The crystal and molecular structure of methyl 2,4,6-tri-O-acetyl-3-O(2,3,4,6-Tetra-O-acetyl-β-d-glucopyranosyl)-β-d-glucopyranoside (methyl 2,3,4,6,2′,4′,6′,-hepta-O-acetyl-β-d-laminarabioside)

The crystal and molecular structure of methyl 2,3,4,6,2′,4′,6′-hepta-O-acetyl β-laminarabioside has been determined by X-ray diffraction. The crystal belongs to the orthorhombic system space group P2₁2₁2₁,a 10.471 (1), b 22.482(1), c 13.647(1) Å, D_m 1.33 g.cm^?3, Z 4. The structure was established by the direct method and refined by the block-diagonal, least-squares procedure to R 0.093 for 2043 observed reflections. Difference synthesis showed all the hydrogen atoms except the methyl hydrogen ones. The molecule shows a fully-extended conformation and has no intra-molecular hydrogen bond. The ring-to-ring conformation can be described.as (φψ)  (42.5, 4.7°), according to the definition of Sathyanarayana and Rao, and it is compared with (φψ)  (27.9, ?37.5°) of laminarabiose. There is no inter-molecular hydrogen bond. The d-glucopyranose rings of the molecule are piled up along the a axis and approximately parallel to the bc-plane. Each of the acetyl groups is approximately perpendicular to the d-glucopyranose ring.     

Crystal structure at 87 K of sodium α-l-guluronate dihydrate

X-Ray data collected at 87 K showed crystals of sodium α-l-guluronate dihydrate (C₆H₉O₇Na · 2 H₂O) to be orthorhombic, P2₁2₁2₁ with a = 7.591(2), b = 18.884(5), c = 6.842(2) Å, and Z = 4. The structure was solved by direct methods, and full-matrix least-squares refinement based on 1587 F_o yielded R = 0.043 and R_w = 0.033. The structure analysis indicates partial anomeric disorder with α:β ～90:10. The guluronate ring has the ¹C₄(l) conformation. Sodium binds two translation-equivalent guluronate units and one water molecule in a primary five-fold coordination. The complexing oxygen functions, which include all axial hydroxyl groups and one carboxylate oxygen atom in the guluronate ring, describe a distorted trigonal bipyramid. A prominent feature of the crystal structure is the stacks of sodium atoms and guluronate residues in alternating sequence along the c axis. The stacks are held together by an intricate system of hydrogen bonds involving all oxygen atoms in the structure. The water molecules play an important role in this system both as hydrogen donors and acceptors.     

The complexes with end-to-end dicyanamide bridges: syntheses, characterization and crystal structures of [Cu(μ1,5-dca)2(phen)]n and [Cd(μ1,5-dca)2(py)2]n (phen=phenanthroline; py=pyridine; dca=dicyanamide, N(CN)2 )

Two new dicyanamide (dicyanamide=[N(CN)₂]⁻, dca) bridged complexes, [Cu(μ_1,5-dca)₂(phen)]_n (1) and [Cd(μ_1,5-dca)₂(py)₂]_n (2) have been synthesized and their structures have been determined by X-ray crystallography diffraction. Complex 1 crystallizes in the monoclinic space group P2(1)/c with a=10.1502(3), b=10.9815(4), c=14.5839(4) Å and Z=4. The adjacent copper atoms are connected by single end-to-end dca bridges to form a chain structure along the b axis. The chains are linked via Cu?N weak interactions to give rise to a 2D layer structure, which furthermore into a 3D structure by the π-π interaction between aromatic rings of adjacent layers. Complex 2 crystallizes in the monoclinic space group C2/m with a=6.6849(10), b=17.476(2), c=13.231(2) Å and Z=4. The cadmium(II) center is six-coordinated with a distorted octahedral geometry, bounded to four N atoms of four dca ligands and two N atoms of two-chelated py ligands. Neighbor Cd(II) atoms are linked by the double end-to-end dca bridges to generate a chain structure, which result in a 2D layer structure through the π-π interactions between the adjacent chains with distances 3.641 Å. EPR and magnetic results of 1 suggest that the complex exhibits a weak ferromagnetic interaction through CuNCNCNCu pathways.     

The crystal and molecular structure of cyclo-[-(D-Val-Hyi-Val-D-Hyi)3-] (meso-valinomycin,C60H102N6O18)

The crystal structure of the valinomycin analog, cyclo-[(-D -Val-Hyi-Val-D -Hyi-)₃-] (meso-valinomycin, C₆₀H₁₀₂N₆O₁₈) has been determined by direct x-ray diffraction procedures. The crystals are triclinic, space group P1 , number of molecules per unit cell Z = 1, and cell parameters a = 11.831, b = 13.815, c = 14.889 Å, α = 109.54°, β = 116.10°, γ = 98.89°. The atomic coordinates for the C,N,O atoms were refined in the anisotropic thermal motion approximation and for the H atoms in the isotropic approximation to R = 0.07. The structure is centrosymmetric and has a threefold axis of pseudosymmetry. The depsipeptide chain is in the form of a bracelet stabilized by six identical intramolecular 4 → 1 hydrogen bonds between the amide C?O and NH groups. The ester carbonyls are oriented towards the symmetry axis, their O atoms forming an ellipsoidal molecular cavity. The isopropyl side chains are located on the molecular periphery. The structure found differs considerably from the conformation of the crystalline naturally occurring antibiotic, valinomycin, but completely resembles that of valinomycin and meso-valinomycin in nonpolar solvents. In the crystal, meso-valinomycin molecules form stacks. The molecular cavities situated in the stacks one above the other along the pseudo-C₃ axis form a continuous channel, the internal surface of which is lined by O atoms. The possible conformations of depsipeptides of the valinomycin series and their mode of action in membranes are discussed in the light of the data obtained.     

Synthesis, characterization and thermal decomposition of dioxouranium(VI) complexes with N,N-diarylidene-S-propyl-thiosemicarbazone: Crystal structure of [UO2(L)(C4H9OH)]

Reactions of salicyl- and 3,5-dichlorosalicylaldehyde-S-propyl-thiosemicarbazones with salicyl- and 3,5-dichlorosalicylaldehyde in the presence of UO₂(CH₃COO)₂ in different alcohols yielded stable solid complexes corresponding to the general formula [UO₂(L)ROH] (R: propyl-, butyl-, pentyl-, and octyl-). The complexes were characterized by means of elemental analysis, IR and ¹H NMR spectroscopies. The thermal stabilities of the alcohol solvated complexes were investigated in air and nitrogen atm., and determined their decomposition phases. In the crystal structure of the [UO₂(L)(C₄H₉OH)], the U(VI) centre is seven-coordinated in a distorted pentagonal bipyramidal geometry involving O,O,N,N atoms of two phenolic and two imine groups and one oxygen atom of alcohol molecule in basal plane and two O atoms of dioxo group in apical positions. The title structure is stabilized by one intramolecular interaction of types C-H?Cl and by two intermolecular interactions of types O-H?O and C-H?π (benzene) leading to the molecular chain along the [0 1 0] direction.     

Crystal and molecular structure of isoleucinomycin,cyclo[-(D-Ile-Lac-Ile-D-Hyi)3-](C60H102N6O18)

The crystal structure of a synthetic analog of valinomycin, cyclo[-(D -Ile-Lac-Ile-D -Hyi)₃-] (C₆₀H₁₀₂N₆O₁₈), has been determined by x-ray diffraction procedures. The crystals are orthorhombic, space group P2₁2₁2₁, with cell parameters a = 11.516, b = 15.705, c = 39.310 Å, and Z = 4. The atomic coordinates for the C, N, O atoms were refined in the anisotropic thermal motion approximation and for the H atoms in the isotropic approximation. Values of standard (R) and weighted (R_w) reliability factors after refinement are 0.073 and 0.056, respectively. The structure is completely asymmetric. The cyclic molecular backbone is stabilized by six intramolecular hydrogen bonds N? H…?O?C, five bonds being of the 4→1 type and one being of the 5→1 type. The side chains are located on the molecular periphery. The conformational state of isoleucinomycin in the crystal is intermediate between the corresponding crystalline states of valinomycin and meso-valinomycin. The observed conformation suggests that complexation could proceed via entry of the ion at the face possessing the L -Lac residues, the less crowded face.     

Studies on the metalamide bond. XIX. A comparison of molecular distortions in the crystal structures of [N,N′-bis(2′-pyridinecarboxamido)-1,2-benzene] nickel(II) with its 6′-methyl-substituted Analogue

[N,N′-Bis(pyridine-2′-carboxamide)-1,2-benzene]nickel(II) monohydrate, C₁₈H₁₄N₄O₃Ni, crystallizes in the monoclinic space group C2/c with a = 14.240(4), b = 20.071(3), c = 16.275(2) Å,β = 97.25(2)^o, Z = 12 and its crystal structure has been refined to R = 0.033 for 3597 diffractometer data. [N,N′-Bis(6′-methylpyridine-2′-carboxamide)-1,2- benzene]nickel(II) monohydrate, C₂₀H₁₈N₄O₃Ni, crystallizes in the orthorhombic space group Pbca with a = 10.14(2) b = 17.12(2), c= 21.11(5) Å, Z = 8 and its crystal structure has been refined to R = 0.088 for 1979 photographic data. In both structures the nickel atoms are four coordinate with the ligands acting as N₄ tetradentates. For the first mentioned complex the structure consists of two independent molecules one of which is constrained, by space group requirements, to have C₂ (2) symmetry. These two molecules are closely similar and both exhibit nearly planar molecular arrangements with a small tetrahedral twist of up to 4^o at the nickel atoms. In the second complex the methyl substitution at the 6′-pyridyl positions causes severe steric strain in the molecule which gives rise to a 14.9^o tetrahedral twist at the nickel atom and approximately 25% pyramidal distortion at both amide nitrogen atoms. The resulting methyl-methyl separation of 3.26(1) Å is considerably less than the sum of the van der Waals radii for two such groups. This close separation leads to carbon-acid character for the methyl group protons which are shown to exchange for deuterons in NMR studies. A full analysis of the out-of-plane distortions and torsion angles of the two structures and a comparison with the previously reported analogous copper structures are made.     

Crystal and molecular structure of [N,N′-ethylenebis(methyl-2-amino-1-cyclopentenedithiocarboxylato)]copper(II): A quantitative relationship between tetrahedral distortion and redox potentials in copper N2S2 compounds and the relevance to type I copper(II) centers

The crystal and molecular structure of the copper(II) complex of the N₂S₂ tetradentate ligand, ethylenebis(methyl-2-amino-1-cyclopentenedithiocarboxylate), was solved at room temperature by a single crystal x-ray diffraction study. The complex crystallizes in the orthorhombic space group P2₁2₁2₁ with a = 7.739(1) Å, b = 13.893(2) Å, c = 17.096(3) Å, V = 1838(1) ų, ?_observed = 1.56 g cm^?3 and ?_calculated = 1.57 g cm^?3 for a molecular weight of 434.2, and Z = 4. Diffraction data were collected with a Syntex P$\text{1}$ diffractometer using graphite-monochromatized Cu (λ = 1.5418 Å) radiation. The heavy atoms were located from a Patterson synthesis; all other nonhydrogen atoms were located using difference Fourier techniques, and hydrogen atoms were placed in calculated positions. Final refinement resulted in discrepancy indices of R = 0.067 and goodness of fit of 2.92 for all 995 reflections (5° < 2θ < 100°) greater than three times their standard deviation. The molecules are monomeric and well separated. Bond distances in the two ”halvesldquo; of the ligand are sufficiently different to suggest that different resonance structures exist in each portion. This agrees with the rhombic symmetry displayed by the frozen glass esr spectrum of the compound (_xx ≠ g_yy). The dihedral angle between the planes defined by the CuN₂ and CuS₂ planes is 20.0°, indicating a rather distorted inner coordination sphere. The copper(II)-copper(I) reduction potentials found for this compound and the trimethylene and tetramethylene analogs were determined to be ?1.01, ?0.79, and ?0.64 V respectively. A quantitative relationship between tetrahedral distortion and redox potentials is obtained, and these results are discussed in terms of ”blueldquo; copper(II) sites in proteins. Trends in CuS and CuN bonding patterns in the same three compounds are discussed with regard to the short CuS (cys) bond distance in plastocyani Finally, a brief discussion of the optical spectra of these three compounds, their variation, and their significance with respect to tetrahedral symmetry in copper(II) protein sites is presented.     

Synthesis and crystal structure of a tetranuclear five-coordinated copper(II) complex with Schiff-base of N-(3-carboxylsalicylidene)-4-(2-iminoethyl)-morpholine

A tetranuclear copper(II) complex [Cu₄L₂(CH₃COO)₂(OH)₂]·6H₂O, in which L stands for the dianion of N-(3-carboxylsalicylidene)-4-(2-iminoethyl)morpholine, was synthesized and characterized by elemental analysis, IR, UV-Vis, TGA and X-ray single crystal diffraction. The crystal structure shows that the coordination unit is centrosymmetric with all the Cu(II) ions in square pyramidal coordination geometry. The coordination unit consists of two equivalent parts [Cu₂L(CH₃COO)(OH)], each containing two Cu(II) ions, a tetradentate N₂O₂ Schiff base dianion L²⁻, a CH₃COO⁻, and a OH⁻ anion. In [Cu₂L(CH₃COO)(OH)], the six coordination atoms (N₂O₄) are nearly coplanar, with Cu(1) and Cu(2) enchased in between; the phenolate oxygen and the OH⁻ oxygen as bridging atoms bind the two Cu(II) ions in close proximity; both O₄ around Cu(1) and N₂O₂ around Cu(2) form the basal plane of the coordination square pyramids. The two parts are connected by sharing two μ₃-OH⁻ oxygens and two μ₂-CH₃COO⁻ oxygens from each other, forming four edge-sharing coordination square pyramids around the four Cu(II) ions. A 3D network is formed through hydrogen bonding along a and c axis, and π-π interaction along b axis.     

The X-ray crystal structure of 2,5-anhydro-l-iditol

The crystal and molecular structure of 2,5-anhydro-l-iditol (1) has been determined by X-ray diffraction using direct methods to a final residual value of R = 0.051 for 1151 reflections. The crystals of 1 are orthorhombic, space group P2₁2₁2₁, a = 739.9 (4), b = 902.0 (5), c = 1109.1 (6) pm, with four molecules in the unit cell. In the crystal, the molecule does not show the expected C₂ symmetry: the ring CO bonds differ in length (145.0 vs. 143.6 pm) and the conformation of the tetrahydrofuran ring deviates slightly from the ideal ³T₄(l) arrangement (puckering parameters Q = 39.9 pm, Phi = 95.5°). Molecules are interlinked by a network of strong intermolecular hydrogen-bonding involving all hydroxyl groups. Except for O-3, all oxygen atoms act as acceptors in this pattern.     

K2[Zn(CV)2(H2O)2] · 2H2O: The first Zn(II) complex structurally characterized containing the pseudo-oxocarbon Croconate Violet (CV)

The synthesis, thermal behavior, spectroscopic characterization and crystal and molecular structure of a Zn(II) complex containing the pseudo-oxocarbon Croconate Violet (CV²⁻) dianion, namely K₂[Zn(CV)₂(H₂O)₂] · 2H₂O are reported. Thermal analysis has shown that the complex structure presents coordination and lattice water molecules. According to vibrational spectroscopy the Croconate Violet dianion is coordinated to Zn(II) center through the vicinal oxygen atoms in a chelating fashion with no involvement of CN moieties. The complex structure has been confirmed by single crystal X-ray diffraction analysis. The dianionic units [Zn(CV)₂(H₂O)₂]²⁻ adopt an slight distorted octahedral geometry in which the metallic center is surrounded by six oxygen atoms. These discrete dianionic units are connected through intermolecular hydrogen bonding giving rise to a supramolecular array extended along the crystallographic a axis.     

Structure of the integrin alpha2beta1-binding collagen peptide

We have determined the 1.8 Å crystal structure of a triple helical integrin-binding collagen peptide (IBP) with sequence (Gly-Pro-Hyp)₂-Gly-Phe-Hyp-Gly-Glu-Arg-(Gly-Pro-Hyp)₃. The central GFOGER hexapeptide is recognised specifically by the integrins α2β1, α1β1, α10β1 and α11β1. These integrin/collagen interactions are implicated in a number of key physiological processes including cell adhesion, cell growth and differentiation, and pathological states such as thrombosis and tumour metastasis. Comparison of the IBP structure with the previously determined structure of an identical collagen peptide in complex with the integrin α2-I domain (IBP^c) allows the first detailed examination of collagen in a bound and an unbound state. The IBP structure shows a direct and a water-mediated electrostatic interaction between Glu and Arg side-chains from adjacent strands, but no intra-strand interactions. The interactions between IBP Glu and Arg side-chains are disrupted upon integrin binding. A comparison of IBP and IBP^c main-chain conformation reveals the flexible nature of the triple helix backbone in the imino-poor GFOGER region. This flexibility could be important to the integrin-collagen interaction and provides a possible explanation for the unique orientation of the three GFOGER strands observed in the integrin-IBP^c complex crystal structure.     

On the Structure of the Proton-Binding Site in the Fo Rotor of Chloroplast ATP Synthases

The recently reported crystal structures of the membrane-embedded proton-dependent c-ring rotors of a cyanobacterial F₁F_o ATP synthase and a chloroplast F₁F_o ATP synthase have provided new insights into the mechanism of this essential enzyme. While the overall features of these c-rings are similar, a discrepancy in the structure and hydrogen-bonding interaction network of the H⁺ sites suggests two distinct binding modes, potentially reflecting a mechanistic differentiation. Importantly, the conformation of the key glutamate side chain to which the proton binds is also altered. To investigate the nature of these differences, we use molecular dynamics simulations of both c-rings embedded in a phospholipid membrane. We observe that the structure of the c₁₅ ring from Spirulina platensis is unequivocally stable within the simulation time. By contrast, the proposed structure of the H⁺ site in the chloroplast c₁₄ ring changes rapidly and consistently into that reported for the c₁₅ ring, indicating that the latter represents a common binding mode. To assess this hypothesis, we have remodeled the c₁₄ ring by molecular replacement using the published structure factors. The resulting structure provides clear evidence in support of a common binding site conformation and is also considerably improved statistically. These findings, taken together with a sequence analysis of c-subunits in the ATP synthase family, indicate that the so-called proton-locked conformation observed in the c₁₅ ring may be a common characteristic not only of light-driven systems such as chloroplasts and cyanobacteria but also of a selection of other bacterial species.     

Topography of cyclodextrin inclusion complexes : Part II. The iodine-cyclohexa-amylose tetrahydrate complex; its molecular geometry and cage-type crystal structure

Iodine-cyclohexa-amylose tetrahydrate [(C₆H₁₀O₅)₆ ·I₂·d4H₂O] crystallizes in the orthorhombic space-group P2₁2₁2₁, a  14.240 Å, b  36.014 Å, c  9.558 Å. The structure was solved by heavy-atom techniques and refined by least-squares methods to a conventional discrepancy index R  0.148 for the 2872 observed data. The six d-glucose residues are in the C1 chair conformation; the conformational angles vary in magnitude from 45 to 66°, the angles O(5)-C(5)-C(6)-O(6) are close to · 70°, and the six O(4) atoms are almost coplanar (r.m. s. displacement 0.13 Å). Only four of the six O(2) ?O(3) intramolecular hydrogen bonds have formed, which renders the molecule less symmetrical and more conical-shaped than in the previously determined α-cyclodextrin-potassium acetate complex. The iodine molecule is coaxial with the cyclohexa-amylose molecule. The I-I distance is a conventional 2.677 Å. Close interactions between the iodine atoms and the host molecule comprise carbon atoms C(5) and C(6) and oxygen atoms O(4), with interatomic distances all equal to or greater than van der Waals contacts. Intermolecular, almost-linear, short contacts O ? I-I?O with I?O distances of 3.22 and 3.07 Å indicate attractive interaction.The molecules are arranged in herring-bone “cage-type” fashion, with the four water molecules as space-filling mediators; the structure is held together by an intricate network of hydrogen bonds.     

Mixed-bridged bimetallic d8 complexes. Crystal and molecular structure of (η3-C3H5)Pd(μ-pz)(μ-N3)Rh(CO)2, heterobinuclear complex with extended Rh⋯Rh interactions

The preparation and properties of binuclear complexes containing the pyrazolate and azide groups as bridging ligands are reported. Representative formulae are: M₂(μ-pz)(μ-N₃)(CO)₄, M₂(μ-pz)(μ-N₃)- (COD)₂ (M = Rh or Ir), (CO)₂Rh(μ-pz)(μ-N₃)ML₂ (M = Rh, L₂ = COD, M = Ir, L = CO) and (η³-C₃H₅)- Pd(μ-pz)(μ-N₃)Rh(CO)₂. The crystal and molecular structure of the latter complex has been determined by single-crystal X-ray methods. Crystals are monoclinic, space group C₂/c with cell constants a = 18.4750(10), b = 10.0351(3), c = 13.6399(6) Å, α = 90, β = 100.022(4), γ = 90°, and Z = 8. The final R and R_w values were 0.051 and 0.062 for 1417 observed reflexions. This binuclear compound packs in the crystal zig-zag chains of rhodium atoms, along the c axis, wtth intermolecular Rh···Rh contacts of 3.290(1) and 3.604(1) Å. The Rh···Rh···Rh angle is 163.16(4)°.     

Coordination chemistry of 7,9-disubstituted 6-oxopurine metal compounds. 4. Platinum(II) coordination at N(1). Molecular and crystal structure of [(ethylenediamine)bis(7,9-dimethylhypoxanthine)platinum(II)] hexafluorophosphate

The preparation and molecular and crystal structure of the complex [(ethylenediamine)bis(7,9,-dimethylhypoxanthine)platinum(II)] hexafluorophosphate, [Pt(C₂H₈N₂)(C₇H₈N₄O)₂] (PF₆)₂, are reported. The complex crystallizes in the monoclinic system, space group C2/c, with a = 12.334(2)Å, b = 10.256(2)Å, c = 22.339(3)Å, β = 101.31(1)°, V = 2771.0ų, Z = 4, D_measd = 2.087(3) g cm^?3, D_calc = 2.094 g cm^?3. Intensities for 3992 symmetry-averaged reflections were collected in the θ-2o scan mode on an automated diffractometer employing graphite-monochromatized MoKα radiation. The structure was solved by standard heavy-atom Patterson and Fourier methods. Full matrix least-squares refinement led to a final R value of 0.051. Both the ethylenediamine chelate and the PF₆^? anion are disordered. The primary coordination sphere about the Pt(II) center is approximately square planar with the bidentate ethylenediamine ligand and the N(1) atoms [Pt(II) ? N(1) = 2.020(5)Å] of two 7,9-dimethylhypoxanthine bases (related by a crystallographic twofold axis of symmetry) occupying the four coordination sites. The exocyclic O(6) carbonyl oxygen atoms of the two 7,9-dimethylhypoxanthine ligands participate in intracomplex hydrogen bonding with the amino groups of the ethylenediamine chelate [N(ethylenediamine) ? O(6) = 2.89( )Å]. The observed Pt ? O(6) intramolecular distances of 3.074(6)Å are similar to those found in other Pt(II) N(1)-bound 6-oxopurine complexes and in several Pt(II) N(3)-bound cytosine systems.     

How do halogen bonds (S–O⋯I,N–O⋯I and C–O⋯I) and halogen–halogen contacts (C–I⋯I–C,C–F⋯F–C) subsist in crystal structures? A quantum chemical insight

Thirteen X-ray crystal structures containing various non-covalent interactions such as halogen bonds, halogen–halogen contacts and hydrogen bonds (I?N, I?F, I?I, F?F, I?H and F?H) were considered and investigated using the DFT-D3 method (B97D/def2-QZVP). The interaction energies were calculated at MO62X/def2-QZVP and MP2/aug-cc-pvDZ level of theories. The higher interaction and dispersion energies (2nd crystal) of ?9.58 kcal mol^?1 and ?7.10 kcal mol^?1 observed for 1,4-di-iodotetrafluorobenzene bis [bis (2-phenylethyl) sulfoxide] structure indicates the most stable geometrical arrangement in the crystal packing. The electrostatic potential values calculated for all crystal structures have a positive σ-hole, which aids understanding of the nature of σ-hole bonds. The significance of the existence of halogen bonds in crystal packing environments was authenticated by replacing iodine atoms by bromine and chlorine atoms. Nucleus independent chemical shift analysis reported on the resonance contribution to the interaction energies of halogen bonds and halogen–halogen contacts. Hirshfeld surface analysis and topological analysis (atoms in molecules) were carried out to analyze the occurrence and strength of all non-covalent interactions. These analyses revealed that halogen bond interactions were more dominant than hydrogen bonding interactions in these crystal structures.

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Graphical Abstract Molecluar structure of 1,4-Di-iodotetrafluorobenzene bis(thianthrene 5-oxide) moelcule and its corresponding molecular electrostatic potential map for the view of σ-hole.

     

Generation of allantoin from the oxidation of urate by cytochrome c and its possible role in Reye's syndrome

Allantoin in the presence of calcium ions has been implicated as a potential toxic agent in Reye's syndrome. An investigation of possible alternative sources of allantoin in humans, which lack the enzyme uricase, has been initiated. Urate is a strong reducing agent which can reduce cytochrome c nonenzymatically, with the concomitant production of CO₂ and H⁺. The stoichiometries measured for the various reactants and products were 1 urate:2 cytochrome c:1 H⁺:1 CO₂. The initial reaction rate depended on the concentrations of both urate and cytochrome c, with reaction kinetics that were first order with respect to urate and second order with respect to cytochrome c. The participation of molecular oxygen in this reaction could not be detected. The pH and ionic strength optima for this reaction were determined to be 9.5–10.5 and 10⁻⁵m, respectively. Based on the results reported here, the following balanced equation can be written: urate⁻² + 2 cytochrome c⁺³ + 2 H₂O → allantoin + 2 cytochrome c⁺² + H⁺ + HCO₃⁻. We propose that allantoin can be generated from the oxidation of urate by cytochrome c⁺³, and that this is a potential source of allantoin in human tissues.     

Crystal Structure of Organolanthanide Complexes [Li(THF)2]2 (μt-Cl)4(η5-C5 H5 )Ln·THF (Ln = La,Nd)

The crystal and molecular structures of the title compounds have been determined from single crystal X-ray diffraction. The two complexes crystallize in the orthorhombic space group Pna2₁ with Z = 4. Lattice parameters are: a = 10.504(2) [10.522(2)], ¹b = 16.816(4) [16.927(3)] and c = 18.931(4) [18.969(3)] Å. The two crystals are isomorphous. The structures were solved by Patterson and Fourier techniques and refined by least-squares techniques to R = 0.0430 for 1508 reflections. The Nd³⁺. ion is eight-coordinate, being bonded to five carbons of the cyclopentadiene ring, to four chloride atoms and to the one oxygen atom of the THF ring. The NdC distances are in the range 2.67–2.85 Å (average: 2.77 Å) and Nd-Cl distances are in the range 2.76–2.80 Å (average: 2.78 Å). The Nd-O distance is 2.52 A. The Li⁺ ion is four-coordinate, being bonded to the two chloride atoms and to the two oxygen atoms of the two THF rings. The other Li⁺ ion is the same as the above. The Li-Cl distances are in the range 2.17– 2.55 Å (average: 2.35 A) and LiO distances are in the range 1.89–1.98 Å (average: 1.91 Å). The Nd atom and the two Li atoms are bridged asymmetrically by the chloride ions, respectively.     

Crystal structure of the koh-amylose complex

The crystal structure of potassium hydroxide complexed amylose, obtained by heterogeneous deacetylation of amylose triacetate, has been determined through a combined stereochemical structure-refinement and X-ray diffraction-analysis. The structure crystallizes in an orthorhombic unit-cell with parameters a  8.84, b  12.31, and c (fiber repeat)  22.41 Å, and with P2₁2₁2₁ symmetry. The conformation of the amylose chain is a distorted, left-handed helix with 6 d-glucose residues per turn. Each three-residue asymmetric unit is complexed with one molecule of potassium hydroxide and three molecules of water. The K⁺ ion coordinates with four oxygen atoms of the amylose chain and with two other oxygen atoms, and this coordination is probably the cause for the more-extended amylose chain-conformation than would be predicted from a φ, ψ map. The distortions in the chain are primarily manifested by different O-6 rotations and by slightly different bridge and φ, ψ angles for the individual residues. The structure is extensively hydrogen bonded, although largely through water molecules, which accounts for its ready water solubility. The left-handed conformation of the chain in this structure is consistent with the conformations of amylose triacetate and V-amylose, both of which are left-handed.