Ab-initio molecular dynamics based on non-local density functional procedure with Gaussian basis; study of structural and temperature behaviour of metallic clusters

An ab-initio molecular dynamics procedure without precalculation of the Born-Oppenheimer energy surface based on an iterative non-local density functional method employing Gaussian atomic basis has been developed. Analytical gradients are calculated and used for the propagation of nuclei. Sufficiently long trajectories can be calculated at an acceptable computational cost, allowing for analysis of dynamical behaviour of small metallic clusters. This is illustrated on an example of the Li₈ cluster. Temperature behaviour of different type of isomers has been investigated. Calculated power spectra allow to identify the presence of more than one isomeric forms along the given trajectories.     

Hydrogen tautomerism in a rhenium cluster compound

The hydrogen tautomerism in the hydrido carbonyl cluster compound of rhenium [H₄Re₄(CO)₁₅](NEt₄)₂ has been studied by analysis of the PMR spectra at different temperatures.     

A minimal multiconfigurational technique

A direct minimization method previously presented by the authors is applied here to biconfigurational wave functions. A very moderate increasing in the time by iteration with respect to the one-determinant calculation and good convergence properties have been found. So qualitatively correct studies on singlet systems with strong biradical character can be performed with a cost similar to that required by Hartree-Fock calculations.     

Reactivity of peroxo forms of the vanadium haloperoxidase cofactor. A DFT investigation

Density functional theory has been used to investigate structural, electronic and reactivity properties of complexes related to the peroxo forms of vanadium haloperoxidases (VHPO). In particular, the reactivity of the cofactor as a function of protonation state and environment, which are two factors thought to be crucial in modulating the activity of the enzyme, has been examined. In full agreement with experimental data, results highlight the role of protonation in the activation of the peroxo-vanadium complexes and show that the oxo-transfer step involves the unprotonated axial peroxo oxygen atom, which is easily accessible to substrates in the peroxo form of the enzyme. The role of Lys353, which in the X-ray structure of the peroxide-bound form of vanadium chloroperoxidase is hydrogen bonded to the equatorial oxygen atom of the peroxo group, has been also explored. It is concluded that Lys353 can play a role similar to a H+ in the activation of the peroxo form of the cofactor.     

General principles governing structures of small clusters

General rules which govern electronic and geometric structures of small clusters are formulated, and their validity is documented with the results of the MRD - CI investigations for Li _n , BeLi _k , Be _l (n=2?14,k=2?6,l=2?13) as well as on IIa and IVa tetramers. The MRD - CI results are compared with investigations performed with other methods.     

Fractal nanochannels as the basis of the ionic transport in AgI-based glasses

We propose a new model to explain the transport properties of AgI-based fast ion conducting glasses. The main factor affecting the ionic conductivity is the mobility of the Ag+ carriers, that is controlled by the Ag local environment. We model the ionic conductivity in terms of a percolation between a low-conducting phase (purely oxygen-coordinated sites), and a high-conducting one (iodine/oxygen, I/O, coordinated sites). The percolation takes place along pathways with fractal structure. The nature of the glass network, and namely its connectivity and dimensionality, plays a significant role only for low I/O values, originating the transport and thermal anomalies observed in borate and phosphate glasses.     

Core-valence correlation potentials based on density functional theory. Applications to valence-electron-only calculations on Na and K diatomics

The core-valence correlation potential has been derived for Na and K employing atomic calculations which make use of the density functional formula worked out by Lee, Yang and Parr based on Colle-Salvetti approach. The numerical potential is fitted with a small number of Gaussians leading to a very simple expression for an one-electron corevalence correlation operator? _cv . The core-valence correlation corrections can be computed by applying? _cv on a quite general class of wavefunctions. Applications of the? _cv operator within the framework of valence-electron-only calculations using effective Hamiltonians are presented for Na and K atoms, for Na₂, K₂, NaK and their cations. Almost all the corrections calculated for the physical properties due to the core-valence correlation lead to results which are in good agreement with those obtained from much more sophisticated treatments and experimental data.     

DFT investigation of structural, electronic, and catalytic properties of diiron complexes related to the [2Fe](H) subcluster of Fe-only hydrogenases

Hydrogenases catalyze the reversible oxidation of dihydrogen to protons and electrons. The structures of two Fe-only hydrogenases have been recently reported [Peters, J. W.; Lanzilotta, W. N.; Lemon, B. J.; Seefeldt, L. C. Science 1998, 282, 1853-1858. Nicolet, Y.; Piras, C.; Legrand, P.; Hatchikian, E. C.; Fontecilla-Camps, J. C. Structure 1999, 7, 13-23], showing that the likely site of dihydrogen activation is the so-called [2Fe](H) cluster, where each Fe ion is coordinated by CO and CN(-) ligands and the two metals are bridged by a chelating S-X(3)-S ligand. Moreover, the presence of a water molecule coordinated to the distal Fe2 center suggested that the Fe2 atom could be a suitable site for binding and activation of H(2). In this contribution, we report a density functional theory investigation of the structural and electronic properties of complexes derived from the [(CO)(CH(3)S)(CN)Fe(II)(mu-PDT)Fe(II)(CO)(2)(CN)](-1) species, which is related to the [2Fe](H) cluster observed in Fe-only hydrogenases. Our results show that the structure of the [2Fe](H) cluster observed in the enzyme does not correspond to a stable form of the isolated cluster, in the absence of the protein. As a consequence, the reactivity of [(CO)(CH(3)S)(CN)Fe(II)(mu-PDT)Fe(II)(CO)(2)(CN)](-1) derivatives in solution may be expected to be quite different from that of the active site of Fe-only hydrogenases. In fact, the most favorable path for H(2) activation involves the two metal atoms and one of the bridging S atoms and is associated with a very low activation energy (5.3 kcal mol(-1)). The relevance of these observations for the catalytic properties of Fe-only hydrogenases is discussed in light of available experimental and theoretical data.     

Density functional theory investigation of the active site of Fe-hydrogenases. systematic study of the effects of redox state and ligands hardness on structural and electronic properties of complexes related to the [2Fe](H) subcluster

Density functional theory has been used to investigate complexes related to the [2Fe](H) subcluster of [Fe]-hydrogenases. In particular, the effects on structural and electronic properties of redox state and ligands with different sigma-donor pi-acceptor character, which replace the cysteine residue coordinated to the [2Fe](H) subcluster in the enzyme, have been investigated. Results show that the structural and electronic properties of fully reduced Fe(I)Fe(I) complexes are strongly affected by the nature of the ligand L, and in particular, a progressive rotation of the Fe(d)(CO)(2)(CN) group, with a CO ligand moving from a terminal to a semibridged position, is observed going from the softest to the hardest ligand. For the partially oxidized Fe(I)Fe(II) complexes, two isomers of similar stability, characterized either by a CO ligand in a terminal or bridged position, have been observed. The switching between the two forms is associated with a spin and charge transfer between the two iron atoms, a feature that could be relevant in the catalytic mechanism of dihydrogen activation. The structure of the fully oxidized Fe(II)Fe(II) models is extremely dependent on the nature of the L ligand; one CO group coordinated to Fe(d) switches from terminal to bridging position going from complexes characterized by neutral to anionic L ligands.     

Synthesis of 2,5-diisoxazolyltetrahydrofurans

The synthesis of 2,5-bis(3-bromo-5-isoxazolyl)tetrahydrofuran ( 2 ) and 2,5-bis(3-methoxy-5-isoxazolyl)tetrahydrofuran ( 3 ) have been accomplished in three and four steps respectively. Cis- and trans-isomers have been separated and fully characterized. Differently from synthetic schemes so far utilized for the preparation of the 2,5-diheteroaryltetrahydrofuran analogs, our approach involves the direct synthesis of a key intermediate containing both isoxazole rings and diol function for the final cyclization. Starting from succinic aldehyde, the new 1,7-octadiyne-3,6-diol ( 4 ) was prepared and was submitted to a double cycloaddition with bromonitrile oxide to yield the key intermediate 1,4-bis(3-bromo-5-isoxazolyl)-1,4-butanediol. The methoxy analogs 3 were obtained by methanolysis of the bromo derivatives 2 .