3. A similar examination of the Me93 sample also shows that both space groups give similar results; however, the C–O distance is more reasonable in P42/n than in I4/m. Refining the scapolite structure near Me0 or Me100 in I4/m forces the T2 and T3 sites (both with multiplicity 8 in P42/n) to be equivalent and form the T2′ site (with multiplicity 16 in I4/m), but ⟨T2-O⟩ is not equal to ⟨T3-O⟩ in P42/n. Using different space groups for different regions across the series implies phase transitions, which do not occur in the scapolite series.

scholarly journals Crystallization and preliminary X-ray diffraction analysis of a single variable domain of the immunoglobulin superfamily in amphioxus,Amphi-IgSF-V

2014 ◽  
Vol 70 (8) ◽  
pp. 1072-1075 ◽  
Author(s):  
Bo Jiang ◽  
Yanjie Liu ◽  
Rong Chen ◽  
Zhenbao Wang ◽  
Mansoor Tariq ◽  
...  
Keyword(s):  
Immune System ◽  
Structural Information ◽  
Three Dimensional ◽  
Dimensional Structure ◽  
Immunoglobulin Superfamily ◽  
X Ray Diffraction ◽  
X Ray ◽  
Cell Parameters ◽  
System A ◽  
Human Immunoglobulins

Amphioxus is regarded as an essential animal model for the study of immune evolution. Discovery of new molecules with the immunoglobulin superfamily (IgSF) variable (V) domain in amphioxus would help in studying the evolution of IgSF V molecules in the immune system. A protein was found which just contains only one IgSF V domain in amphioxus, termedAmphi-IgSF-V; it has over 30% sequence identity to the V domains of human immunoglobulins and mammalian T-cell receptors. In order to clarify the three-dimensional structure of this new molecule in amphioxus,Amphi-IgSF-V was expressed, purified and crystallized, and diffraction data were collected to a resolution of 1.95 Å. The crystal belonged to space groupP3221, with unit-cell parametersa=b= 53.9,c= 135.5 Å. The Matthews coefficient and solvent content were calculated to be 2.58 Å3 Da−1and 52.38%, respectively. The results will provide structural information to study the evolution of IgSF V molecules in the immune system.

The crystal structure of seeligerite, Pb3IO4Cl3, a rare Pb-I-oxychloride from the San Rafael mine, Sierra Gorda, Chile

2008 ◽  
Vol 72 (3) ◽  
pp. 771-783 ◽  
Author(s):  
L. Bindi ◽  
M. D. Welch ◽  
P. Bonazzi ◽  
G. Pratesi ◽  
S. Menchetti
Keyword(s):  
Crystal Structure ◽  
Lone Pair ◽  
X Ray Diffraction ◽  
Unit Cell Parameters ◽  
Coordination Polyhedra ◽  
X Ray ◽  
Cell Parameters ◽  
Square Planar ◽  
San Rafael ◽  
Cl Atoms

AbstractThe crystal structure of seeligerite, Pb3IO4Cl3, from the San Rafael mine, Sierra Gorda, Chile, was solved in the space group Cmm2, and refined to R = 3.07%. The unit-cell parameters are: a = 7.971(2), b = 7.976(2), c = 27.341(5) Å, V = 1738.3(6) Å3 and Z = 8. The crystal structure consists of a stacking sequence along [001] of square-net layers of O atoms and square-net layers of Cl atoms with Pb+ and I+ cations located in the voids of the packing. As is typical of cations with a stereoactive lone-pair of electrons, Pb2+ and I5+ adopt strongly-asymmetrical configurations. Pb2+ cations occur in a variety of coordination polyhedra, ranging from anticubes and monocapped anticubes to pyramidal ‘one-sided’ coordinations. I5+ is coordinated by a square of four oxygen atoms: I1 and I3 exhibit a ‘one-sided’ coordination, whereas I2 has square-planar coordination.The TEM investigation has revealed additional superlattice reflections (which were not registered by X-ray diffraction (XRD)) in the hk0 diffraction pattern of seeligerite based upon a 0.158 Å-1 square net, which can be interpreted as arising from a 20-cation super-sheet motif (12.6 Å x 12.6 Å), likely related to a further level of Pb-I order superimposed upon the 8-site motif identified by XRD.

scholarly journals Crystal Structures, Hirshfeld Surfaces, and Thermal Study of Isostructural Polymeric Ladders of La(III) and Sm(III) Coordination Compounds with 4,4’-Bipyridine and Dibromoacetates

Materials ◽  
2020 ◽  
Vol 13 (19) ◽  
pp. 4274
Author(s):  
Agnieszka Czylkowska ◽  
Anna Pietrzak ◽  
Małgorzata Szczesio ◽  
Bartłomiej Rogalewicz ◽  
Jakub Wojciechowski
Keyword(s):  
Crystal Structures ◽  
Coordination Compounds ◽  
Central Atom ◽  
Thermal Study ◽  
Hirshfeld Surface ◽  
Mixed Ligand ◽  
Enrichment Ratio ◽  
X Ray Diffraction ◽  
X Ray ◽  
Hirshfeld Surfaces

Two novel mixed ligand complexes with general formula [M2(4,4′-bpy)1.5(CBr2HCOO)6(H2O)2]n (where 4,4′-bpy = 4,4′-bipyridine) were synthesized. Thermal analysis was used to describe a solid intermediate and final products of thermolysis. A coupled TG-MS system was used to monitor principal volatile fragments evolved during pyrolysis. Crystal structures of the complexes were determined. Cationic dinuclear M2 (M(III) = La, Sm) coordination cores were obtained. Both crystal structures are isostructural. Single crystal X-ray diffraction analysis revealed that investigated structures of 1D coordination polymers assembled in ladder-like systems. The central atom replacement resulted in unit cell identity parameter П = 0.0091. Additionally, the isostructurality of the reported La(III) and Sm(III) complexes was revealed using Hirshfeld Surface analysis supported by Enrichment Ratio calculations.

Crystallographic studies of BaR2ZnO5 (R=La, Nd, Dy, Ho, Er, and Y)

1998 ◽  
Vol 13 (3) ◽  
pp. 144-151 ◽  
Author(s):  
Winnie Wong-Ng ◽  
Brian Toby ◽  
William Greenwood
Keyword(s):  
Neutron Diffraction ◽  
Crystal Structures ◽  
Lattice Parameters ◽  
Trigonal Prism ◽  
X Ray Diffraction ◽  
Space Group ◽  
X Ray ◽  
Cell Parameters

The crystal structures of BaR2ZnO5, where R=La, Nd, Dy, Ho, and Y, were studied by neutron diffraction, and that of the Er analog was investigated by synchrotron X-ray diffraction. Two structure types were confirmed for this series of compounds and agreed with those reported in literature. The compounds with a smaller size of R (R=Dy, Ho, Y, and Er) are isostructural to the orthorhombic “green phase (BaY2CuO5)” compounds. The cell parameters for compounds with the R=Er to Dy range from a=7.0472(1) Å to 7.0944(1) Å, b=12.3022(1) Å to 12.3885(2) Å, and c=5.6958(1) Å to 5.7314(1) Å, respectively. R is 7-fold coordinated inside a monocapped trigonal prism. These prisms share edges to form wavelike chains parallel to the long b-axis. The Ba atoms reside in 11-fold coordinated cages. The compounds which contain a larger size R (R=La and Nd) crystallize in the tetragonal I4/mcm space group, but are not isostructural to the “brown phases” BaR2CuO5. The lattice parameters for the La and Nd analogs are a=6.9118(1) Å, c=11.6002(2) Å for BaLa2ZnO5, and a=6.7608(1) Å and c=11.5442(2) Å for BaLa2ZnO5. The structure consists of ZnO4 tetrahedral groups (instead of planar CuO4 groups as found in the brown phase) with Ba ions inserted in between. The structure can be viewed as consisting of alternate layers of Zn-Ba-O and Nd-O extending infinitely in the xy plane and perpendicular to the z-axis.

scholarly journals Expression, purification, crystallization and preliminary X-ray diffraction analysis of the dihydroorotase domain of human CAD

2012 ◽  
Vol 68 (11) ◽  
pp. 1341-1345 ◽  
Author(s):  
Nada Lallous ◽  
Araceli Grande-García ◽  
Rafael Molina ◽  
Santiago Ramón-Maiques
Keyword(s):  
De Novo ◽  
Structural Information ◽  
Protein Molecule ◽  
X Ray Diffraction ◽  
Orthorhombic Space Group ◽  
Data Set ◽  
X Ray ◽  
Cell Parameters ◽  
Small Crystals ◽  
Crystallization Experiments

CAD is a 243 kDa eukaryotic multifunctional polypeptide that catalyzes the first three reactions ofde novopyrimidine biosynthesis: glutamine-dependentcarbamyl phosphate synthetase,aspartate transcarbamylase anddihydroorotase (DHO). In prokaryotes, these activities are associated with monofunctional proteins, for which crystal structures are available. However, there is no detailed structural information on the full-length CAD protein or any of its functional domains apart from that it associates to form a homohexamer of ∼1.5 MDa. Here, the expression, purification and crystallization of the DHO domain of human CAD are reported. The DHO domain forms homodimers in solution. Crystallization experiments yielded small crystals that were suitable for X-ray diffraction studies. A diffraction data set was collected to 1.75 Å resolution using synchrotron radiation at the SLS, Villigen, Switzerland. The crystals belonged to the orthorhombic space groupC2221, with unit-cell parametersa= 82.1,b= 159.3,c= 61.5 Å. The Matthews coefficient calculation suggested the presence of one protein molecule per asymmetric unit, with a solvent content of 48%.

scholarly journals Crystal structures of synthetic 7 Å and 10 Å manganates substituted by mono- and divalent cations

1994 ◽  
Vol 58 (392) ◽  
pp. 425-447 ◽  
Author(s):  
Kenshi Kuma ◽  
Akira Usui ◽  
William Paplawsky ◽  
Benjamin Gedulin ◽  
Gustaf Arrhenius
Keyword(s):  
Crystal Structures ◽  
Diffraction Data ◽  
Divalent Cations ◽  
Unit Cell ◽  
Molar Ratio ◽  
X Ray Diffraction ◽  
Unit Cell Parameters ◽  
Monoclinic Crystal ◽  
X Ray ◽  
Cell Parameters

AbstractThe crystal structures of synthetic 7 Å and 10 Å manganates, synthetic birnessite and buserite, substituted by mono- and divalent cations were investigated by X-ray and electron diffractions. The monoclinic unit cell parameters of the subcell of lithium 7 Å manganate, which is one of the best ordered manganates, were obtained by computing the X-ray powder diffraction data: a = 5.152 Å, b = 2.845 Å, c = 7.196 Å, β = 103.08°. On the basis of the indices obtained by computing the X-ray diffraction data of Li 7 Å manganate, monovalent Na, K and Cs and divalent Be, Sr and Ba 7 Å manganates were interpreted as the same monoclinic structure with β = 100–103° as that of Li 7 Å manganate, from their X-ray diffraction data. In addition, divalent Mg, Ca and Ni 10 Å manganates were also interpreted as the same monoclinic crystal system with β = 90–94° The unit cell parameters, especially a, c and β, change possibly with the type of substituent cation probably because of the different ionic radius, hydration energy and molar ratio of substituent cation to manganese. However, these diffraction data, except for those of Sr and Ba 7 Å and Ca and Ni 10 Å manganates, reveal only some parts of the host manganese structure with the edge-shared [MnO6] octahedral layer. On the other hand, one of the superlattice reflections observed in the electron diffractions was found in the X-ray diffraction lines for heavier divalent cations Sr and Ba 7 Å and Ca and Ni 10 Å manganates. The reflection presumably results from the substituent cation position in the interlayer which is associated with the vacancies in the edge-shared [MnO6] layer and indicates that the essential vacancies are linearly arranged parallel to the b-axis. Furthermore, the characteristic superlattice reflection patterns for several cations, Li, Mg, Ca, Sr, Ba and Ni, manganates were interpreted that the substituent cations are regularly distributed in the interlayer according to the exchange percentage of substituent cation to Na+. In contrast, the streaking in the a-direction observed strongly in the electron diffractions for heavier monovalent cations, K and Cs, manganates probably results from the disordering of their cations in the a-direction in the interlayer.

Powder X-ray diffraction study of LaCo0.5Ni0.5O3−δ and LaCo0.5Fe0.5O3−δ

2003 ◽  
Vol 18 (2) ◽  
pp. 159-161 ◽  
Author(s):  
N. P. Vyshatko ◽  
V. V. Kharton ◽  
A. L. Shaula ◽  
F. M. B. Marques
Keyword(s):  
Diffraction Study ◽  
Crystal Structures ◽  
Solid Solutions ◽  
Unit Cell ◽  
X Ray Diffraction ◽  
Unit Cell Parameters ◽  
Space Group ◽  
X Ray ◽  
Cell Parameters

The crystal structures of LaCo0.5Ni0.5O3−δ and LaCo0.5Fe0.5O3−δ solid solutions, studied by powder X-ray diffraction, were found to be rhombohedral perovskite. The unit cell parameters in the hexagonal setting are a=5.491(6) Å and c=13.231(3) Å for LaCo0.5Fe0.5O3−δ, and a=5.464(4) Å and c=13.125(3) Å for LaCo0.5Ni0.5O3−δ. The space group is R3c (No. 167).

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