Formation of the unusual alkynyl carboxamide complex, C2H5N(H)C(O)CC[Co2(CO)6]CCo3(CO)9

The reaction of the cluster complex HCC[Co₂(CO)₆]CCo₃(CO)₉ with (or without) BrCCo₃(CO)₉ under Cadiot-Chodkiewicz coupling conditions gave the unusual alkynyl carboxamide complex C₂H₅N(H)C(O)CC[Co₂(CO)₆]CCo₃(CO)₉ rather than a coupled product containing two tricobalt cluster units. Steric demands imposed by the Co₃ cluster allow attack at the least hindered alkyne carbon and stabilise the formed ynamine, so allowing subsequent CO insertion. The product has been characterised by X-ray crystallography.     

Reactions of N-heterocyclic carbenes (NHCs) with one-electron oxidants: possible formation of a carbene cation radical

One-electron oxidation of N-heterocyclic carbenes (NHCs) has been carried out using oxidising agents such as tetracyanoethylene (TCNE) and ferrocenium [Cp(2)Fe](+); the formation of carbene radical cations is postulated.     

Structural mining: self-consistent design on flexible protein-peptide docking and transferable binding affinity potential

A flexible protein-peptide docking method has been designed to consider not only ligand flexibility but also the flexibility of the protein. The method is based on a Monte Carlo annealing process. Simulations with a distance root-mean-square (dRMS) virtual energy function revealed that the flexibility of protein side chains was as important as ligand flexibility for successful protein-peptide docking. On the basis of mean field theory, a transferable potential was designed to evaluate distance-dependent protein-ligand interactions and atomic solvation energies. The potential parameters were developed using a self-consistent process based on only 10 known complex structures. The effectiveness of each intermediate potential was judged on the basis of a Z score, approximating the gap between the energy of the native complex and the average energy of a decoy set. The Z score was determined using experimentally determined native structures and decoys generated by docking with the intermediate potentials. Using 6600 generated decoys and the Z score optimization criterion proposed in this work, the developed potential yielded an acceptable correlation of R(2) = 0.77, with binding free energies determined for known MHC I complexes (Class I Major Histocompatibility protein HLA-A(*)0201) which were not present in the training set. Test docking on 25 complexes further revealed a significant correlation between energy and dRMS, important for identifying native-like conformations. The near-native structures always belonged to one of the conformational classes with lower predicted binding energy. The lowest energy docked conformations are generally associated with near-native conformations, less than 3.0 Angstrom dRMS (and in many cases less than 1.0 Angstrom) from the experimentally determined structures.     

Gas-phase electron diffraction determination of the molecular structure of perfluoro(methyloxirane)

The molecular geometry of perfluoro(methyloxirane) has been studied using gas-phase electron diffraction data, effective least-squares refinement of the structure being achieved with the aid of constraints to limit the number of variable parameters. With the CCF₃ bond constrained to be 0.078 Å longer than the ring CC, the refined bond- length values CF (av.) = 1.323(2), CO (av.) = 1.410(8), and CC (ring) = 1.467(7) Å ($\text{r}$_g values, with e.s.d. in parentheses) were obtained; the angles between ring bonds and substituent CF bonds were CCF (av.) 121(1) and OCF (av.) 114(1)^o, the corresponding parameters involving the bulkier CCF₃ fragment being larger by 3^o in each case [∠CCCF₃ 124(1)^o∠OCCF₃ 117(2)^o]. The remaining refined parameters were ∠CCF(of CF₃) = 110.6(4)^o and τ , a torsion angle defining the orientation of the CF bonds of the CF₃ group with respect to ring bonds, = 29(2)^o. Dependent bond angles possessed the values 62.7 (COC), 58.7 [OCC (ring)], 108.3 [FCF (CF₃ group)], 114 [FCF (ring CF₂)], and 111^o (FCCF₃).     

Electro-oxidation of carbon monoxide on well-ordered Pt(111)/Sn surface alloys

The electro-oxidation of CO on model platinum-tin alloy catalysts has been studied by ex-situ electrochemical measurements following the preparation of the Pt(111)/Sn(2x2) and Pt(111)/Sn(radical3 x radical3)R30 degrees surfaces. A surface redox couple, which is associated with the adsorption/desorption of hydroxide on the Sn sites, is observed at 0.28 V(RHE)/0.15 V(RHE) in H(2)SO(4) electrolyte on both surfaces. Evidence that it is associated with the adsorption of OH comes from ex-situ photoemission measurements, which indicate that the Sn atoms are in a metallic state at potentials below 0.15 V(RHE) and an oxidized state at potentials above 0.28 V(RHE). Specific adsorption of sulfate anions is not associated with the surface process since there is no evidence from photoemission of sulfate adsorption, and the same surface couple is observed in the HClO(4) electrolyte. CO is adsorbed from solution at 300 K, with saturation coverages of 0.37 +/- 0.05 and 0.2 +/- 0.05 ML, respectively. The adsorbed CO is oxidatively stripped at the potential coincident with the adsorption of hydroxide on the tin sites, viz., 0.28 V(RHE). This strong promotional effect is unambiguously associated with the bifunctional mechanism. The Sn-induced activation of water, and promotion of CO electro-oxidation, is sustained as long as the alloy structure remains intact, in the potential range below 0.5 V(RHE). The results are discussed in the light of the requirements for CO-tolerant platinum-based electrodes in hydrogen fuel cell anode catalysts and catalysts for direct methanol electro-oxidation.     

A Study of the Uptake of Toluidine Blue O by Porphyromonas gingivalis and the Mechanism of Lethal Photosensitization

The purpose of the study was to determine the distribution of the photosensitizer toluidine blue O (TBO) within Porphyromonas gingivalis and the possible mechanism(s) involved in the lethal photosensitization of this organism. The distribution of TBO was determined by incubating P. gingivalis with tritiated TBO (³H-TBO) and fractionating the cells into outer membrane (OM), plasma membrane (PM), cytoplasmic proteins, other cytoplasmic constituents and DNA. The percentage of TBO in each of the fractions was found to be, 86.7, 5.4, 1.9, 5.7 and 0.3%, respectively. The involvement of cytotoxic species in the lethal photosensitization induced by light from a helium-neon (HeNe) laser and TBO was investigated by using deuterium oxide (D₂O), which prolongs the lifetime of singlet oxygen, and the free radical and singlet oxygen scavenger L-tryptophan. There were 9.0 log₁₀ and 2 log₁₀ reductions in the presence of D₂O and H₂O (saline solutions), respectively, at a light dose of 0.44 J (energy density = 0.22 J/cm²), suggesting the involvement of singlet oxygen. Decreased kills were attained in the presence of increasing concentrations of L-tryptophan. The effect of lethal photosensitization on whole cell proteins was determined by measuring tryptophan fluorescence, which decreased by 30% using 4.3 J (energy density = 4.3 J/ cm²) of light. Effects on the OM and PM proteins were determined by sodium dodecyl sulfate polyacrylamide gel electrophoresis. There was evidence of change in the molecular masses of several PM proteins and OM proteins compared to controls. There was evidence of damage to the DNA obtained from irradiated cells. Scanning electron microscopic studies showed that there was coaggre-gation of P. gingivalis cells when sensitized and then exposed to laser light. These results suggest that lethal photosensitization of P. gingivalis may involve changes in OM and/or PM proteins and DNA damage mediated by singlet oxygen.