Structural study of nitrovinylindoles: (I) 2-methyl-3-(2′-methyl-2′-nitrovinyl)indole and (II) 3-(2′-nitrovinyl)indole

Compound (I) is 2-methyl-3-(2-methyl-2-nitrovinyl)indole, C₁₂H₁₂N₂O₂,M _r=216.24, monoclinic,P2₁/n,a=16.710(1),b=7.627(1),c=17.646(1) Å,=104.8(1)°,V=2174.7(1) ų,Z=8.D _x=1.321 g cm^–3, MoK, =0.71073 Å,=0.858 cm^–1,F(OOO)=912, room temperature,R=0.061 for 1956 observed reflections. Compound (II) is 3-(2-nitrovinyl)indole, C₁₀H₈N₂O₂,M _r=188.18, monoclinic,P2₁/n,a=10.178(1),b=10.608(1),c=8.411(1) Å,=105.5(2)°,V=875.0(1) ų,Z=4,D _x=1.4284 g cm^–3, CuK, =1.5418 Å,=8.068 cm^–1,F(000)=392, room temperature,R=0.040 for 1330 observed reflections. Compounds (I) and (II) have a similar geometry, the only significant difference lying in the rotation of the nitrovinyl chain. This feature could be responsible for the difference in biological activity. In both compounds, the molecules are associated, forming charge-transfer complexes.     

Supramolecular structure of 5-methyl-5-phenyl hydantoin and hydrogen-bonding patterns in 5,5′-substituted hydantoins

The crystal structure of heterocyclic compound 5-methyl-5-phenyl hydantoin has been determined from X-ray single crystal structural characterization. This material crystallizes in the orthorhombic system and noncentrosymmetric space group P21 (N°4). The crystal packing is governed by N–H···O hydrogen bond-type intermolecular interactions, forming chains and edge-fused 12-membered rings with graph-set C(4) C(5) C22(8) R33(12) in a similar hydrogen-bonding pattern of another chiral 5,5′-substituted hydantoins.     

The X-ray Structures of (R)-2,2′-Dimethyl-1,1′-binaphthyl and (±)-2-Bromomethyl-2′-dibromomethyl-1,1′-binaphthyl

Journal of Chemical Crystallography - Molecular structures of (R)-2,2′-dimethyl-1,1′-binaphthyl [monoclinic, a?=?11.24420 (11), b?=?10.56190 (9),...     

Synthesis and Structure of 1-Chlorosulfonyl-2-(4′-Nitrophenoxy)-5-Methylbenzene

Abstract  Diphenyl ethers are structural elements found in medicinally useful antibiotics such as vancomycin as well as in biological toxins in the environment such as dioxins. The purpose of this paper is to report the synthesis and characterization of the previously unreported 1-chlorosulfonyl-2-(4′-nitrophenoxy)-5-methylbenzene, a trisubstituted diphenyl ether derivative. ¹H NMR (CDCl₃) δ 2.45 (3H, methyl₅, s), 7.07 (1H, H₄, d, J ~8.27 Hz), 7.13 (2H, H_2′, H_6′, d, J ~9.0 Hz), 7.54 (1H, H₃, d, J ~8.28 Hz), 7.87 (1H, H₆, s), 8.22 (2H, H_3′, H_5′, J ~9 Hz); ¹³C NMR (CDCl₃) δ 20.7, 118.2, 121.9, 126.0, 129.8, 135.2, 135.8, 137.8, 143.8, 150.3, 161.4. An X-ray analysis has provided valuable insight into the effect of steric factors on the three dimensional shape of this compound which serves as a useful advanced intermediate in the synthesis of these biologically active molecules. A multistep synthesis of this molecule has been designed by retrosynthetic analysis as part of an ongoing program aimed at a function-oriented, multi-step economical synthesis of vancomycin lead antibiotics. Crystals are triclinic, space group P-1, a = 7.6537(15), b = 8.976(2), c = 11.050(2) ?, α = 67.645(11), β = 79.735(11), γ = 87.798(10)°, V = 690.5(2) ?³, Z = 2. Graphical Abstract  The synthesis and characterization of the previously unreported trisubstituted diphenyl ether derivative are reported. The phenyl rings form a dihedral angle of 64.49(4)° and the chlorosulfonyl group has a C–C–S–Cl torsion angle of 62.95(11)°.      

Crystal structure of 1,3-(N,N′-benzamide)-2-methyl-1-pentene

Crystals of the title compound are monoclinic (C20H22N2O2): space groupP2₁/n,a=11.800(3),b=13.820(2),c=11.004(3) Å,=92.74(3)°. The structure was solved by direct methods and refined by block-matrix least-squares procedure to giveR=0.078 andRw=0.076 for 1960 reflections above 3(I). The two amide groups are not coplanar with respect to their benzene rings. An intramolecular N-HO hydrogen bond was found in the molecules which are joined in chains by other strong N-HO hydrogen bonds.     

Crystal and molecular structure of 2-(2′-chloro-5′-nitrostyryl)benzoselenazole

The title compound C₁₅H₉ClN₂O₂Se (nsbse) is orthorhombic, witha=6.823(2),b=7.860(2),c=26.349(5) Å,Z=4,D _x =1.709,(MoK)=28.3 cm^–1,F(000)=720,T=298K in space groupP2₁2₁2₁. The structure was solved by heavy atom and Fourier methods and refined toR=0.045 for 1095 unique observed reflections. The molecule is almost planar, with a dihedral angle of 4.8(2)° between the benzoselenazole and phenyl rings. The C-Se-C angle in the selenazole ring is very small, 84.6(4)°, while the C-N-C angle in that ring is 113.7(7)°.     

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.     

Crystal and molecular structures of 1,4-dihydro-6-methyl-5-N,N-diethylcarbamoyl-4-phenyl-2(3H)-pyrimidinethione (1) and 1,4-dihydro-6-methyl-5-N-methyl carbamoyl-4-(2′-nitrophenyl)-2(3H)-pyrimidinethione hemihydrate (2)

The crystal structure of 1,4-dihydro-6-methyl-5-N,N-diethylcarbamoyl-4-phenyl-2(3H)-pyrimidinethione, C₁₆ H ₂₁ N ₃OS (1), is monoclinic, space group P2₁/n, a = 6.818(1), b = 13.211(2), c = 18.807(3) Å, = 99.53(1)°, V = 1670.6(4) ų, Z = 4 and d _cal = 1.206 Mg/m³, R = 0.042 (wR = 0.119) for 190 parameters and 2560 observations with I 2(I) and 1,4-dihydro-6-methyl-5-N-methyl carbamoyl-4-(2-nitrophenyl)-2(3H)-pyrimidinethione hemihydrate, C₁₃ H ₁₄N₄O₃S 0.5H₂O, (2), is triclinic, space group P1, a = 7.513(1), b = 14.381(2), c = 15.506(2)Å, = 114.95(2), = 98.11(1), = 93.55(1)°, V = 1490.0(3) ų, Z = 4 and d _cal = 1.406 Mg/m³, R = 0.062 (wR = 0.165) for 388 parameters and 3094 observations with I 2(I).The compound 2 crystallized having two molecules in the asymmetric unit, which can be regarded as monohydrated dimers, and forming a hydrate. The conformation of the central heterocyclic ring (1,4-dihydropyrimidine) in both compounds was found to be close to a half-chair conformation. The 2-nitrophenyl substituent in 2 is in the axial synperiplanar orientation. In both compounds, the conformation of the 3-substituted carbamoyl group appears to be influenced by hydrogen bonding with anticlinal orientation observed for carbonyl groups serving as hydrogen bonding acceptors.     

5-(thien-2-yl) uracil analogs: 5-(5-methylthien-2-yl)-2′-deoxyuridine, 5-(5-thien-2-yl)-2′-deoxyuridine,and 5-(5-bromothien-2-yl)-2′-deoxyuridine

Crystal structures of 5-(5-methylthien-2-yl)-2-deoxyuridine (I), 5-(5-thien-2-yl)-2-deoxyuridine (II) and 5-(5-bromothien-2-yl)-2-deoxyuridine (III) have been obtained from data collected on a four-circle Enraf-Nonius diffractometer (CAD-4 system). Space group, unit/cell parameters and finalR indices are:I, monoclinic,P2₁,a=9.105(2),b=20.819(2),c=7.932(2) Å, =98.79(2)°,R=5.7%;II, monoclinic,P2₁,a=8.720(4),b=20.793(4),c=7.884(4) Å, =95.06(2)°,R=5.8%;III, monoclinic,P2₁,a=9.260(2),b=41.655(7),c=7.926(2) Å, =97.996(13)°,R=9.4%. Structural properties of the title compounds are compared with those of 5-(5-chlorothien-2-yl)-2-deoxyuridine (IV) previously reported in order to explain their affinity for HSV-1 thymidine kinase and their eventual interaction with viral DNA polymerase. The main structural features observed are the coplanarity of the uracil and thienyl cycles stabilized by a S–O intramolecular interaction and the formation of dimeric intermolecular H bonds between two uracil moieties.     

Synthesis and crystal structure of N-(1-phenyl-3-methyl-4-benzal-pyrazolone-5)- N′-salicylidene hydrazine

A novel Schiff base compound, N-(1-phenyl-3-methyl-4-benzal-pyrazolone-5)-salicylidene hydrazine (PMBP-SAH), has been synthesized and characterized by X-ray diffraction: monoclinic, space group C2/c with a = 21.796(5) Å, b = 18.370(3) Å, c = 20.843(3) Å, = 95.440(10)°, V = 8308(3) ų, and Z = 16. The title compound contains two kinds of tautomers: the red compound is the keto form and the other is the enol form. Changes in color are due to the isomerization of the enol and keto forms by the intramolecular proton transfer.     

Structures of nitrato-(2-hydroxybenzaldehydo) (2,2′-bipyridyl)copper and nitrato-(2-hydroxy-5-nitrobenzaldehydo)(2,2′-bipyridyl)copper

Nitrato-(2-hydroxy-5-nitrobenzaldehydo)(2,2′-bipyridyl)copper (I) and nitrato-(2-hydroxybenzaldehydo)(2,2′-bipyridyl)copper (II) were synthesized and characterized by X-ray diffraction. The coordination polyhedron of the central copper atom in complex I can be described as a distorted tetragonal pyramid whose base is formed by the phenol and carbonyl oxygen atoms of the monodeprotonated 2-hydroxy-5nitrobenzaldehyde molecule and the nitrogen atoms of the 2,2′-bipyridyl ligand and whose apex is occupied by the oxygen atom of the nitrato group. In the crystal structure, complexes I are linked by the acido ligands and the NO₂ groups of the aldehyde molecule into infinite chains. In complex II, the central copper atom is coordinated by 2-hydroxybenzaldehyde, 2,2′-bipyridyl, and the nitrato group, resulting in the formation of centrosymmetric dimers. The coordination polyhedron of the central copper atom can be described as a bipyramid (4 + 1 + 1) with the same base as in complex I. The axial vertices of the bipyramid are occupied by the oxygen atom of the nitrato group and the bridging phenol oxygen atom of the adjacent complex related to the initial complex by a center of symmetry. In the crystal structure, complexes II are hydrogen bonded into infinite chains.     

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)°.     

Structures of NN′-ethylenebis(monothioacetylacetoneiminato)nitrosylcobalt and NN′-ethylenebis(2-hydroxyacetophenoneiminato)nitrosylcobalt

The cobalt atoms in both [Co(NO)(sacacen)] and [Co(NO)(7-Mesalen)] {sacacenH₂ isNN-ethylenebis(monothioacetylacetoneimine) and 7-MesalenH₂ isNN-ethylenebis(2-hydroxyacetophenoneimine)} are 5-coordinate, with a tetragonal-pyramidal arrangement of donor atoms. The cobalt atom in [Co(NO)(sacacen)] lies just above the plane defined by the SNNS donor atoms of the quadridentate ligand, and the nitrosyl group occupies the apical position. A similar geometry is defined by the ONNO donor atoms and the NO group in [Co(NO)(7-Mesalen)]. The Co-N-O angles are strongly bent, as predicted from¹⁵N-nmr studies (127.2(6)°[Co(NO)(sacacen)] and 127.4(3)°[Co(NO)(7-Mesalen)]). Both nitrosyls crystallize in the monoclinic system. For [Co(NO)(sacacen)],a=8.501,b=12.673,c=13.866 Å,=95.00°,Z=4 and space groupP2₁/c. The structure was determined by the heavy-atom method, usingMo K diffractometer data, and refined by full matrix least squares toR=0.062 for 2920 observed reflections. For [Co(NO)(7-Mesalen)],a=9.461,b=13.053,c=13.456,=99.32°,Z=4 and space groupP2₁/c. The structure was determined as above toR=0.040 for 2461 observed reflections.     

The 1,8-Bis(2′-pyridyl)-3,6-dithiaoctane Complex of Rhodium(III)

Abstract  

The tetradentate ligand 1,8-bis(2′-pyridyl)-3,6-dithiaoctane (Pdto) forms a pseudooctahedral structure with rhodium(III). The yellow racemic [Rh(Pdto)Cl₂](CF₃SO₃) compound belongs to the Pbca space group with a = 13.566(15), b = 15.6588(16), c = 21.473(2) ?, and Z = 8. The Rh–S bonds are shorter than is usual, while the pyridine rings are mutually trans and form an interplanar angle of 24°.     

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.     

Structure and molecular chirality of the acetonitrile adduct of the 2:1 salt of quinidine with biphenyl 5,5′-dinitro-2,2′-dicarboxylic acid (5,5′-dinitrodiphenic acid)

The molecule of the 21 salt consists of two quinidine cations and the 5,5-dinitrodiphenic anion. Both of the quinidine cations are protonated at the nitrogen atoms of the quinuclidine fragments. Owing to the interlocking hydrogen bonds between quinidine and the dinitrodiphenic ions, a rigid structure of the salt molecule has been formed. The alkaloid molecular conformation around the C(8)-C(9) bond is open. The conformational parameters of 5,5-dinitrodiphenic anion are considerably changed in comparison with the conformation of diphenic acid in the solid state. The absolute configuration of biphenyl 5,5-dinitro-2,2-dicarboxylic anion (R) is defined by the negative torsion angles around the line which connects the centers of both phenyl rings, and is the reverse of that observed in the diphenic acid-quinine salt. The present data confirm the observation that the chirality of the salt is controlled by the chirality of theCinchona alkaloid molecule.     

Synthesis and crystal structure of iodo-1-(2′-aminophenyl)-2,6-diaza-6-methyl-9-amino-1-noneno copper(II) iodide

Reaction of equimolar amounts of 2-aminobenzaldehyde and 3,3-diamino-N-methyldipropyl-amine in methanol affords a novel 11 condensation product, abaMedpt, which has been isolated as the copper(II) complex, [Cu(abaMedpt)I]I. The crystal structure of the complex has been determined from single crystal diffractometer data and refined to a finalR factor of 0.0353 with 2492 unique observations and 206 variables. The complex crystallizes in the monoclinic space group P2₁/c (N° 14) witha=9.263(2),b=18.189(3),c=11.740(3) Å,=92.97(4)°,Z=4,D _c =1.902 g cm^–3. The structure involves a five-coordinate square-pyramid CuN₄I chromophore and an uncoordinated iodide anion. Nitrogen atoms constitute the basal plane, while the bonded iodine occupies the apical position. The structure contrasts with the more usual distorted trigonal-bipyramidal stereochemistries of CuN₄I chromophores reported so far.     

The crystal and molecular structure of spiro[1-(S)-Br-3-(S)-H-4-(R)-l-(1′ R,2′ S,5′R)-menthyloxy-5-oxo-6-oxa-bicyclo[3.1.0]hexane-2,3′-(R)-(4′-(R)-diphenylmethoxy-5′-l-(1′ R,2′ S,5′ R)-menthyloxy-butyrolactone)]

Crystal structure of C₄₁H₅₃O₇Br has been determined by single-crystal X-ray diffraction. The compound crystalline in the orthorhombic space group P2₁2₁2₁, with a = 11.264(2), b = 12.058(2), c = 29.337(6) Å, Z = 4. The bond angles of cyclopropane moiety in the molecule are approximate to 60° and agree with theoretic values of the internal angles in a cyclopropane, and two chiral menthyloxy groups are located above and under the whole chiral molecule, respectively. The configuration of the pentacyclic lactone is shown as envelope form.     

Synthesis, Characterization, and Crystal Structures of 3-bromo-N′-(2-methoxybenzylidene)benzohydrazide and N′-(2-methoxybenzylidene)-3,4-methylenedioxybenzohydrazide

Abstract  

Two new hydrazone compounds, 3-bromo-N′-(2-methoxybenzylidene)benzohydrazide (1) and N′-(2-methoxybenzylidene)-3,4-methylenedioxybenzohydrazide (2), have been synthesized and characterized by elemental analysis, IR, and single crystal X-ray diffractions. Compound (1) crystallizes in the triclinic space group P1 with unit cell dimensions a = 8.4088(5) ?, b = 8.5398(5) ?, c = 10.6572(6) ?, α = 90.356(3)°, β = 102.868(3)°, γ = 97.987(3)°, V = 738.28(7) Ǻ³, Z = 2, R ₁ = 0.0406, and wR ₂ = 0.0804. Compound (2) crystallizes in the tetragonal space group P4₁ with unit cell dimensions a = b = 9.792(4) ?, c = 15.788(6) ?, V = 1513.8(10) Ǻ³, Z = 4, R ₁ = 0.0415, and wR ₂ = 0.0818. The molecules of both compounds display E configurations with respect to the C=N double bonds. In the crystal structure of (1), molecules are linked through N–H···O hydrogen bonds, forming chains running along the b axis. In the crystal structure of (2), molecules are linked through N–H···O hydrogen bonds, forming chains running along the c axis.     

Synthesis and Crystal Structures of <Emphasis Type="Italic">N</Emphasis>′-(5-Bromo-2-hydroxy-3-methoxybenzylidene)-4-methoxybenzohydrazide and 4-{[1-(5-bromo-2-hydroxy3-methoxyphenyl)methylidene]amino}-1-methyl-2-phenyl-1,2-dihydropyrazol-3-one

Abstract  

Two Schiff bases, N′-(5-bromo-2-hydroxy-3-methoxybenzylidene)-4-methoxybenzohydrazide (1) and 4-{[1-(5-bromo-2-hydroxy3-methoxyphenyl)methylidene]amino}-1-methyl-2-phenyl-1,2-dihydropyrazol-3-one (2), have been synthesized by the reaction of 5-bromo-3-methoxysalicylaldehyde with 4-methoxybenzohydrazide and 4-aminoantipyrine, respectively. The compounds were characterized by elemental analysis and X-ray single crystal determination. Compound (1) crystallizes in the monoclinic space group P2₁/c with unit cell dimensions a = 14.919(1), b = 8.249(2), c = 41.515(4) ?, β = 111.054(2)°, V = 4768.1(13) ?³, Z = 12, R ₁ = 0.0765, and wR ₂ = 0.1733. Compound (2) crystallizes in the monoclinic space group P2₁/c with unit cell dimensions a = 7.826(1), b = 13.791(1), c = 17.090(2) ?, β = 100.137(2)°, V = 1815.7(3) ?³, Z = 4, R ₁ = 0.0334, and wR ₂ = 0.0736. Both molecules of the compounds display E configuration with respect to the C=N double bonds. In the crystal structure of (1), molecules are linked via intermolecular N–H···O hydrogen bonds, forming chain structure along the a axis. In the crystal structure of (2), molecules are linked via weak Br···O interactions, forming chain structure along the c axis.