Crystal structures of 3,5,5′-trichloro-2,2′-bithiophene and 3,3′,5,5′-tetrachloro-2,2′-bithiophene

The crystal structures of 3,5,5-trichloro-2,2-bithiophene (I) and 3,3,5,5-tetrachloro-2,2-bithiophene (II) have been determined by single crystal X-ray diffraction techniques. BothI andII crystallize in the monoclinic crystal system. ForI,a=3.895(2),b=11.928(2),c=10.701(2)Å,=97.70(1)°, space groupP2₁,Z=2 and forII,a=8.942(2),b=3.900(2),c=15.180(2)Å,=92.30(1)°, space groupP2₁/n,Z=2. The structures have been solved by direct methods and all nonhydrogen atoms refined with anisotropic thermal parameters. ForI the final residual is 0.035 (all 1185 independent reflections, MoK radiation) and forII, 0.034 (all 1209 independent reflections, MoK radiation). BothI andII have theanti conformation butI has a torsion angle of 3.4(5)° between the two thiophene rings whileII is completely planar.     

A novel class of naturally occurring halogenated pyrroles, 1,1′-dimethyl-3,3′,4,4′,5,5′-hexabromo-2,2′-bipyrrole, 5,5′-dichloro-1,1′-dimethyl-3,3′,4,4′-tetrabromo-2,2′-bipyrrole, and 1,1′-dimethyl-3,3′,4,4′,5,5′-hexachloro-2,2′-bipyrrole

Crystal structure determinations of the three title hexahalogenated bipyrroles, (I) C₁₀H₆Br₆N₂, (II) C₁₀H₆Br₄Cl₂N₂, and (III) C₁₀H₆Cl₆N₂, reveal essentially planar pyrrole rings having dihedral angles of 64.7, 65.1, and 64.2° between the least-squares planes, favoring in each case a closer methyl–halogen conformation. All three complexes crystallize in the orthorhombic space group Pbcn with the following cell dimensions: (I) a = 12.654(3) Å, b = 8.853(2) Å, c = 13.753(3) Å, = = = 90°, Z = 4; (II) a = 12.438(6) Å, b = 8.753(6) Å, c = 13.696(3) Å, = = = 90°, Z = 4; (III) a = 12.088(6) Å, b = 8.566(4) Å, c = 13.486(8) Å, = = = 90°, Z = 4.     

Preparation and Reactivity of 4,4′-diaminostilbene-2,2′disulphonate

The precursor compound 4,4′-diaminostilbene-2,2′disulphonic acid DAS-(SO₃H)₂ was successfully deprotonated through reactions with (n-Bu₄N)(OH) and NaOH to produce the corresponding salts sodium 4,4′-diaminostilbene-2,2′disulphonate Na₂(DAS-(SO₃)₂) (1) and tetrabutylammonium 4,4′-diaminostilbene-2,2′disulphonate (n-Bu₄N)₂(DAS-(SO₃)₂) (2). The structure of (n-Bu₄N)₂(DAS-(SO₃)₂) (2) was confirmed through the use of single crystal X-ray diffraction. Compound (2) crystallizes in the monoclinic space group P2₁/n with the lattice parameters of a = 10.0645(6), b = 14.2573(9), c = 17.6053(11), and β = 94.3160(10). The reaction of Cu²⁺(aq) with (n-Bu₄N)₂(DAS-(SO₃)₂) resulted in the crystallization of the molecular organocopper cluster, [CuDAS-(SO₃)₂]₂·3H₂O (3), that resembles a molecular parallelogram as revealed by single crystal X-ray diffraction. Compound (3) crystallizes in the monoclinic space group P2₁/n with the lattice parameters of a = 8.8647(6), b = 10.5247(7), c = 21.2265(14), and β = 93.1730(10). Within the structure of (3) each [DAS-(SO₃)₂]²⁻ ligand is shown to bind two copper atoms through interactions with three of the five available metal binding sites.

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Graphical abstract Preparation and Reactivity of 4,4′-diaminostilbene-2,2′disulphonate Natalie C. Rader, Heather A. Nees, Paul S. Szalay*, Matthias Zeller and Allen D. Hunter The preparation of 4,4′-diaminostilbene-2,2′disulphonic and its reactivity with copper(II) are described.

     

Structure of 2,2′-anhydro-3′-O-acetyl-2′thio-1-β-D-arabinofuranosylcytosine hydrochloride1

2,2-Anhydro-3-O-acetyl-2-thio-1--D-arabinofuranosylcytosine hydrochloride crystallizes in space group P2₁2₁2₁ witha=10.373(1),b=14.517(2),c=9.496(1) Å. Reflections were measured on a diffractometer and the structure was solved by direct methods. Least-squares refinement converged atR=0.056 andR _w =0.063. The study of this crystal structure showed that the alterations in the geometry of 2,2-anhydro-1--D-arabinofuranosylcytosine when the bridge oxygen is replaced by sulfur are localized in the region of the fused ring. The angle at the bridge atom decreases to nearly 90°, with concomitant enlargements of about 5°–7° in the angles opposite to the bridge atom. Angle C(1)-N(1)-C(6) decreases by 4°. Also, the amount of double bond character in the bond formed by C(2) and the bridge atom decreases. A survey of the conformational features of S,2-cyclonucleosides and comparison with O,2-cyclonucleosidcs showed that their preferred conformations are the same. However, S,2-cyclonucleosides exhibit a wider range of P and values. This correlates with a greater ease of the sulfur containing five-membered ring to pucker as compared to the oxygen-cyclo ring.This paper is part of the authors' dissertation (Vitali, 1986).     

Crystal structures of two substituted biphenyl derivatives: 5,5′-di t-butyl-2-2′-biphenyldiol and 5,5′-dimethyl-2,2′-biphenyldiol

5,5-Di t-butyl-2,2-biphenyldiol (I), C₂₀H₂₆O₂, crystallizes in the orthorhombic space group P2₁2₁2₁ with a = 18.243(2), b = 9.947(2), c = 9.685(3) Å, and Z = 4; 5,5-dimethyl-2,2-biphenyldiol (II), C₁₄H₁₄O₂, crystallizes in the monoclinic space group P2₁/c with a = 9.959(2), b = 7.932(3), c = 15.392(2) Å, = 105.43(2)°, and Z = 4. The aromatic rings are tilted by 52.7(1) and 43.8(1)° to each other in compounds (I) and (II), respectively. Strong intra- and inter-molecular H-bonds connect the molecules in the crystals.     

X-ray Crystal Structures of Silver Based Molecules Containing 5,5′-Dimethyl-2,2′-bipyridine and 2,2′-bipyridine

Abstract  

The reaction of AgBF₄ with 5,5′-dimethy-2,2′-bipyridine and 2,2′-bipyridine yields three previously unreported compounds. The molecular structures of these compounds were obtained by single-crystal X-ray diffraction. Crystallization of 1 occurs in the centrosymmetric triclinic space group P-1 (No. 2) with a = 13.0069(6), b = 13.5903(6), c = 13.9489(6); and α = 95.677(2), β = 98.995(2), γ = 101.716(2) and Z = 6. Crystallization of 2 occurs in the centrosymmetric monoclinic space group C2/c (No. 15) with a = 23.413(3), b = 11.2116(13), c = 13.0653(13) and β = 123.074(3), and Z = 4. Crystallization of 3 occurs in the centrosymmetric triclinic space group P-1 (No. 2) with a = 12.6843(12), b = 12.8834(13), c = 12.9887(13), and α = 96.172(5), β = 95.149(5), γ = 98.051(6) and Z = 2. Details of the synthesis and the structural characterization of the title compounds are presented and discussed.     

Synthesis and crystal structure of 1-(1′,3′-dimethyl-5′-chloropyrazol-4′-carbonyl′-3-(2′-chlorophenyl)-5-amino-4-cyanopyrazole

The title compound 1-(1,3-dimethyl-5-chloropyrazol-4-carbonyl)-3-(2-chlorophenyl)-5-amino-4-cyanopyrazole (C₁₆H₁₂Cl₂N₆O) has been synthesized and characterized by X-ray diffraction: Triclinic, space group P1, with a = 8.6712(8) Å, b = 9.5091(10) Å, c = 11.2170(11) Å = 71.531(2)°, = 84.683(2)°, = 74.099(2)° Z = 2; V = 843.7(14) ų. C(10), O(1), C(11), and N(2) atoms are coplanar with the average deviation of 0.0071 Å, which form 11.03° and 43.93° dihedral angles with pyrazole planes (I) and (II), respectively.     

X-ray structure of 4-chloro-3′-methylthio-3,4′-diquinolinyl sulfide

The title compound crystallizes in a monoclinic space groupP2₁/n witha=9.524(3),b=6.782(2),c=26.217(6) Å, =92.52(4)°. The values of the Cl...S and S...S distances are well below the sum of the van der Waals radii of the heteroatoms. Also, the Cl–C–C(S) and (Cl)C–C–S bond angles are below the standard 120°. This indicates a attractive interaction between both pairs ofortho-situated heteroatoms.Part XXXVIII in the Series of Azinyl Sulfides.     

A structural investigation of ethyl 3′-methyl-6-methoxy-5′-oxo-1,2-cyclopent-3′-enonaphthalene-4′-acetate,C19H18O4

The crystal and molecular structure of the title compound has been determined from X-ray diffraction data using radiation. The compound crystallizes in the triclinic space group witha=8.351(1),b=9.348(2),c=10.736(2) Å,=91.19(2),=90.07(2), =110.18(1)°, andZ=2. The structure was solved by direct methods and a full-matrix least-squares refinement converged to a finalR=0.057 for 2522 unique reflections with I3(I). The cyclopentenonaphthalene ring system is planar (mean deviation, 0.028 Å). The molecules are held together by van der Waals forces. Averaged C-O bond lengths are: C(sp²)-O=1.357(18); C(sp³)-O=1.448(12); and C=O=1.210(14) Å.     

Structure of 2-(2′-bromo-5′-nitrostyryl)benzothiazole

The title compound C₁₅H₉BrN₂O₂S (brnsb) is monoclinic, witha=7.730(2),b=26.847(5),c=7.773(2) Å,=117.48(1)°,V=1431(1) ų,Z=4,D _x=1.677,(MoK)=29.9 cm^–1,F(000)=720,T=298K in space groupP2₁/c. The structure was solved by heavy atom and Fourier methods and refined toR=0.034 for 1776 unique observed reflections. The molecule is nearly planar, with a dihedral angle of only 3.8(1.1)° between the benzothiazole and phenyl rings. The C-S-C angle in the thiazole ring is 89.0°, while the C-N-C angle in that ring is 111.5(3)°.     

X-ray Crystal Structures of Discrete and Polymeric Silver Based Molecules Containing 4,4′-Dimethyl-2,2′-Bipyridine and 2,2′-Bipyridine

Abstract  The reaction of AgBF₄ with 4,4′-dimethyl-2,2′-bipyridine and 2,2′-bipyridine yields three previously unreported compounds. The molecular structures of these compounds were obtained by single-crystal X-ray diffraction. Crystallization of 1 occurs in the centrosymmetric monoclinic space group C2/c (No. 15) with a = 23.407(3), b = 10.7552(13), c = 13.9332(17); and β = 111.893(2) and Z = 8. Crystallization of 2 occurs in the centrosymmetric orthorhombic space group Pbca (No. 61) with a = 11.178(3), b = 23.590(6), c = 29.339(8) and Z = 8. Crystallization of 3 occurs in the centrosymmetric monoclinic space group P2₁/c (No. 14) with a = 11.2250(6), b = 8.7713(5), c = 15.4048(8), and β = 109.333(2) and Z = 4. Details of the synthesis and the structural characterization of the title compounds are presented and discussed. Index Abstract  The organic ligands 4,4′-dimethyl-2,2′-bipyridine and 2,2′-bipyridine, were used to synthesize three new complexes with AgBF₄, whose structures are dependent on the type of solvent used in the reaction as well as solvent of crystallization.      

Synthesis and X-ray structure of 5′-methoxy-2,4,6-trimethyl-2′-nitrosobiphenyl

The synthesis and X-ray crystal structure of 5-methoxy-2,4,6-trimethyl-2-nitrosobiphenyl is reported. The compound (C₁₆H₁₇NO₂) is monoclinic, with a = 11.080(4), b = 16.899(6), c = 15.410(5) Å, = 108.329(5)°, and space group P2₁/n. There are two independent molecules within the crystal. In each of these molecules the two phenyl rings are mutually orthogonal, with interplanar dihedral angles of 85.09 and 89.43° respectively. The nitroso substituents are essentially coplanar with the phenyl ring, with torsional angles of only 3.5 and 2.2°, respectively, while the methoxy groups make angles of 5.2 and 10.0°, respectively, with the phenyl ring.     

X-ray structure and NMR assignment of 3,3′-dimethylthio-4,4′-diquinolinyl sulfide

The title compound (C₂₀H₁₆N₂S₃) is triclinic, witha=9.494(3)b=9.890(3),c=19.456(5)Å,a=90.26(3)°,°=100.47(3)°, =99.18(3)°,Z=4 and space groupP¯1. The structure was solved by direct methods and refined toR=0.045 for 6076 reflections. There are two nonequivalent molecules in the unit cell. Two pairs of sulfur atoms in ortho-positions remain in very close contact. The S-methyl groups are nearly coplanar to the quinoline moieties and turned to the orthoposition, 2. CP MAS spectrum shows two conformers in the solid state but¹H and¹³C NMR spectra in CDCl₃ solution show rapid equilibrium of the conformers giving rise to average NMR data.Part XX in the series of Azinyl Sulfides.     

Crystal structure of syn-1-acetyl-9′aH-8′- methoxyspiro[indole-3,2′-oxeto[3′,2′:4,5]furo[3,2-g][1] benzopyran]2,6′-dione

The crystal structure of syn-1-acetyl-9a-hydro-8-methoxyspiro[3H-indole-3,2(2aH) oxeto[3,2-g]furo[3,2-g]benzo[ b]pyran-2,6-dione 1 was determined by X-ray diffraction analysis. It possesses P2(1)/c space group symmetry, with a = 12.391(3), b = 15.035(3), c = 9.5435(19) Å, = 93.66(3), and D _calc. = 1.517 Mg/m³ for Z = 4.     

Crystal structure of 2,2′-diformyl 4,4′-dimethyl 6,6′-[piperazine-1,4-diyl bis-(methylene)]bis phenol

The title compund C₂₂H₂₆N₂O₄,Mr=382.46 crystallizes in the orthorhombic space group P2₁2₁2₁ with =8.867(1)Å,b=13.228(2)Å,c=17.029(3)Å,V=1956.7(2)ų,Z=4, D_cal=1.30 Mgm^–3,F(000)=816, =6.89 cm^–1, (CuK)=1.5418 Å andT=298 K. The structure was solved by direct methods and refined by full-matrix least-squares. The finalR=0.046 for 1995 unique reflections. The phenyl rings are coplanar (oriented at an angle of 6.4(1)^o) and orients at an angle of 112.2(1)^o and 115.7(1)^o, respectively with the piperazine ring. The piperazine ring adopts achair conformation and the substituents at the N-atoms are in an equatiorial position.DCB Contribution No. 823.     

Ground state structures of molecules “prepared” for phototautomerization: 2,2′-bipyridyl-3,3′-diol and 2,2′-bipyridyl-3-ol

The crystal structures of two molecules undergoing fast intramolecular excited state proton transfer (2,2-bipyridyl-3,3-diol, BP(OH)₂, and 2,2-bipyridyl-3-ol, BP(OH)) are reported and compared with the results ofab initio and molecular mechanics calculations. Strong intramolecular hydrogen bonding is observed in both cases. The pyridyl rings are coplanar in BP(OH)₂, whereas in BP(OH) they form an angle of 3.7°.Dedicated to Prof. R. Zahradnik on the occasion of his birthday.     

Synthesis and structure of 5,5′,6,6′,7,7′,8,8′-octahydro-1,1′-di(methylthio)-3,3′-biisoquinoline

Title compound, C₂₀H₂₄N₂S₂, crystallizes in the orthorhombic system, space group Pbca, with cell constants a = 5.1968(5) Å, b = 15.6692(11) Å, c = 22.3881(11) Å , Z = 4, T = 293 K, D_cal = 1.299 g cm^–3. The structure was solved by direct methods and refined to R value of 0.0465 for 1566 reflections. Two methylthio-octahydroisoquinoline parts of molecule are related by the center of symmetry and possess the trans conformation. This conformation is more energetically stable than cis but the molecule can rotate about the C(6)–C(6) central bond at room temperature (molecular mechanics calculations). There is a short intramolecular contact C(5)–H(51) N(1) in the molecule. The molecules in the crystal form molecular layers parallel to (001) crystallographic plane and the molecular packing is determined by the van der Waals forces only.     

Three-dimensional structure of thymidine phosphorylase from E. coli in complex with 3′-azido-2′-fluoro-2′,3′-dideoxyuridine

The three-dimensional structures of thymidine phosphorylase from E. coli containing the bound sulfate ion in the phosphate-binding site and of the complex of thymidine phosphorylase with sulfate in the phosphate-binding site and the inhibitor 3′-azido-2′-fluoro-2′,3′-dideoxyuridine (N₃F-ddU) in the nucleoside-binding site were determined at 1.55 and 1.50 Å resolution, respectively. The amino-acid residues involved in the ligand binding and the hydrogen-bond network in the active site occupied by a large number of bound water molecules are described. A comparison of the structure of thymidine phosphorylase in complex with N₃F-ddU with the structure of pyrimidine nucleoside phosphorylase from St. Aureus in complex with the natural substrate thymidine (PDB_ID: 3H5Q) shows that the substrate and the inhibitor in the nucleoside-binding pocket have different orientations. It is suggested that the position of N₃F-ddU can be influenced by the presence of the azido group, which prefers a hydrophobic environment. In both structures, the active sites of the subunits are in the open conformation.     

Synthesis and Characterization of Two Pb(II) Complexes of 2,2′-dihydroxy,Dimethoxy-1,1′-binaphthyl-3,3′-dicarboxylic Acid

Two new complexes {[Pb(L¹)(DMSO)₂(H₂O)]·DMF}_n (1, L¹ = 2,2′-dihydroxy-l,l′-dinaphthyl-3,3′-dicarboxylate) and {[Pb(L²)(DMS O)·DMSO}_n (2, L² = 2,2′-dimethoxy-l,l′-dinaphthyl-3,3′-dicarboxylate) have been synthesized under mild conditions and structurally characterized. Crystal structural analysis reveals that complex 1 adopts a 1D infinite chain structure which forms 2D sheet by hydrogen bonds interactions. Complex 2 possesses a 2D sheet structure, which was further assembled into a 3D supramolecular network through the π-π weak interactions. IR spectra indicates the carboxyl group coordinates with the Pb²⁺ ion. TGA shows that complex 2 is highly thermally stable up to 120°C.     

Crystal structure of 2,4′-biflavonoid

The X-ray crystal structure of 2,4′-biflavonoid has been determined. Colorless regular prism shaped crystals of C₃₀H₂₂O₄ crystallize in the space group $P\bar 1$ with cell dimensionsa=11.574(1) Å,b=12.235(1) Å,c=17.428(1) Å, α=108.46(3)^o, β=80.08(1)^o, γ=103.34(2)^o,V=2264.7(4) ų, andZ=4.