Two isomeric di­deoxy­nucleosides

We have synthesized two isomeric di­deoxy­nucleosides. 4(S)‐(6‐Amino‐9H‐purin‐9‐yl)‐3‐methyl­ene‐2,3,4,5‐tetra­hydrofuran‐2(S)‐yl­methanol, C₁₁H₁₃N₅O₂, is an analogue of the anti‐HIV compound (S,S)‐isodi­deoxy­adenosine (isoDDA) with an exocyclic methyl­ene group and is found to be anti‐HIV inactive. The solid‐state comformation is very similar to that of isoDDA. 4(S)‐(6‐Amino‐3H‐purin‐3‐yl)‐3‐methyl­ene‐2,3,4,5‐tetra­hydro­furan‐2(S)‐ylmethanol, C₁₁H₁₃N₅O₂, has an isomeric arrangement of the carbohydrate and base moieties, as confirmed by the crystal structure analysis. The asymmetric unit contains two independent mol­ecules that differ in conformations at the sugar moiety.     

Novel heterocyclic inhibitors of matrix metalloproteinases: three 6H‐1,3,4‐thiadiazines

The title compounds, (2S)‐N‐[5‐(4‐chloro­phenyl)‐2,3‐di­hydro‐6H‐1,3,4‐thia­diazin‐2‐yl­idene]‐2‐[(phenyl­sulfonyl)­amino]­pro­pan­amide, C₁₈H₁₇ClN₄O₃S₂, (I), (2R)‐N‐[5‐(4‐fluoro­phenyl)‐6H‐1,3,4‐thia­diazin‐2‐yl]‐2‐[(phenyl­sulfonyl)amino]­propan­amide, C₁₈H₁₇FN₄O₃S₂, (II), and (2S)‐N‐[5‐(5‐chloro‐2‐thienyl)‐6H‐1,3,4‐thia­diazin‐2‐yl]‐2‐[(phenyl­sulfonyl)­amino]­propan­amide, C₁₆H₁₅ClN₄O₃S₃, (III), are potent inhibitors of matrix metalloproteinases. In all three compounds, the thia­diazine ring adopts a screw‐boat conformation. The mol­ecules of compound (I) show a short intramolecular N_Ala—H?N_exo hydrogen bond [N?N 2.661 (3) Å] and are linked into a chain along the c axis by N_endo—H?S_endo and N_endo—H?O_Ala hydrogen bonds [N?S 3.236 (3) and N?O 3.375 (3) Å] between neighbouring mol­ecules. In compound (II), the mol­ecules are connected antiparallel into a chain along the a axis by N_exo—H?O_Ala and N_Ala—H?N_endo hydrogen bonds [N?O 2.907 (6) and N?N 2.911 (6) Å]. The mol­ecules of compound (III) are dimerized antiparallel through N_exo—H?N_endo hydrogen bonds [N?N 2.956 (7) and 2.983 (7) Å]. The different hydrogen‐bonding patterns can be explained by an amido–imino tautomerism (prototropic shift) shown by different bond lengths within the 6H‐1,3,4‐thia­diazine moiety.     

A stacked pyrazolo[3,4-d]pyrimidine-based flexible molecule: the effect on stacking of an ethyl group in comparison with a methyl group

In the crystal structure of 1,1′-(1,3-propane­diyl)­bis(5-ethyl-6-methyl­thio-4,5-di­hydro-1H-pyrazolo­[3,4-d]­pyrimidin-4-one), C₁₉H₂₄N₈O₂S₂, the pairs of pyrazolo­[3,4-d]­pyrimidine rings of the mol­ecule stack between the heterocyclic rings, due to intramolecular π–π interactions. The substituted ethyl and methyl groups are comparable as far as intramolecular stacking is concerned.     

Bergenin monohydrate from the rhizomae of Astilbe chinensis

The title compound, 4‐methoxy‐2‐[(1S,2R,3S,4S,5R)‐3,4,5,6‐tetrahydro‐3,4,5‐tri­hydroxy‐6‐(hydroxy­methyl)‐2H‐­pyran‐2‐yl]‐α‐resorcylic acid δ‐lactone monohydrate, C₁₄H₁₆O₉·H₂O, is a C‐glucoside of 4‐O‐methylgallic acid which has antiasthmatic, antitussive, anti‐inflammatory, antifungal, anti‐HIV and antihepatotoxic activity. The mol­ecule is composed of three six‐membered rings: an aromatic ring, a glucopyran­ose ring and an annellated δ‐lactone ring. The glucopyran­ose ring exhibits only small deviations from an ideal chair conformation. The annellated δ‐lactone ring possesses the expected half‐chair conformation. There is one intra‐ and six intermolecular hydrogen bonds which form an extensive hydrogen‐bonding network within the crystal.     

Oxythiamine hexafluorophosphate monohydrate,a thiamine antagonist with the same conformation as ­thiamine

In the title compound, 3‐[(3,4‐di­hydro‐2‐methyl‐4‐oxopyrimidin‐5‐yl)­methyl]‐5‐(2‐hydroxy­ethyl)‐4‐methyl­thia­zolium hexa­fluoro­phosphate monohydrate, C₁₂H₁₆N₃O₂S⁺·PF₆^?·H₂O, oxy­thi­amine is a monovalent cation with a neutral oxo­pyrimidine ring. The mol­ecule assumes the F conformation, which is a common form for thi­amine but which is substantially different from the unusual V conformation found in the chloride and hydro­chloride salts of oxy­thi­amine. The anion‐bridging interaction, C—H?anion?pyrimidine, is emphasized as being important for stabilization of the F conformation.     

A di­deoxy­dide­hydro­nucleoside derivative

We have synthesized a di­deoxy­dide­hydro­nucleoside derivative, 2(S)‐acetoxymethyl‐4‐[4‐amino‐2‐oxopyrimidin‐1(2H)‐yl]‐2,5‐di­hydro­furan, C₁₁H₁₃N₃O₄, which is an analogue of the potently anti‐HIV active compound, di­deoxy‐dide­hydro­cytidine (d4C). The target compound crystallizes with two mol­ecules in the asymmetric unit that differ primarily in the orientation of the C6′‐acetyl group. One mol­ecule has an extended conformation and the orientation of the acetyl group in the second mol­ecule gives an unusual hooked‐shaped conformation. The two conformers form A–B dimers via N—H?N hydrogen bonds. The dimers link via N—H?O hydrogen bonds to form chains parallel to the b cell axis.     

Polyether antibiotic CP44,161

The crystal structure of antibiotic CP44,161, 6-(7-{2-ethyl-2-[5-(1-hydroxy­methyl)-5-methyl-2,3,4,5-tetra­hydro-2-furyl]-4,10,-­12-tri­methyl-1,6,8-trioxadi­spiro­[4.1.5.3]­pentadec-13-en-9-yl}-4-hydroxy-3,5-di­methyl-6-oxononyl)-2-hydroxy-3-methyl­benzoic acid monohydrate, C₄₃H₆₆O₁₀·H₂O, has been determined by X-ray crystallography. The mol­ecule adopts a cyclic conformation, with a centrally located water mol­ecule contributing to the stability of the conformation through hydrogen-bonding interactions.     

(1R,2R)‐1,2‐Di­phenyl‐1,2‐bis(8‐quinoline­sulfonyl­amino)ethyl­enedi­amine–acetone (1/1)

The crystal structure of the new chiral complex (1R,2R)‐1,2‐di­phenyl‐1,2‐bis(8‐quinoline­sulfonyl­amino)‐ ethyl­enedi­amine–acetone (1/1), C₃₂H₂₆N₄O₄S₂^.C₃H₆O, is reported. The conformation of the C₃₂H₂₆N₄O₄S₂ (BQSDA) mol­ecule is determined by a bifurcated N—H?N hydrogen‐bond system. The acetone of solvation is linked to the BQSDA mol­ecule by an N—H?O hydrogen bond.     

Some Diels–Alder adducts of 6-vinyl-1-oxa-4-thiaspiro[4.5]dec-6-ene

6-Vinyl-1-oxa-4-thia­spiro­[4.5]­dec-6-ene has been reacted with dienophiles, such as N-phenyl­male­imide (NPM), N-methyl­triazoline-2,5-dione (MTAD) and di­methyl­acetyl­ene di­carboxyl­ate (DMAD), to assess the 1,3-diastereofacial selection caused by the acetal function. In each case, a mixture of two diastereoisomers was produced. The crystal structures of the products of the addition of NPM and MTAD syn to the acetal oxy­gen, 2-phenyl-2,3,3a,4,5,5a,6,7,8,9,9a,9b-dodeca­hydro-1H-benz­[e]­iso­indole-6-spiro-2′-[1′,3′]­oxa­thiol­ane-1,3-dione, C₂₀H₂₁NO₃S, (IIa), and 2-methyl-5,7,8,9,10,10a-hexa­hydro-1H-1,2,4-triazolo­[1,2-a]­cinnoline-7-spiro-2′-[1′,3′]­oxa­thiol­ane-1,3-dione, C₁₃H₁₇N₃O₃S, (IIIa), respectively, and the product of the addition of DMAD syn to the acetal sulfur, di­methyl 1,2,3,4,4a,7-hexa­hydro­naphthalene-1-spiro-2′-[1′,3′]­oxa­thiol­ane-5,6-di­carboxyl­ate, C₁₆H₂₀O₅S, (IVb), have been determined. All three structures are composed of independent mol­ecules separated by normal van der Waals distances. The 1-oxa-4-thia heterocyclic ring has an envelope conformation in the three structures and the S—Csp³ bond distances differ significantly from each other, as observed in comparable structures; the remaining molecular dimensions are as expected.     

Transition metal complexes with thio­semicarbazide‐based ligands. XV. A square‐pyramidal NiII complex with an asymmetric coordination of 2,6‐di­acetyl­pyridine bis(S‐methyl­iso­thio­semicarbazone)

The title compound, [di­acetyl­pyridine bis(S‐methyl­iso­thio­semicarbazonato)]­iodo­nickel(II), [Ni(C₁₃H₁₈N₇S₂)I], is the first example of a complex involving the ²N coordination of the iso­thio­semicarbazide moiety. 2,6‐Di­acetyl­pyridine bis(S‐methyl­iso­thio­semicarbazone), as a potentially pentadentate ligand (N₅), is coordinated as a tetradentate species, whereby one (deprotonated) iso­thio­semicarbazide moiety is coordinated in the usual way (¹N⁴N), but the other (neutral) is bonded via the ²N atom only, the fourth ligator being the pyridine nitro­gen. The difference in coordination mode of the iso­thio­semicarbazide moiety is reflected in the ¹N—²N bond lengths of 1.359 (4) and 1.379 (3) Å in the deprotonated and undeprotonated moieties, respectively. The structure contains three fused chelate rings in a 5:5:6 arrangement. The six‐membered ring has a non‐planar conformation.     

Terbogrel,a dual‐acting agent for thromboxane receptor antagonism and thromboxane synthase inhibition

Terbogrel, (E)‐6‐[4‐(3‐tert‐butyl‐2‐cyano­guanidino)­phenyl]‐6‐(3‐pyridyl)­hex‐5‐enoic acid, C₂₃H₂₇N₅O₂, a mixed thromboxane A₂ receptor antagonist and thromboxane A₂ synthase inhibitor, shows a hairpin‐like conformation stabilized by an intramolecular hydrogen bond. A structural feature characteristic of the thromboxane A₂ synthase inhibitor mode is observed: a distance of 8.4257 (19) Å between the pyridine N atom and the carboxyl group.     

Tri­tosyl­ate of diethano­lamine

The crystal structure of the tri­tosyl­ated diethano­lamine N,N-bis­(tosyl­oxy­ethyl)-p-toluene­sulfon­amide, C₂₅H₂₉NO₈S₃, has been determined. The conformation of the mol­ecule is such that the tosyl groups are as far apart as possible. The mol­ecules are interconnected by C—H⃛O hydrogen bonds and form columns in the crystal structure.     

The α‐d anomer of 5‐aza‐7‐deaza‐2′‐deoxyguanosine

In the monohydrate of 2‐amino‐8‐(2‐deoxy‐α‐d ‐erythro‐pento­furan­osyl)‐8H‐imidazo­[1,2‐a]­[1,3,5]­triazin‐4‐one, C₁₀H₁₃N₅O₄·H₂O, denoted (I) or αZ_d, the conformation of the N‐gly­cosyl­ic bond is in the high‐anti range [χ = 87.5 (3)°]. The 2′‐deoxy­ribo­furan­ose moiety adopts a C2′‐endo,C3′‐exo(^2′T_3′) sugar puckering (S‐type sugar) and the conformation at the C4′—C5′ bond is ?sc (trans).     

3,5‐Di­fluoro‐4‐nitro­pyridine N‐oxide and 3,5‐di­amino‐4‐nitro­pyridine N‐oxide monohydrate

The mol­ecule of 3,5‐di­fluoro‐4‐nitro­pyridine N‐oxide, C₅H₂F₂N₂O₃, is twisted around the C—NO₂ bond by 38.5 (1)°, while the 3,5‐di­amino analogue, 3,5‐di­amino‐4‐nitro­pyridine N‐oxide monohydrate, C₅H₆N₄O₃·H₂O, adopts a planar conformation stabilized by intramolecular hydrogen bonds, with a significant redistribution of π electrons.     

Protonation products of pentaaminopentane as novel building blocks for hydrogen‐bonded networks

The structures of 3‐amino‐1,2R,4S,5‐tetra­ammoniopentane tetrachloride monohydrate, C₅H₂₁N₅⁴⁺·4Cl^?·H₂O, and 1,2R,3,4S,5‐penta­ammoniopentane tetra­chloro­zincate tri­chlor­ide monohydrate, (C₅H₂₂N₅)[ZnCl₄]Cl₃·H₂O, have been determined from single‐crystal X‐ray diffraction data. Both compounds show a complex network of N—H?O, O—H?Cl and N—H?Cl hydrogen bonds. There are a total of 14 H atoms of the tetra‐cation and 15 H atoms of the penta‐cation available for hydrogen bonding. However, due to the particular shape of the primary linear poly­ammonium cations, only a certain number of H atoms can be involved in hydrogen‐bond formation. It is further shown that hydrogen bonding has an influence on the conformation of such alkyl­ammonium cations.     

N‐Benzyl­tetra­hydro­pyrido‐anellated thio­phene derivatives: new anti­cholinesterases

The title compounds, tert‐butyl 6‐benzyl‐2‐(3,3‐diethyl­ureido)‐4,5,6,7‐tetra­hydro­thieno[2,3‐c]pyridine‐3‐carboxyl­ate, C₂₄H₃₃N₃O₃S, (I), 7‐benzyl‐2‐diethyl­amino‐5,6,7,8‐tetra­hydro‐3‐oxa‐9‐thia‐1,7‐diaza­fluoren‐4‐one, C₂₀H₂₃N₃O₂S, (II), and N‐(7‐benzyl‐4‐oxo‐5,6,7,8‐tetra­hydro‐4H‐3,9‐dithia‐1,7‐diaza­fluoren‐2‐yl)benzamide, C₂₃H₁₉N₃O₂S₂, (III), form monoclinic crystal systems. In (I) and (II), the mol­ecules are linked into a three‐dimensional framework by weak inter­molecular C—H⋯O=C hydrogen bonds, whereas in (III) stronger inter­molecular N—H⋯O=C inter­actions are observed. The conformation of (I) is further stabilized by an intra­molecular N—H⋯O=C hydrogen bond, which effects the planarity of the ureido­thio­phene­carboxyl­ate moiety.     

Intermolecular stacking in pyrazolo[3,4‐d]pyrimidine‐based pentamethylene‐linked flexible ­molecules

The crystal structures of 1‐{5‐[4,6‐bis­(methyl­sulfanyl)‐2H‐py­razolo­[3,4‐d]­pyrimidin‐2‐yl]­pentyl}‐6‐methyl­sulfanyl‐4‐(pyr­rolidin‐1‐yl)‐1H‐pyrazolo­[3,4‐d]­pyrimidine, C₂₂H₂₉N₉S₃, and 6‐methyl­sulfanyl‐1‐{5‐[6‐methyl­sulfanyl‐4‐(pyrrolidin‐1‐yl)‐2H‐pyrazolo­[3,4‐d]­pyrimidin‐2‐yl]­pentyl}‐4‐(pyrrolidin‐1‐yl)‐1H‐pyrazolo­[3,4‐d]­pyrimidine, C₂₅H₃₄N₁₀S₂, which differ in having either a pyrrolidine substituent or a methylsulfanyl group, show intermolecular stacking due to aromatic π–π interactions between the pyrazolo­[3,4‐d]­pyrimidine rings.     

Metabolic pathways of dithiocar­bamates from laboratory powder diffraction data

In order to correlate the reactivity and molecular structures of di­thio­carbamates, the crystal structures of 6-di­methyl­amino-5-nitro­pyrimidin-4-yl N,N-diethyl­di­thio­carbamate, C₁₁H₁₇N₅O₂S₂, (Ia), and 6-methyl­amino-5-nitro­pyrimidin-4-yl N,N-diethyl­di­thio­carbamate, C₁₀H₁₅N₅O₂S₂, (Ib), and of the product of thermolysis of (Ib), namely 4-diethyl­amino-6-methyl­amino-5-nitro­pyrimidinium chloride monohydrate, C₉H₁₆N₅O₂⁺·Cl⁻·H₂O, (II), have been determined from X-ray laboratory powder diffraction data. Conformational preferences in (Ia) and (Ib) were studied on the density functional theory (DFT) level. Deviation of the reaction centre of the mol­ecule from planarity and breakage of the secondary S⃛O contact cause switching between two alternative pathways of thermolysis.     

Two intermediates in the synthesis of deca­hydro­iso­quinolines with NMDA and AMPA receptor antagonist activity

In 6‐methyl‐N‐(4‐nitro­benzoyl)‐5,6‐di­hydropyridin‐2(1H)‐one, C₁₃H₁₂N₂O₄, (I), the piperidone ring is in a distorted half‐chair conformation. In 8‐methoxy‐3‐methyl‐N‐(4‐nitro­benzoyl)‐1,2,3,4,5,6,7,8‐octa­hydro­iso­quinoline‐1,6‐dione, C₁₈H₂₀N₂O₆, (II), the heterocyclic ring is in a slightly distorted half‐boat conformation, while the other six‐membered ring is in a distorted chair conformation. Compound (II) presents a strong intramolecular C—H?O hydrogen bond. In both (I) and (II), the mol­ecules interact through C—H?O interactions.     

The diastereoisomers methyl 5‐(S)‐[2‐(R)/(S)‐methoxycarbonyl)‐2,3,4,5‐tetrahydropyrrol‐1‐ylcarbonyl]‐1‐(4‐methylphenyl)‐4,5‐dihydropyrazole‐3‐carboxylate

The title diastereoisomers, methyl 5‐(S)‐[2‐(S)‐methoxy­carbonyl)‐2,3,4,5‐tetra­hydro­pyrrol‐1‐yl­carbonyl]‐1‐(4‐methyl­phenyl)‐4,5‐di­hydro­pyrazole‐3‐carboxyl­ate and methyl 5‐(S)‐[2‐(R)‐methoxycarbonyl)‐2,3,4,5‐tetrahydropyrrol‐1‐ylcarbonyl]‐1‐(4‐methyl­phenyl)‐4,5‐di­hydro­pyrazole‐3‐carboxylate, both C₁₉H₂₃N₃O₅, have been studied in two crystalline forms. The first form, methyl 5‐(S)‐[2‐(S)‐methoxy­carbonyl)‐2,3,4,5‐tetrahydropyrrol‐1‐ylcarbonyl]‐1‐(4‐methylphenyl)‐4,5‐di­hydro­pyrazole‐3‐carboxyl­ate–methyl 5‐(S)‐[2‐(R)‐methoxy­carbonyl)‐2,3,4,5‐tetra­hydro­pyrrol‐1‐yl­carbonyl]‐1‐(4‐methylphenyl)‐4,5‐dihydropyrazole‐3‐carboxylate (1/1), 2(S),5(S)‐C₁₉H₂₃N₃O₅·2(R),5(S)‐C₁₉H₂₃N₃O₅, contains both S,S and S,R isomers, while the second, methyl 5‐(S)‐[2‐(S)‐methoxycarbonyl)‐2,3,4,5‐tetrahydro­pyrrol‐1‐ylcarbonyl]‐1‐(4‐methyl­phenyl)‐4,5‐di­hydro­pyrazole‐3‐carboxyl­ate, 2(S),5(S)‐C₁₉H₂₃N₃O₅, is the pure S,S isomer. The S,S isomers in the two structures show very similar geometries, the maximum difference being about 15° on one torsion angle. The differences between the S,S and S,R isomers, apart from those due to the inversion of one chiral centre, are more remarkable, and are partially due to a possible rotational disorder of the 2‐­(methoxycarbonyl)tetrahydropyrrole group.