Density functional theory studies of S...X and Se...X (X = Br, I) halogen-bonding interactions are used to interpret the selection of selenium and iodine for thyroid hormone signaling. A new mechanism for dehalogenation in terms of halogen bonding is proposed. The activation barriers for deiodination of an aromatic iodide by MeSeH and MeSH (17.6 and 19.8 kcal/mol) are consistent with the relative rates of deiodination by iodothyronine deiodinase and its cysteine mutant.

The principle of correspondence between the symmetry decompositions of the valence atomic orbitals (AOs) of the central metal and those of the hydride ligands is used to predict and rationalize the geometries of simple transition metal polyhydride complexes. In this orbitally ranked symmetry analysis method (ORSAM) the minimum energy structures have metal AOs whose irreducible representations match those of the hydrides. In agreement with previous work, the hydrides prefer to bond to the metal (n + 1)s and nd orbitals, but ORSAM also includes (n + 1)p orbitals in a natural way and avoids having to postulate hypervalency for transition metal complexes with electron counts greater than 12. Comparison with ab initio structures of 114 simple transition metal polyhydrides shows that ORSAM correctly predicts and rationalizes the geometries of both classical and nonclassical complexes.

Ebselen (1), the quintessential mimic of the antioxidant selenoenzyme glutathione peroxidase (GPx), is a potential chemopreventative for various diseases associated with oxidative stress. Density-functional theory (DFT) and solvent-assisted proton exchange (SAPE) are used to model the complex mechanism for scavenging of reactive oxygen species by 1. SAPE is a microsolvation method designed to approximate the role of bulk solvent in chemical processes involving proton transfer. Consistent with experimental studies, SAPE studies predict the reaction of 1 with thiol (RSH) to form a selenenyl sulfide 2 to be preferred under most conditions, with an alternate pathway through a selenoxide 3 possible at high reactive oxygen species (ROS) concentrations ([ROS] ≫ [RSH]). The reduction of 2 to the selenol 4, known to be rate-determining in the protein, has a high SAPE activation barrier due to a strong Se···O interaction which reduces the electrophilicity of the sulfur center of the -SeS- bond of 2. Thiols, such as dithiols and peptide-based thiols, are expected to overcome this barrier through structural features that increase the probability of attack at this sulfur. Thus, in vivo, the GPx-like pathway is the most likely mechanism for 1 under most circumstances, except, perhaps, under extreme oxidative stress where initial oxidation to 3 could compete with formation of 2. Simple thiols, used in various in vitro studies, are predicted by SAPE modeling to proceed through oxidation of 2 to a seleninyl sulfide intermediate. Overall, SAPE modeling provides a realistic interpretation of the redox mechanism of 1 and holds promise for further exploration of complex aqueous-phase reaction mechanisms.

Solid copper(I) cyanide occurs as extended one-dimensional chains with interesting photophysical properties. To explain the observed luminescence spectroscopy of CuCN, we report a series of computational studies using short bare and potassium-capped [Cu(n)(CN)(n+1)] (-) (n = 1, 2, 3, 4, 5, and 7) chains as CuCN models. On the basis of TD-DFT calculations of these model chains, the excitation transitions in the UV spectrum are assigned as Laporte-allowed pi-pi transitions from MOs with Cu 3d(pi) and CN pi character to empty MOs with Cu 4p and CN pi* character. Transitions between the HOMO (3d(z)) and LUMO (Cu 4p and CN pi*) are symmetry forbidden and are not assigned to the bands in the excitation spectrum. The emission spectrum is assumed to arise from transitions between the lowest triplet excited state and the ground-state singlet. The lowest energy triplet for the model networks has a bent structure due to distortions to remove the degeneracies in the partially occupied MOs of the linear triplet. The S(0)-T gap for the bent triplet chains is consistent with the emission wavelength for bulk CuCN.

Modeling of the glutathione peroxidase-like activity of phenylselenol has been accomplished using density-functional theory and solvent-assisted proton exchange (SAPE). SAPE is a modeling technique intended to mimic solvent participation in proton transfer associated with chemical reaction. Within this method, explicit water molecules incorporated into the gas-phase model allow relay of a proton through the water molecules from the site of protonation in the reactant to that in the product. The activation barriers obtained by SAPE for the three steps of the GPx-like mechanism of PhSeH fall within the limits expected for a catalytic system at physiological temperatures (DeltaG(1)++ = 19.1 kcal/mol; DeltaG(2)++= 6.6 kcal/mol; G(3)++ = 21.7 kcal/mol) and are significantly lower than studies which require direct proton transfer. The size of the SAPE network is also considered for the model of the reduction of the selenenic acid, step 2 of the GPx-like cycle. Use of a four-water network better accommodates the reaction pathway and reduces the activation barrier by 5 kcal/mol over the two-water model.

The synthesis, X-ray structures and photophysics of ten complexes of CuX (X = I or Br) with bridging N-substituted and N,N'-disubstituted piperazines (Pip) are presented. Depending on the steric demand of the Pip substituents, the complexes fall into four categories: (CuX)(4)(Pip)(2), which are networks of linked Cu(4)X(4) cubane units, (CuX)(2)(Pip), which are chains of linked Cu(2)X(2) rhombs, and (CuX)(2)(Pip)(2) or (CuX)(4)(Pip)(4), which are simple rhomboid dimers and cubane tetramers. A combination of spectroscopic studies and DFT calculations was used to investigate the luminescence of the products. The results suggest that the relatively high energy emission seen in dimers is due to cluster-centred (XMLT/metal-centred) excitations for the aliphatic amines and MLCT (d →π*) for aromatic amines, and low energy emission seen in the tetramers is the result of cluster-centred transitions. The (CuI)(2)(Pip) complexes act as sensor materials, undergoing irreversible reaction with aliphatic and aromatic amines (Nu) in the vapour state, irreversibly producing cubanes (CuI)(4)Nu(4), with corresponding production of long wavelength emission.

Oxidation and disulfide coupling of cysteine, processes central to oxidative stress and biochemical signaling, are modeled using DFT and solvent-assisted proton exchange, a method of microsolvation. Calculated barriers are consistent with experimental kinetics and observed product ratios and suggest a dependence on the polarity of the surrounding medium.

This work describes single-(DFT, CCSD(T)) and multireference (CASSCF, CASPT2) theoretical calculations on the reaction of yttrium atoms with formaldehyde studied recently in crossed molecular beam experiments. The reaction is shown to proceed through the exothermic formation of a side-bound π-complex followed by C-H insertions which branch out to competing pathways to products. Dihydridoyttrium(II) is formed through the decomposition of the double insertion product, whereas carbonylyttrium(0) and high-energy formylyttrium-(I) result from the single insertion intermediate. The product and transition state energetics are consistent with experimental results and allow one to rule out the direct reductive elimination pathway for the formation of carbonylyttrium(0).