Identification of inhibitors for UDP-galactopyranose mutase

The flavoenzyme uridine 5'-diphosphate (UDP)-galactopyranose mutase (UGM) plays a key role in the cell wall biosynthesis of many pathogens, including Mycobacterium tuberculosis. Using a synthetic fluorescent ligand, we screened 16 000 compounds in a fluorescence polarization assay. Effective inhibitors of UGM were identified.     

Stabilised phosphorus(I) and arsenic(I) iodide: readily-synthesised reagents for low oxidation state main group chemistry

Herein we report a surprisingly facile and clean synthesis of base-stabilised phosphorus(I) and arsenic(I) iodide salts, which are reagents that provide convenient access to new low oxidation state main group compounds.     

Directed evolution experiments reveal mutations at cycloartenol synthase residue His477 that dramatically alter catalysis

[reaction: see text] Cycloartenol synthase cyclizes and rearranges oxidosqualene to the protosteryl cation and then specifically deprotonates from C-19. To identify mutants that deprotonate differently, randomly generated mutant cycloartenol synthases were selected in a yeast lanosterol synthase mutant. A novel His477Asn mutant was uncovered that produces 88% lanosterol and 12% parkeol. The His477Gln mutant produces 73% parkeol, 22% lanosterol, and 5% Delta(7)-lanosterol. These are the most accurate lanosterol synthase and parkeol synthase that have been generated by mutagenesis.     

Reactions of dicobalt octacarbonyl and related compounds with gem-dihalides

Dicobalt octacarbonyl and some of its derivatives (NaCo(CO)₄, Co₄(CO)₁₂, Hg[Co(CO)₄]₂, [Co(CO)₃PPh₃]₂, NaCo(CO)₃PPh₃) react with activated gem-dihalides, R₂CX₂, such as dichlorodiphenylmethane, 9,9-dihalofluorenes and dimethyl dibromomalonate, to give the ‘dimer’ olefin, R₂CCR₂. The course of this conversion involves formation of the coupling product, R₂XCCXR₂, followed by dehalogenation of the latter. These separate steps have been confirmed for activated monohalides (bromodiphenylmethane, 9-bromofluorene, dimethyl bromomalonate) which were readily coupled by cobalt carbonyls, and for activated vicinal dihalides (D,L and meso-dibromostilbene, 9,9′-dichlorobisfluorenyl) which cobalt carbonyls readily dehalogenated. A radical mechanism is favored for these processes, and indirect evidence in its favor is presented.     

205Tl NMR methods for the characterization of monovalent cation binding to nucleic acids

Monovalent cations play an important role in many biological functions. The guanine rich sequence, d(G4T4G4), requires monovalent cations for formation of the G-quadruplex, d(G4T4G4)2. This requirement can be satisfied by thallium (Tl+), a potassium (K+) surrogate. To verify that the structure of d(G4T4G4)2 in the presence of Tl+ is similar to the K+-form of the G-quadruplex, the solution structure of the Tl+-form of d(G4T4G4)2 was determined. The 10 lowest energy structures have an all atom RMSD of 0.76 +/- 0.16 A. Comparison of this structure to the identical G-quadruplex formed in the presence of K+ validates the isomorphous nature of Tl+ and K+. Using a 1H-205Tl spin-echo difference experiment we show that, in the Tl+-form of d(G4T4G4)2, small scalar couplings (<1 Hz) exist between 205Tl and protons in the G-quadruplex. These data comprise the first 1H-205Tl scalar couplings observed in a biological system and have the potential to provide important constraints for structure determination. These experiments can be applied to any system in which the substituted Tl+ cations are in slow exchange with the bulk ions in solution.     

Geometric and electronic structure of clusters

The interplay between electronic and geometric structure is investigated for covalently bonded phosphorus clusters. We use a modification of the molecular dynamics/ density functional (MD/DF) method of Car and Parrinello, describing the electronic structure by a simplified linear combination of atomic orbitals (LCAO) approach. The results show clearly the tendency of phosphorus to threefold coordination, and substantial variations in bond angles lead to a large variety of isomers.     

Conformational and stereoelectronic investigation in 1,2-difluoropropane: The gauche effect

The effect of attaching an additional fluorine atom at C-2 in 1-fluoropropane (FP), giving 1,2-difluoropropane (DFP), on its conformational equilibrium, is theoretically evaluated. This substitution causes critical implications on the conformer stabilities of DFP (TG, GT and GG conformations) and the steric and electrostatic interactions should favor the conformer with fluorine atoms trans. However, the gauche effect plays a major role in describing the energies balance in DFP, shifting the equilibrium towards the conformation in which the two fluorine atoms are gauche. The origin of this effect is discussed through an NBO analysis, which allows the evaluation of both classical and non-classical (hyperconjugation and bent bonds) interactions as the prevailing factors governing the conformational equilibrium of molecules containing the 1,2-difluoroethane fragment.     

Electronic structure of niobium-doped molybdenum disulfide nanotubes

The effect of doping transition metal disulfide nanotubes on their structural and electronic properties was studied for the first time using self-consistent band-structure calculations by the density functional tight-binding method (DFTB). The influence of partial Nb → Mo substitution in the walls of MoS₂ nanotubes of various diameters and atomic configurations (armchair and zigzag) on their electronic structure, structural parameters, and relative stability is exemplified by a series of “mixed” Mo_0.9Nb_0.1S₂ nanotubes. The electronic properties of Mo_0.9Nb_0.1S₂ nanotubes are discussed as a function of the possible types of distribution of doping Nb atoms in the tubes.     

Energetics of protein-cyclodextrin interactions

The energetics of interaction of a range of cyclodextrins with folded and unfolded proteins has been examined by sensitive microcalorimetry techniques. Weak interaction with exposed amino acid residues promotes unfolding and dissociation of proteins. The possibility that such interactions may facilitate the use of cyclodextrins as chaperone-mimics in the refolding of denatured protein has been explored with the enzyme phosphoglycerate kinase. Up to 40% regain of activity can be achieved in some cases.