N‐Benzyl‐2′‐iodo­cinnamanilide and N‐benzyl‐2′‐iodo‐4′‐methyl‐2‐phenyl­cinnamanilide

The aromatic ring of the cinnamic moiety in N‐benzyl‐2′‐iodo­cinnamanilide, C₂₂H₁₈INO, (I), and N‐benzyl‐2′‐iodo‐4′‐methyl‐2‐phenyl­cinnamanilide, C₂₉H₂₄INO, (II), makes a dihedral angle with the iodo­phenyl ring of 72.1 (2) and 81.0 (2)° in (I) and (II), respectively. In (I), mol­ecules exist as discrete components, while in (II), they form infinite chains along the b axis, through I?O non‐bonded interactions.     

A synchrotron study of (2R,5′S)‐5′‐benzyl‐5‐bromo‐6‐methoxyspiro[indane‐2,2′‐piperazine]‐3′,6′‐dione dimethylformamide solvate

Synchrotron radiation was used to study the structure of the title compound, C₂₀H₁₉BrN₂O₃·C₃H₇NO, which was obtained as fine fragile needle‐shaped crystals by recrystallization from dimethylformamide (DMF), one molecule of which is incorporated per asymmetric unit into the crystal. The compound adopts a compact closed conformation with the orientation of the benzyl group such that the aryl ring is positioned over the piperazinedione ring, resulting in a C_spiro...C_trans—C—C_Ph pseudo‐torsion angle of −3.3 (3)°. The five‐membered ring is present in an expected envelope conformation and the six‐membered piperazinedione ring adopts a less puckered boat‐like conformation. Reciprocal amide‐to‐amide hydrogen bonding between adjacent piperazinedione rings and C—H...O interactions involving DMF molecules propagate in the crystal as a thick ribbon in the a‐axis direction.     

3‐(p‐Chloro­phenyl)‐4‐phenyl‐4,5‐di­hydro­isoxazole‐5‐spiro‐2′‐1′,2′,3′,4′‐tetra­hydro­naphthalen‐1′‐one

In the title compound, C₂₄H₁₈ClNO₂, the phenyl ring and the tetralone moiety are approximately orthogonal to the isoxazoline ring. The isoxazoline ring adopts an envelope conformation, while the cyclo­hexenone ring of the tetralone moiety has an intermediate sofa/half‐chair conformation. In this structure, one C—H?N intermolecular and two C—H?O intramolecular hydrogen bonds occur; the H?A distances are 2.60, and 2.35 and 2.57 Å, respectively. The mol­ecules are held together by an intermolecular C—H?N hydrogen bond, forming a one‐dimensional chain along the [100] direction.     

Dispiro[indene‐2,5′‐indeno[2,1‐a]fluorene‐6′,2′′‐indene]‐1,1′′,3,3′′,11′,12′‐hexaone: a three‐dimensional hydrogen‐bonded framework

The title compound, C₃₆H₁₆O₆, (I), was obtained as a new and unexpected oxidation product of 1,2′‐biindene‐1′,3,3′(2H)‐trione. The molecules of (I) exhibit approximate, but noncrystallographic, twofold rotation symmetry and the central ring of the fused pentacyclic portion is distinctly puckered, with a conformation intermediate between half‐chair and screw‐boat. Six independent C—H...O hydrogen bonds link the molecules into a three‐dimensional framework structure of considerable complexity. Comparisons are drawn between the crystal structure of (I) and those of several simpler analogues, which show wide variation in their patterns of supramolecular aggregation.     

4,1′,6′‐Trichloro‐4,1′,6′‐trideoxysucrose monohydrate

At 160 K, the gluco­pyran­osyl ring in 1,6‐di­chloro‐1,6‐di­deoxy‐β‐d ‐fructo­furan­osyl 4‐chloro‐4‐deoxy‐α‐d ‐gluco­pyran­oside monohydrate, C₁₂H₁₉Cl₃O₈·H₂O, has a near ideal ⁴C₁ chair conformation, while the fructo­furan­osyl ring has a ⁴T₃ conformation. The conformation of the sugar mol­ecule is quite different to that of sucralose, particularly in the conformation about the glycosidic linkage, which affects the observed pattern of intramolecular hydrogen bonds. A complex series of intermolecular hydrogen bonds links the sugar and water mol­ecules into an infinite three‐dimensional framework.     

2,2′‐Anhydro‐1‐(3′,5′‐di‐O‐acetyl‐β‐D‐arabinofuranosyl)uracil,a cyclouridine nucleoside with a C4′‐endo furanosyl conformation

2,2′‐Anhydro‐1‐(3′,5′‐di‐O‐acetyl‐β‐D‐arabinofuranosyl)uracil, C₁₃H₁₄N₂O₇, was obtained by refluxing 2′,3′‐O‐(methoxymethylene)uridine in acetic anhydride. The structure exhibits a nearly perfect C4′‐endo (⁴E) conformation. The best four‐atom plane of the five‐membered furanose ring is O—C—C—C, involving the C atoms of the fused five‐membered oxazolidine ring, and the torsion angle is only −0.4 (2)°. The oxazolidine ring is essentially coplanar with the six‐membered uracil ring [r.m.s. deviation = 0.012 (5) Å and dihedral angle = −3.2 (3)°]. The conformation at the exocyclic C—C bond is gauche–trans which is stabilized by various C—H...π and C—O...π interactions.     

3′,4′‐Bis(4‐chloro­phenyl)­spiro­[chroman‐3,5′(4′H)‐isoxazol]‐4‐one

The title compound, C₂₃H₁₅Cl₂NO₃, crystallizes with two independent mol­ecules in the asymmetric unit. The chroman­one moiety consists of a benzene ring fused with a six‐membered heterocyclic ring which adopts a sofa conformation. The five‐membered spiro­isoxazoline ring is in an envelope conformation. The p‐chloro­phenyl rings bridged by the five‐membered ring are nearly perpendicular to each other. The chromanone moiety of one mol­ecule packs into the cavity formed by the p‐chloro­phenyl rings of a second mol­ecule through the formation of C—H?π interactions. The structure is stabilized by weak C—H?O, C—H?Cl and C—H?π interactions.     

Di­spiro­[fluorene‐9,5′‐[1,2,3,4]­tetra­thia­ne‐6′,9′′‐fluorene]

The tetra­thia­ne ring of the title compound, C₂₆H₁₆S₄, has a chair conformation and the mol­ecule has approximate C₂ symmetry. Each of the two fluorene ring systems is virtually planar, with the ring planes intersecting at an angle of 67.58 (5)°. This novel compound has been formed as a side product from the treatment of 9H‐fluorene‐9‐thione with methyl N‐[(benzyl­idene)­phenyl]­glycinate in the presence of LiBr and 1,6‐di­aza­bi­cyclo­[5.4.0]­un­decane.     

The first structurally analysed nucleic acid building block containing the Reese protecting group: 2′‐O‐[1‐(2‐fluorophenyl)‐4‐methoxypiperidin‐4‐yl]‐β‐D‐(1′R,2′R,3′R,4′R)‐uridine

The title compound, C₂₁H₂₆FN₃O₇, is assembled by N—H...O and O—H...O hydrogen bonds into well‐separated two‐dimensional layers of about 15 Å thickness. The crescent conformation of the molecules is stabilized by weak intramolecular C—H...O and C—H...F hydrogen bonds. The uridine moiety adopts an anti conformation. The ribofuranose ring exists in an envelope conformation. All the endocyclic uracil bonds are shorter than normal single C—N and C—C bonds, and five of them have comparable lengths, which implies a considerable degree of delocalization of the electron density within this ring.     

Di‐μ‐chlorido‐bis[chlorido(4′‐p‐tolyl‐2,2′:6′,2′′‐terpyridine‐κ3N,N′,N′′)nickel(II)]: a supramolecular system constructed by C—H...Cl interactions

The title complex, [Ni₂Cl₄(C₂₂H₁₇N₃)₂], was synthesized solvothermally. The molecule is a centrosymmetric dimer with the unique Ni^II centre in a distorted octahedral N₃Cl₃ coordination environment. The chloride bridges are highly asymmetric. In the 4′‐p‐tolyl‐2,2′:6′,2′′‐terpyridine ligand, the p‐tolyl group is perfectly coplanar with the attached pyridine ring, and this differs from the situation found in previously reported compounds; however, there are no π–π interactions between the ligands. The terminal Cl atom forms four intermolecular C—H...Cl hydrogen bonds with one methyl and three methine groups. The methyl group also forms intermolecular C—H...π interactions with a pyridine ring. These nonclassical hydrogen bonds extend the molecule into a three‐dimensional network.     

4′,4′,6′,6′‐Tetra­chloro‐3,4‐di­hydro‐3‐(6‐methyl­pyridin‐2‐yl)­spiro­[1,3,2‐benzox­aza­phosphinine‐2,2′‐(2λ5,4λ5,6λ5‐cyclo­triphosphazene)]

The title compound, C₁₃H₁₂Cl₄N₅OP₃, is a phosphazene derivative with a bulky substituted spiro­cyclic ring. The C₃NPO spiro­cyclic ring has a twist‐boat conformation, while the phosphazene ring has a very flattened boat conformation.     

Three different fluoro‐ or chloro‐substituted 1′‐deoxy‐1′‐phenyl‐β‐D‐ribofuranoses

Crystal structures are reported for three fluoro‐ or chloro‐substituted 1′‐deoxy‐1′‐phenyl‐β‐D‐ribofuranoses, namely 1′‐deoxy‐1′‐(2,4,5‐trifluorophenyl)‐β‐D‐ribofuranose, C₁₁H₁₁F₃O₄, (I), 1′‐deoxy‐1′‐(2,4,6‐trifluorophenyl)‐β‐D‐ribofuranose, C₁₁H₁₁F₃O₄, (II), and 1′‐(4‐chlorophenyl)‐1′‐deoxy‐β‐D‐ribofuranose, C₁₁H₁₃ClO₄, (III). The five‐membered furanose ring of the three compounds has a conformation between a C2′‐endo,C3′‐exo twist and a C2′‐endo envelope. The ribofuranose groups of (I) and (III) are connected by intermolecular O—H...O hydrogen bonds to six symmetry‐related molecules to form double layers, while the ribofuranose group of (II) is connected by O—H...O hydrogen bonds to four symmetry‐related molecules to form single layers. The O...O contact distance of the O—H...O hydrogen bonds ranges from 2.7172 (15) to 2.8895 (19) Å. Neighbouring double layers of (I) are connected by a very weak intermolecular C—F...π contact. The layers of (II) are connected by one C—H...O and two C—H...F contacts, while the double layers of (III) are connected by a C—H...Cl contact. The conformations of the molecules are compared with those of seven related molecules. The orientation of the benzene ring is coplanar with the H—C1′ bond or bisecting the H—C1′—C2′ angle, or intermediate between these positions. The orientation of the benzene ring is independent of the substitution pattern of the ring and depends mainly on crystal‐packing effects.     

Syn‐ and anticlinal isomers of 2a′‐acetoxy‐1,7′‐diacetyl‐7′,7a′‐dihydro‐2‐oxospiro[1H‐indole‐3(2H),2′(2a′H)‐oxeto[3,2‐b]indole]

In the syn‐ and anticlinal isomers of the title compound, C₂₂H₁₈N₂O₆, the indole moiety is not completely planar, with the pyrrolidine ring being distorted very slightly towards a conformation intermediate between half‐chair and envelope. The molecular and packing structures in the crystals of these isomers are stabilized by C—H?O interactions.     

Four cyclo­alkane­spiro‐4′‐imidazolidine‐2′,5′‐dithiones

The crystal structures of four cyclo­alkane­spiro‐4′‐imidazolidine‐2′,5′‐dithiones, namely cyclo­pentane­spiro‐4′‐imidazolidine‐2′,5′‐dithione {systematic name: 1,3‐diaza­spiro­[4.4]­nonane‐2,4‐dithione}, C₇H₁₀N₂S₂, cyclo­hexane­spiro‐4′‐imidazolidine‐2′,5′‐dithione {systematic name: 1,3‐diaza­spiro­[4.5]decane‐2,4‐dithione}, C₈H₁₂N₂S₂, cyclo­heptane­spiro‐4′‐imidazolidine‐2′,5′‐dithione {systematic name: 1,3‐diaza­spiro­[4.6]undecane‐2,4‐dithione}, C₉H₁₄N₂S₂, and cyclo­octane­spiro‐4′‐imidazolidine‐2′,5′‐dithione {systematic name: 1,3‐di­aza­spiro­[4.7]dodecane‐2,4‐dithione}, C₁₀H₁₆N₂S₂, have been determined. The three‐dimensional packing in all of the structures is based on closely similar chains, in which hydantoin moieties are linked through N—H⋯S hydrogen bonding. The size of the cyclo­alkane moiety influences the degree of its deformation. In the cyclo­octane compound, the cyclo­octane ring assumes both boat–chair and boat–boat conformations.     

5‐Ethyl‐2′‐deoxy‐4′‐thiouridine (R)‐S‐oxide monohydrate

The pyrimidine ring of the title compound, C₁₁H₁₆N₂O₅S·H₂O, is planar to within 0.026 (1) Å and makes an angle of 77.73 (8)° with the mean plane of the thiosugar ring. In terms of standard nucleoside nomenclature, this ring has a C1′‐exo,C2′‐endo conformation. The O5′—C5′—C4′—C3′ torsion angle is ?167.4 (2)° and the glycosidic S4′—C1′—N1—C2 torsion angle is ?101.8 (2)° (anti).     

Bis(μ‐succinato‐O,O′:O′′,O′′′)bis[bis(2‐amino‐1,3‐benzothiazole‐N3)copper(II)]

In the title dimeric complex, [Cu₂(C₄H₄O₄)₂(C₇H₆N₂S)₄], which possesses a centre of symmetry, the Cu atoms are enclosed in a 14‐membered ring. They adopt a distorted square‐bipyramidal (4+2) coordination. The four closest donor atoms are two N atoms of 2‐amino­benzo­thiazole ligands and two O atoms of the succinate carboxylate groups. They form a square‐planar cis arrangement, with an average Cu—N distance of 2.003 (3) Å and Cu—O distances of 1.949 (3) and 1.965 (3) Å. Two longer Cu—O bonds of 2.709 (3) and 2.613 (3) Å involving the remaining O atoms of the carboxylate groups complete the sixfold coordination of the Cu atoms. The H atoms of each amino group of the 2‐amino­benzo­thiazole molecules form intra‐ and inter­molecular N—H?O hydrogen bonds. A nearly perpendicular inter­molecular C—H?Cg interaction (Cg is the centroid of the imidazole ring) is observed. The intramolecular Cu?Cu distance is 6.384 (2) Å.     

5‐Methyl‐6‐aza‐2′‐deoxy­isocytidine

In the title compound, 3‐amino‐2‐(2‐deoxy‐β‐d ‐erythro‐pento­furan­osyl)‐6‐methyl‐1,2,4‐triazin‐5(2H)‐one, C₉H₁₄N₄O₄, the conformation of the N‐glycosidic bond is high‐anti and the 2‐deoxy­ribo­furan­osyl moiety adopts a North sugar pucker (²T₃). The orientation of the exocyclic C—C bond between the –CH₂OH group and the five‐membered ring is ap (gauche, trans). The crystal packing is such that the nucleobases lie parallel to the ac plane; the planes are connected via hydrogen bonds involving the five‐membered ring.     

Structural and theoretical characterization of a new twisted 4′‐substituted terpyridine compound: 4′‐(isoquinolin‐4‐yl)‐2,2′:6′,2′′‐terpyridine

4′‐Substituted derivatives of 2,2′:6′,2′′‐terpyridine with N‐containing heteroaromatic substituents, such as pyridyl groups, might be able to coordinate metal centres through the extra N‐donor atom, in addition to the chelating terpyridine N atoms. The incorporation of these peripheral N‐donor sites would also allow for the diversification of the types of noncovalent interactions present, such as hydrogen bonding and π–π stacking. The title compound, C₂₄H₁₆N₄, consists of a 2,2′:6′,2′′‐terpyridine nucleus (tpy), with a pendant isoquinoline group (isq) bound at the central pyridine (py) ring. The tpy nucleus deviates slightly from planarity, with interplanar angles between the lateral and central py rings in the range 2.24 (7)–7.90 (7)°, while the isq group is rotated significantly [by 46.57 (6)°] out of this planar scheme, associated with a short H_tpy…H_isq contact of 2.32 Å. There are no strong noncovalent interactions in the structure, the main ones being of the π–π and C—H…π types, giving rise to columnar arrays along [001], further linked by C—H…N hydrogen bonds into a three‐dimensional supramolecular structure. An Atoms In Molecules (AIM) analysis of the noncovalent interactions provided illuminating results, and while confirming the bonding character for all those interactions unquestionable from a geometrical point of view, it also provided answers for some cases where geometric parameters are not informative, in particular, the short H_tpy…H_isq contact of 2.32 Å to which AIM ascribed an attractive character.     

Synthesis of 2′‐Deoxy‐1′‐homo‐N‐nucleosides with Anti‐Influenza Activity by Catalytic Methyltrioxorhenium (MTO)/H2O2 Oxyfunctionalization

This paper describes a new route for the synthesis of 1′‐homo‐N‐nucleoside derivatives by means of either methyltrioxorhenium (MTO) or supported MTO catalysts, with H₂O₂ as the primary oxidant. Under these selective conditions, the oxyfunctionalization of the heterocyclic ring and the N heteroatom oxidation were operative processes, regardless of the type of substrate used, that is, purine or pyrimidine derivatives. In addition, the oxidation of 1′‐homo‐N‐thionucleosides, showed the occurrence of site‐specific oxidative nucleophilic substitutions of the heterocyclic ring. The MTO/H₂O₂ system showed, in general, high reactivity under both homogeneous and heterogeneous conditions, affording the final products with high conversion values of substrates and from medium to high yields. Many of the novel 1′‐homo‐N‐nucleoside analogues were active against the influenza A virus, without any cytotoxic effects, retaining their activity in both protected and unprotected forms.     

Different nucleobase orientations in two cyclic 2′,3′‐phosphates of purine ribonucleosides: Et3NH(2′,3′‐cAMP) and Et3NH(2′,3′‐cGMP)·H2O

The crystal structures of triethyl­ammonium adenosine cyclic 2′,3′‐phosphate {systematic name: triethyl­ammonium 4‐(6‐amino­purin‐9‐yl)‐6‐hydroxy­methyl‐2‐oxido‐2‐oxoperhydro­furano[3,4‐c][1,3,2]dioxaphosphole}, Et₃NH(2′,3′‐cAMP) or C₆H₁₆N⁺·C₁₀H₁₁N₅O₆P⁻, (I), and guanosine cyclic 2′,3′‐phosphate monohydrate {systematic name: triethyl­ammonium 6‐hydroxy­methyl‐2‐oxido‐2‐oxo‐4‐(6‐oxo‐1,6‐dihydro­purin‐9‐yl)perhydro­furano[3,4‐c][1,3,2]dioxaphosphole monohydrate}, [Et₃NH(2′,3′‐cGMP)]·H₂O or C₆H₁₆N⁺·C₁₀H₁₁N₅O₇P⁻·H₂O, (II), reveal different nucleobase orientations, viz. anti in (I) and syn in (II). These are stabilized by different inter‐ and intra­molecular hydrogen bonds. The structures also exhibit different ribose ring puckering [₄E in (I) and ³T₂ in (II)] and slightly different 1,3,2‐dioxaphospho­lane ring conformations, viz. envelope in (I) and puckered in (II). Infinite ribbons of 2′,3′‐cAMP⁻ and helical chains of 2′,3′‐cGMP⁻ ions, both formed by O—H⋯O, N—H⋯X and C—H⋯X (X = O or N) hydrogen‐bond contacts, characterize (I) and (II), respectively.