Old Acquaintances and Novel Complex Structures for the Ni(II) and Cu(II) Complexes of bis-Chelate Oxime-Amide Ligands.

In the process of systematically studying the methylhydroxyiminoethaneamide bis-chelate ligands with polymethylene spacers of different lengths, L1-L3, and their transition metal complexes, a number of new Ni(II) and Cu(II) species have been isolated, and their molecular and crystal structures were determined using single-crystal X-ray diffraction. In all of these compounds, the divalent metal is coordinated by the ligand donor atoms in a square-planar arrangement. In addition, a serendipitously discovered new type of neutral Ni(II) complex, where the propane spacer of ligand L2 underwent oxidation to the propene spacer, and one of the amide groups was oxidised to the ketoimine, is also reported. The resulting ligand L2' affords the formation of neutral planar Ni(II) complexes, which are assembled in the solid state on top of each other, and yield two polymorphic structures. In both structures, the resulting infinite, exclusively parallel metal ion columns in ligand insulation may serve as precursor materials for sub-nano-conducting connectors. Overall, this paper reports the synthesis and characterisation of seven new anionic, cationic, and neutral Ni(II) and Cu(II) complexes, their crystal structures, as well as experimental and computed UV-Vis absorption spectra for two structurally similar Ni(II) complexes, yellow and red.

Synthesis of 4-(2-fluorophenyl)-7-methoxycoumarin: experimental and computational evidence for intramolecular and intermolecular C-F···H-C bonds.

4-(2-Fluorophenyl)-7-methoxycoumarin (6) was synthesized by Pechmann reaction under mild conditions via a three-step reaction. The solution-state 1H NMR spectra of 6 showed a strong intramolecular interaction between F and H5 (J FH = 2.6 Hz) and 13C NMR suggested that this C-F···H-C coupling is a through-space interaction. The 2D 19F-{1H} HOESY and 1H-{19F} 1D experiments were done to confirm this F···H interaction. The single crystal X-ray structure and the DFT-optimized structure showed that the fluorinated phenyl ring favors the orientation with the fluorine atom closer to H5 than H3. The X-ray structure also showed the existence of the intermolecular C-F···H-C interaction.

Self-assembled supramolecular structures of O,N,N' tridentate imidazole-phenol Schiff base compounds.

Three imidazole-derived Schiff base compounds comprising an N-methyl imidazole group coupled to a phenol ring through an imine bond were synthesised. The structures differ by the substituent on the phenol ring at the 4-position: methyl (1), tert-butyl (2) and hydrogen (3). The compounds were synthesised using both a traditional reflux in solvent as well as an environmentally friendly solid-state reaction. Compounds (1)-(3) as well as the hemihydrate of (3) were all studied by single crystal X-ray diffraction. The asymmetric unit of compound (1) consists of two nominally planar molecules linked by hydrogen bonds to form a dimeric supramolecular structure. This dimeric structure was ubiquitous for the anhydrous forms of (1)-(3). The complementary hydrogen bonding motif between the imidazole N atoms and the phenol OH results in a stable 16-membered hydrogen-bonded ring. The asymmetric unit of (3) comprises two symmetry-independent molecules one of which has co-planar imidazole and phenol rings while the other shows a significantly oblique orientation. The hemihydrate of (3) similarly forms extensive hydrogen bonds, though in the form of a water-bridged dimeric structure. The hydrogen bond lengths (D⋯A) for compounds (1)-(3) are relatively short, ranging from 2.662(1) to 2.688(1) Å. DFT was used to understand the relative stability of the monomeric and dimeric species. These showed the hydrogen-bonded supramolecular structures were ca. 101 kJ mol-1 lower in energy than the non-interacting monomers. Scan simulations were used to calculate the total energy of the molecule as a function of phenyl ring rotation and showed why the expected planar configuration for a conjugated π-system was not observed experimentally. The barrier to rotation was found to be relatively low, 7.97(6) kJ mol-1, with the lowest energy conformations subtending dihedral angles of 22.319, 24.265 and 25.319° for molecules (1), (2) and (3), respectively. The electrostatic potential maps are able to succinctly explain the stability of the hydrogen bonds through the partial charges of the interacting atoms. TD-DFT simulations and analysis of the simulated and experimental UV/visible spectra suggest that the dimeric supramolecular structure is a stable species in solution. This was confirmed through 1H NMR titrations and an equilibrium constant of 0.16(5) M-1 was estimated.

Solution Conformations of Curcumin in DMSO.

NAMFIS (NMR Analysis of Molecular Flexibility In Solution) has been applied to curcumin dissolved in DMSO. Quantitative 1H-1H distance constraints reduce a pool of candidate conformations to a solution collection of four enol conformations-two of these match curcumin crystallized with human transthyretin, and one is closely related to a single-crystal structure of curcumin.

Conformational analysis: ³JHCOC and ³JHCCC Karplus relationships for methylene ¹H nuclei.

NAMFIS (NMR Analysis of Molecular Flexibility In Solution) was applied to 1-[2-(benzyloxy)phenyl]ethanone using quantitative (1)H-(1)H NOE distances and (3)J proton-carbon coupling constant (CC) restraints for averaged methylene proton (3)J(HCOC) and (3)J(HCCC) pathways H2-(3)J-X imposed by density functional theory-generated Karplus relationships. Comparison of the NOE-only versus the NOE + CC conformational selections illustrates that the experimentally measured average (3)J coupling constants of methylene protons can be used for solution conformational analysis, potentially valuable in the study of small-molecule drugs and natural products which lack the typically studied H1-(3)J-X Karplus relationships.

Antiviral atropisomers: conformational energy surfaces by NMR for host-directed myxovirus blockers.

Biologically active organic molecules characterized by a high single bond torsional barrier generate isolable isomers (atropisomers) and offer a unique stereochemical component to the design of selective therapeutic agents. The present work presents a nanomolar active inhibitor of myxoviruses, which most likely acts by blocking one or more cellular host proteins but also, serendipitously, exhibits axial chirality with an energy barrier of ΔG((++)) ≥30 kcal/mol. The latter has been probed by variable temperature NMR and microwave irradiation and by high level DFT transition state analysis and force field calculations. Full conformational profiles of the corresponding (aR,S) and (aS,S) atropisomers at ambient temperature were derived by conformer deconvolution with NAMFIS (NMR Analysis by Molecular Flexibility In Solution) methodology to generate seven and eight individual conformations, each assigned a % population. An accurate evaluation of a key torsion angle at the center of the molecules associated with a (3)JC-S-C-H coupling constant was obtained by mapping the S-C bond rotation with the MPW1PW91/6-31G-d,p DFT method followed by fitting the resulting dihedral angles and J-values to a Karplus expression. Accordingly, we have developed a complete conformational profile of diastereomeric atropisomers consistent with both high and low rotational barriers. We expect this assessment to assist the rationalization of the selectivity of the two (aR,S) and (aS,S) forms against host proteins, while offering insights into their divergent toxicity behavior.

1,2-Bis[(2,2':6',2''-terpyridin-4'-yl)-oxy]ethane.

The title compound, C(32)H(24)N(6)O(2), has an inversion centre located at the mid-point of the central C-C bond of the diether bridging unit. The terminal pyridine rings are canted relative to the central pyridine ring, with dihedral angles of 12.98 (6) and 26.80 (6)°. The maximum deviation from the eight-atom mean plane, defined by the two bridging O and C atoms and the central pyridine ring, is 0.0383 (10)° for the N atom.

1,6-Bis[(2,2':6',2''-terpyridin-4'-yl)-oxy]hexa-ne.

The mol-ecule of the title compound, C(36)H(32)N(6)O(2), lies about an inversion center, located at the mid-point of the central C-C bond of the diether bridge. The terminal pyridine rings form dihedral angles of 4.67 (7) and 26.23 (7)° with the central ring. In the crystal, weak C-H⋯N and C-H⋯O inter-actions link the mol-ecules into a three-dimensional network.

1,4-Bis[(2,2':6',2''-terpyridin-4'-yl)-oxy]butane.

The title compound, C(34)H(28)N(6)O(2), has an inversion centre located at the mid-point of the central C-C bond of the diether bridging unit. The central pyridine rings of the terpyridyl units and the diether chain are co-planar: the maximum deviation from the 18-atom mean plane defined by the bridging unit and the central pyridyl ring is for the pyridyl N atom which sits 0.055 (1) Šabove the plane. The dihedral angles between the terminal pyridine rings with this plane are 10.3 (1) and 37.6 (1)°, repectively. In the crystal, weak C-H⋯N inter-actions link the mol-ecules into infinite chains parallel to the a axis.

2-Phenyl-naphtho-[1,8-de][1,3,2]diaza-borinane.

The title compound, C(16)H(13)BN(2), is one compound in a series of diaza-borinanes featuring substitution at the 1, 2 and 3 positions in the nitro-gen-boron heterocycle. The title compound is slightly distorted from planarity, with a dihedral angle of 9.0 (5)° between the mean planes of the naphthalene system and the benzene ring. The m-carbon atom of the benzene ring exhibits the greatest deviation of 0.164 (2) Šfrom the 19-atom mean plane defined by all non-H atoms. The two N-B-C-C torsion angles are 6.0 (3) and 5.6 (3)°. In the crystal, mol-ecules are linked by π-π inter-actions into columns, with a distance of 3.92 (3) Šbetween the naphthalene ring centroids. Adjacent π-stacked columns, co-linear with the b-axis, are linked by C-H⋯π inter-actions.

Probing the nature of the Co(III) ion in corrins: the structural and electronic properties of dicyano- and aquacyanocobyrinic acid heptamethyl ester and a stable yellow dicyano- and aquacyanocobyrinic acid heptamethyl ester.

A stable yellow derivative of cobyrinic acid heptamethyl ester, (5R,6R)-Coα,Coß-dicyano-5,6-dihydro-5-hydroxy-heptamethylcob(III)yrinate-c,6-lactone (DCSYCbs), was prepared from dicyanocobyrinic acid heptamethyl ester (DCCbs). The C5 carbon is oxidized and the c side chain cyclized to form a lactone at C6; the 13 atom, 14 π-e(-) delocalized system of corrins is interrupted, giving a triazamethine system with four conjugated double bonds between N22 and N24 and an isolated double bond between N21 and C4. Stable yellow aquacyanocobyrinic acid heptamethyl ester (ACSYCbs) was prepared by driving off HCN with N(2) in a methanol/acetic acid solution. The electronic spectra of DCCbs and DCSYCbs appear similar except that the bands in DCSYCbs are shifted to shorter wavelengths and the γ-band is much less intense. The experimental spectra were adequately modeled using TD-DFT at the PBE1PBE/6-311G(d,p) level of theory. DCSYCbs crystallizes in the space group P2(1)2(1)2(1) (R(1) = 6.08%) with Z = 4, including one methanol solvent molecule and one water molecule per cobester. The addition of a hydroxyl group at C5 causes loss of the double bond between C5 and C6 and elongation of the C5-C6 bond. From a combination of two-dimensional (1)H TOCSY and ROESY NMR spectra and (1)H/(13)C HSQC and HMBC data, the complete (1)H and (13)C NMR assignments of DCSYCbs were possible, except for two of the ester methyl groups and the (13)C resonances of the two axial cyanide ligands. The latter were assigned using relative chemical shifts calculated by GIAO-DFT methods. The (59)Co resonance of DCCbs was observed at 4074 ppm while that of DCSYCbs is shifted downfield to 4298 ppm. Comparison with available (59)Co data of analogous systems suggests that the more π-conjugated corrin of DCCbs interacts more strongly with the metal than the less extensively conjugated macrocycle of DCSYCbs. As the strength of the interaction between Co(III) and an equatorial macrocycle increases, ν(CN) of axially coordinated CN(-) shifts to lower frequency; in DCSYCbs and DCCbs ν(CN) occurs at 2138 and 2123 cm(-1), respectively. Hence the corrin ligand in DCCbs interacts more strongly with the metal than the stable yellow corrin ligand, with its diminished conjugation. The UV-vis spectral data and DFT-calculated MOs are consistent with greater overlap between the corrin and the metal orbitals in DCCbs relative to DCSYCbs, which gives the metal in the former a softer, more covalent character.

Speciation in solution, solid state spectroscopy and vapochromism of [Pt(trpy)(NCS)]SbF(6) where trpy = 2,2':6',2''-terpyridine.

Treatment of [Pt(trpy)Cl]SbF(6) with AgSCN in a metathesis reaction affords after work-up yellow crystals of [Pt(trpy)(NCS)]SbF(6).CH(3)CN where trpy is 2,2':6',2''-terpyridine. A single crystal structure determination of the solvate shows that the SCN(-) ion is N-bound to the Pt atom, and that the planar cations stack as Pt(2) dimers with a PtPt separation of 3.293(1) A. The crystals rapidly de-solvate under ambient conditions to give a polycrystalline maroon material characterised as [Pt(trpy)(NCS)]SbF(6) (). A (15)N NMR spectroscopic study of a solution of isotopically labeled [Pt(trpy)((15)N(13)CS)]SbF(6) in CD(3)CN shows that both linkage isomers of the SCN(-) ion co-exist in solution with the N-bound isomer dominant, and the S-bound isomer present at a much lower concentration. Compound exhibits temperature dependent (3)MMLCT emission in the solid state; at 280 K the emission maximises at 692 nm, but red-shifts systematically on cooling to reach 762 nm at 80 K. Compound shows vapochromic behaviour that is selective and reversible for vapours of acetonitrile, DMF and pyridine. The colour change is from maroon for to yellow for all three solvates. The emission spectra recorded for the solvates maximise at wavelengths that are all significantly blue-shifted compared to lambda(em)(max) recorded for : the blue-shifts measured at 77 K are 90, 115 and 155 nm for the acetonitrile, DMF and pyridine solvates respectively. The origin of the vapochromic properties of compound is likely to do with the breaking and making of metallophilic PtPt interactions in the solid state.

Ethyl (2E)-2-(hydroxy-imino)propanoate.

The mol-ecule of the title compound, C(5)H(9)NO(3), is essentially planar [the maximum deviation for a non-H atom from the mean plane is 0.021 (3) Å] due to the π-conjugation of the hydroxy-imino and carbonyl groups, which are trans to each other; ab initio calculations in vacuo at the DFT (B3LYP/6-311G**++) level of theory confirmed that E conformer is indeed the lowest in energy. The packing in crystal structure is influenced by strong inter-molecular O-H⋯N hydrogen-bonding inter-actions between oxime groups and also by π-stacking of the mol-ecules due to the carbonyl and oxime group orbital overlap [inter-planar distance between adjacent mol-ecules = 3.143 (4) Å]. Jointly, these factors afford infinite 6.32 Šthick mol-ecular sheets, where the plane of each mol-ecule is perpendicular to the plane of the sheet. Seen from above, the mol-ecules within the sheet are arranged in a herringbone pattern. Such sheets form a stack due to weak van der Waals inter-actions; the gap between adjacent sheets is 2.07 Å.

Molecular recognition: preorganization of a bis(pyrrole) Schiff base derivative for tight dimerization by hydrogen bonding.

Multiple techniques have been used to delineate the self-assembly of a bis(pyrrole) Schiff base derivative (compound 4, C(16)H(14)N(4)), which forms an unusual dimer through complementary N-H...N=C hydrogen bonds between twisted, C2-symmetric monomer units. The asymmetric unit of the crystal structure comprises one and a half dimer units, with one dimer exhibiting approximate D2 point-group symmetry and the other exact D2 symmetry (space group C2/c). The dimers pack into columns whose axes are collinear with the a axis of the unit cell. The columns assemble into discrete layers with two distinct types of hydrogen-sized voids residing between the layers. Despite the promising architecture of the voids within the lattice of 4, the absence of genuine channels to interconnect the voids precludes the uptake of hydrogen gas, even at elevated pressures (10 bar). AM1 calculations of the structure of dimeric 4 indicate that self-recognition through hydrogen bonding depends primarily on favorable electrostatic interactions. The potential-energy surface for monomeric 4 mapped by counter-rotation of an adjacent pair of C=C-N=C torsion angles indicates that the X-ray structures of the four monomeric units are global minima with highly nonplanar conformations that are preorganized for self-recognition by hydrogen bonding. The in vacuo enthalpy of association for the dimer was calculated to be significantly exergonic (DeltaG(assoc)=-21.9 kJ mol(-1), 298 K) and in excellent agreement with that determined by 1H NMR spectroscopy in CDCl3 (DeltaG(assoc)=-16.6(4) kJ mol(-1), 298 K). Using population and bond order analyses, in conjunction with the conformation dependence of the frontier MO energies, we have been able to show that pi-electron delocalization is only marginally diminished in the nonplanar conformers of 4 and that the electronic structures of the constituent monomers of the dimer are well mixed.