Search PubMed⌕ Search

Biomedical subjects

Sean Parkin

Publications and source records attributed to Sean Parkin.

At least 37 records · Page 2Linked to original sources

The unusual phases of anhydrous and hydrated pinacol.

The structure of highly twinned pinacol (2,3-dimethyl-2,3-butanediol) monohydrate, the existence of which has been known since 1922, has been determined, and the structures of anhydrous pinacol and its two other known hydrates have been reinvestigated. All the phases are unusual. The anhydrous phase is exceptional among molecular crystals in having molecules located on three different symmetry sites (1, \overline 1 and 2). A hexagonal form of pinacol originally described as a second polymorph has been shown to be a solvate of uncertain composition that is very loosely packed. Pinacol hexahydrate, which was originally reported as tetragonal and highly disordered, appears to be described better as having an orthorhombic structure that is both disordered and twinned; the diffraction pattern at 90 K shows structured diffuse scattering that suggests short-range correlations of disordered molecules. The occurrence of this unusual set of structures is attributed to the combination of the hydrogen-bonding requirements of the pinacol molecule with its small size and limited conformational flexibility.

Journal Article↗

Synthesis, characterization, and structure of cyclopenta[c]thiophenes and their manganese complexes.

1,3-Diaryl-4H-cyclopenta[c]thiophenes are efficiently prepared from 1,2-diaroylcyclopentadienes by use of Lawesson's reagent. eta5-Cyclopenta[c]thienyl complexes, [Mn(eta5-SC7H3-1,3-R2)(CO)3] (R = Me, Ph), are prepared in high yield by ligand substitution reactions of [MnBr(CO)5] with [SnMe3(SC7H3-1,3-R2)]. Alternatively, thiation with P4S10/NaHCO3 converts [Mn{eta5-1,2-C5H3(COR)2)(CO)3] to [Mn(eta5-SC7H3-1,3-R2)(CO)3] (R = Ph, 4-tolyl, 4-MeOC6H4, benzo[2,3-b]thienyl). The molecular structures of complexes with R = Me, Ph show planar eta5-cyclopenta[c]thienyl ligands, with the manganese atom slightly displaced away from the ring-fusion bond.

Journal Article↗

(Z)-2-(3-methoxybenzylidene)-1-azabicyclo[2.2.2]octan-3-one.

The crystal structure of the title compound, C(15)H(17)NO(2), contains two nearly identical but crystallographically independent molecules, each with a double bond connecting an azabicyclic ring system to a 3-methoxybenzylidene moiety. The space group is triclinic P-1. The benzene ring is twisted by 18.44 (5) and 22.35 (4) degrees with respect to the plane of the double bond connected to the azabicyclic ring system for the two molecules. In addition to C-H...pi interactions, molecules are held together in the solid state by van der Waals interactions.

Crystallization↗

Mercurophilic interaction in novel polynuclear Hg(II)-2-aminoethanethiolates.

The reaction of 2-aminoethanethiol hydrochloride with Hg(2)Cl(2) in water yielded elemental mercury and one-dimensional polynuclear compounds [{Hg(3)Cl(5)(SCH(2)CH(2)NH(3))(3)}Cl](n) and [HgCl(SCH(2)CH(2)NH(2))(H(2)O)(2)](n) (2). The coordination environment around Hg in 1 and 2 is quite variable despite similar reaction conditions. The formation of a five-membered S/N chelate in 2 can be attributed to the use of base to produce a neutral ligand. Three independent types of Hg atoms, both three- and four-coordinate are observed in 1, whereas in 2, the Hg atom is tetracoordinate with S, N and Cl atoms in the primary coordination sphere. Despite distinct structural chemistry, the coordination environments in 1 and 2 are fairly similar with repeating units connected with bridged thiolate S atoms in addition to a terminal Cl attached to Hg. Intermolecular hydrogen-bonding involving amine protons, Cl and water molecules are responsible for a three-dimensional network in both 1 and 2. A short Hg...Hg distance of 3.564 A, indicates the presence of a mercurophilic interaction in 1. The compounds have been characterized by (1)H and (13)C NMR, UV-Vis, FT-IR, Raman, mass spectrometry, TGA and single X-ray crystallography.

Amines↗

Structure-directing influence of halide in mercury thiolate clusters.

Under identical conditions, the reaction of 2-aminoethanethiol hydrochloride with HgX(2) (X = Cl and Br) in water yielded discrete hexanuclear [Hg(6)Cl(8)(SCH(2)CH(2)NH(3))(8))]Cl(4).4H(2)O (1) and nonanuclear [Hg(9)Br(15)(SCH(2)CH(2)NH(3))(9)](Cl(0.8)Br(0.2))(3) (2) complexes with unusual coordination environments. Compound 1 crystallizes as triclinic with a = 9.434(2) Angstroms, b = 10.999(2) Angstroms, c = 13.675(7) Angstroms, alpha = 92.9(7) degrees, beta = 105.2(7) degrees, and gamma = 96.9(7) degrees, whereas 2 is monoclinic with a = 14.162(3) Angstroms, b = 8.009(16) Angstroms, c = 19.604(4) Angstroms, alpha = gamma = 90.0 degrees, and beta = 92.7(3) degrees. In both cases, it is observed that the halide creates the secondary structure around trinuclear units (dimer in 1 and trimer in 2) through Hg-X bonding. Two independent types of Hg atoms (four- and five-coordinate in 1) and (three- and four-coordinate in 2) are observed. The geometry around Hg is quite variable with bridging thiolate and both bridging and terminal halides. The angles around Hg associated with the S atoms are more obtuse than expected from mercury(II) thiolates with a coordination number of more than 2. Intermolecular hydrogen bonding involving NH(3)(+), water molecules, and the halide atoms is responsible for the three-dimensional network in both compounds. Relatively short Hg...Hg interactions in 1 (3.797 and 3.776 Angstroms) and in 2 (3.605 and 3.750 Angstroms) are also observed. The compounds have been characterized with the help of (1)H and (13)C NMR, UV-Vis, infrared, Raman, and mass spectrometry, thermogravimetric analysis, and single X-ray crystallography.

Journal Article↗

(E)-2-Methyl-3-(2-methyl-2-nitrovinyl)-1H-indole and (E)-3-(2-methyl-2-nitrovinyl)-2-phenyl-1H-indole.

In the title compounds, C12H12N2O2, (I), and C17H14N2O2, (II), respectively, the indole rings are planar and the vinyl groups lie out of the indole planes, making dihedral angles of 33.48 (5) and 41.31 (8) degrees , respectively. In (II), the dihedral angle between the phenyl and indole ring planes is 32.06 (6) degrees . In both molecules, the double bond connecting the methylnitrovinyl group and the indole nucleus adopts an E configuration. Notwithstanding the differences in space group [C2/c for (I) and P2(1)2(1)2(1) for (II)], the mode of packing of compounds (I) and (II) is determined by similar intermolecular N-H...O hydrogen-bonding interactions, forming chains that run parallel to [101] in (I) and [001] in (II).

Crystallography, X-Ray↗

Single-molecule magnets constructed from cyanometalates: {[Tp*Fe(III)(CN)3M(II)(DMF)4]2[OTf]2} x 2DMF (M(II) = Co, Ni).

Treatment of several divalent transition-metal trifluoromethanesulfonates [M(II)(OTf)2; M(II) = Mn, Co, Ni] with [NEt4][Tp*Fe(III)(CN)3] [Tp* = hydridotris(3,5-dimethylpyrazol-1-yl)borate] in DMF affords three isostructural rectangular clusters of {[Tp*Fe(III)(CN)3M(II)(DMF)4]2[OTf]2} x 2DMF (M(II) = Mn, 3; Co, 4; Ni, 5) stoichiometry. Magnetic studies of 3-5 indicate that the Tp*Fe(CN)3(-) centers are highly anisotropic and exhibit antiferromagnetic (3 and 4) and ferromagnetic (5) exchange to afford S = 4, 2, and 3 spin ground states, respectively. ac susceptibility measurements suggest that 4 and 5 exhibit incipient single-molecule magnetic behavior below 2 K.

Journal Article↗

A helical structure with Z' = 10.

The structure of N''-cyano-N,N-diisopropylguanidine, a push-pull nitrile that includes the H(2)N-C=N-CN fragment, has been determined. Although the number of molecules in the asymmetric unit is exceptionally high (Z' = 10), there were no special crystallographic difficulties associated with data collection, structure solution or structure refinement because the individual molecules are small (12 non-H atoms) and because there is no important crystallographic pseudosymmetry. A complete set of N-H...N bonds is formed. Pairs of molecules form dimers, which associate to form ribbons that twist into a helix having five dimers per turn. The helices lie parallel to [101] and fit together with close contacts in three different directions perpendicular to that axis. The problems with optimizing so many different intermolecular contacts lead to a loosely packed structure.

Journal Article↗

Synthesis and structural characterization of bi- and trimetallic octacyanometalate(IV) complexes: [Delta,Lambda-MII(en)3][cis-MII(en)2(OH2)][MIV(CN)8].2H2O and [cis-MII(en)2(OH2)]2[(mu-NC)2MIV(CN)6].4H2O (MII = Mn, Co, Ni; MIV = Mo, W).

Treatment of [M(II)(en)(3)][OTs](2) or methanolic ethylenediamine solutions containing transition metal p-toluenesulfonates (M(II) = Mn, Co) with aqueous K(4)M(IV)(CN)(8).2H(2)O or Cs(3)M(V)(CN)(8) (M(IV) = Mo, W; M(V) = Mo) affords crystalline clusters of [M(II)(en)(3)][cis-M(II)(en)(2)(OH(2))(mu-NC)M(IV)(CN)(7)].2H(2)O (M(IV) = Mo; M(II) = Mn, 1; Ni, 5; M(IV) = W; M(II) = Mn, 2; Ni, 6) and [cis-M(II)(en)(2)(OH(2))](2)[(mu-NC)(2)M(IV)(CN)(6)].4H(2)O (M(IV) = Mo; M(II) = Co, 3; Ni, 7; M(IV) = W; M(II) = Co, 4) stoichiometry. Each cluster contains cis-M(II)(en)(2)(OH(2))(mu-NC)(2+) units that likely result from dissociative loss of en from [M(II)(en)(3)](2+), affording cis-M(II)(en)(2)(OH(2))(2)(2+) intermediates that are trapped by M(IV)(CN)(8)(4-).

Journal Article↗

(Z)-3-(1H-Indol-3-yl)-2-(3-thienyl)acrylonitrile and (Z)-3-[1-(4-tert-butylbenzyl)-1H-indol-3-yl]-2-(3-thienyl)acrylonitrile.

(Z)-3-(1H-Indol-3-yl)-2-(3-thienyl)acrylonitrile, C15H10N2S, (I), and (Z)-3-[1-(4-tert-butylbenzyl)-1H-indol-3-yl]-2-(3-thienyl)acrylonitrile, C26H24N2S, (II), were prepared by base-catalyzed reactions of the corresponding indole-3-carboxaldehyde with thiophene-3-acetonitrile. 1H/13C NMR spectral data and X-ray crystal structures of compounds (I) and (II) are presented. The olefinic bond connecting the indole and thiophene moieties has Z geometry in both cases, and the molecules crystallize in space groups P2(1)/c and C2/c for (I) and (II), respectively. Slight thienyl ring-flip disorder (ca 5.6%) was observed and modeled for (I).

Acrylonitrile↗

(Z)-2-(1-Phenylsulfonyl-1H-indol-3-ylmethylene)-1-azabicyclo[2.2.2]octan-3-one and (Z)-(S)-2-(1-phenylsulfonyl-1H-indol-3-ylmethylene)-1-azabicyclo[2.2.2]octan-3-ol.

The title compounds, C22H20N2O3S, (I), and C22H22N2O3S, (II), crystallize in space groups P-1 and P2(1)2(1)2(1), respectively. The indole rings are planar and the benzene ring of the phenylsulfonyl group makes a dihedral angle with the mean plane of the indole ring of 90.2 (2) degrees in (I) and 94.0 (2) degrees in (II). In both molecules, the double bond connecting the aza-bicyclic and indole moieties has a Z geometry. Compound (II) was obtained as an enantiomerically pure crystal and has the 3S configuration.

Aza Compounds↗

Packing conflicts in the Z' = 5 structure of CF(3)(CF(2))(3)(CH(2))(10)COOH.

Dimers of the partially fluorinated amphiphile 1-(perfluorobutyl)undecanoic acid, CF(3)(CF(2))(3)(CH(2))(10)COOH, crystallize in the same basic packing arrangement found for many n-alkyl carboxylic acids. The unit cell of the fluorinated compound, however, contains five independent molecules rather than the one found for most n-alkyl carboxylic acids including CH(3)(CH(2))(13)COOH. The structures of the two C(15) acids are compared. The structural modulations that lead to the large value of Z' can be understood as resulting from the conflict between the necessity of filling space densely and uniformly and the tendency of unlike groups to be segregated spatially. The few other known structures of compounds with both (CF(2))(n) and (CH(2))(m) regions show evidence of the same conflict.

Crystallization↗

2-Biphenylol revisited.

The substantially disordered structure of 2-biphenylol [Perrin et al. (1987). Acta Cryst. C43, 980-982; Kapon & Reisner (1988). Acta Cryst. C44, 2039] has been reinvestigated as a function of temperature. The structure was determined at 305, 294, 145 and 90 K; crystals were taken to the lowest temperature both rapidly and slowly (0.1 K min(-1)). The results of the previous room-temperature study were confirmed and no important structural change was found down to 90 K. Comparisons with structures known for other simple 2- and 2,2'-substituted biphenyl derivatives suggest that the molecular stacks found for 2-biphenylol are probable for related molecules. The disorder in 2-biphenylol allows the formation of some O-H...O bonds, but packing efficiency is a more important factor in this structure than is hydrogen bonding.

Journal Article↗

(Z)-3-(1-Methyl-1H-indol-3-yl)-2-(thiophen-3-yl)acrylonitrile.

The title compound, C16H12N2S, has been synthesized by base-catalyzed condensation of 1-methylindole-3-carboxaldehyde with thiophene-3-acetonitrile. The product assumes an approximately planar Z configuration. The molecule has a thienyl-ring flip disorder.

Acrylonitrile↗

Synthesis of polychlorinated biphenyls and their metabolites with a modified Suzuki-coupling.

A modified procedure for the synthesis of polychlorinated biphenyls (PCBs) utilizing the Suzuki-coupling, a palladium-catalyzed cross-coupling reaction, is described. The coupling of (chlorinated) benzene boronic acids with bromochlorobenzenes, using Pd(dppf)(2)Cl(2) (dppf = 1,1'-bis(diphenylphosphino)ferrocene) as the catalyst and aqueous sodium carbonate as the base, gave the desired PCB congeners in moderate to good yields. Eleven PCB congeners, including environmentally important PCB congeners and metabolites, were synthesized using this modified procedure. This new catalyst Pd(dppf)(2)Cl(2) offers the advantage of being less air-sensitive and has a longer shelf life compared to Pd(PPh(4))(4). Three new (di-)methoxylated PCB congeners were synthesized using the same procedure by either coupling a chlorinated benzene boronic acid with a bromo (di-)methoxybenzene or by coupling a (di-)methoxy benzene boronic acid with a chlorinated bromobenzene. The dimethoxylated PCB congeners were readily converted into the respective dihydroxylated PCB derivatives using boron tribromide in dichloromethane. This approach offers the advantage of high selectivity and moderate to good yields compared to conventional methods such as the Cadogan reaction and allows the use of less toxic starting materials.

Benzene Derivatives↗

(Z)-2-(1H-Indol-3-ylmethylene)-1-azabicyclo[2.2.2]octan-3-one.

The title compound, C(16)H(16)N(2)O, which contains a double bond connecting an azabicyclic ring system to an indol-3-ylmethylene group, crystallizes from a solution in ethyl acetate. The geometries of the two crystallographically independent molecules are nearly identical. The crystal packing of the title compound involves two types of intermolecular hydrogen bond.

Aza Compounds↗