Second row transition metal mixed hydride-halide triatomic molecules

Summary The ground state structures and bond energies have been obtained for the triatomic MHX systems where M is the entire sequence of second row transition metal atoms and X is a halide. The most interesting results of this study appear when these systems are compared to the triatomic MH₂ and MX₂ systems. It turns out that the structure of the MHX systems are quite similar to the corresponding MH₂ systems in general. Most of the MHX systems to the right thus have bent low-spin ground states, indicating large covalent contributions to the bonding. RuHX is a special case and has a high-spin linear ground state. For the systems to the left ionicity dominates the bonding. An important result, with implications for halide ligand effects on carbonyl and olefin insertion into M-H and M-R bonds, is that the M-H bonds for the systems to the right have a different character and are significantly weaker for the MHX than for the MH₂ systems. A similar effect is noted when the M-Cl bond strengths of MCl₂ are compared to the ones in MHCl. Both these effects can be explained by a more cationic metal with mores ⁰-state character when halide ligands are present.     

CAS SCF and contracted CI calculations on the HO3 radical

CAS SCF and CCI calculations have been performed in order to establish the existence or non-existence of the HO₃ radical. The potential surface for the dissociation reaction, HO₃ → O₂(³Σ) + OH, along one chosen coordinate has been calculated. The calculations show that although the wavefunctions describing the short-distance and long-distance states are of different character, the energies are the same and the curve connecting the states is very flat. There is probably no barrier towards dissociation of the radical. However, the existence of HO₃ can still not be excluded.     

A mechanism from quantum chemical studies for methane formation in methanogenesis

The mechanism for methane formation in methyl-coenzyme M reductase (MCR) has been investigated using the B3LYP hybrid density functional method and chemical models consisting of 107 atoms. The experimental X-ray crystal structure of the enzyme in the inactive MCR(ox1)(-)(silent) state was used to set up the initial model structure. The calculations suggest a mechanism not previously proposed, in which the most remarkable feature is the formation of an essentially free methyl radical at the transition state. The reaction cycle suggested starts from a Michaelis complex with CoB and methyl-CoM coenzymes bound and with a squareplanar coordination of the Ni(I) center in the tetrapyrrole F(430) prosthetic group. In the rate-limiting step the methyl radical is released from methyl-CoM, induced by the attack of Ni(I) on the methyl-CoM thioether sulfur. In this step, the metal center is oxidized from Ni(I) to Ni(II). The resulting methyl radical is rapidly quenched by hydrogen-atom transfer from the CoB thiol group, yielding the methane molecule and the CoB radical. The estimated activation energy is around 20 kcal/mol, which includes a significant contribution from entropy due to the formation of the free methyl. The mechanism implies an inversion of configuration at the reactive carbon. The size of the inversion barrier is used to explain the fact that CF(3)-S-CoM is an inactive substrate. Heterodisulfide CoB-S-S-CoM formation is proposed in the final step in which nickel is reduced back to Ni(I). The suggested mechanism agrees well with experimental observations.     

A density functional study on a biomimetic non-heme iron catalyst: insights into alkane hydroxylation by a formally HO-FeV=O oxidant

The reactivity of [HO-(tpa)Fe(V)=O] (TPA=tris(2-pyridylmethyl)amine), derived from O-O bond heterolysis of its [H(2)O-(tpa)Fe(III)-OOH] precursor, was explored by means of hybrid density functional theory. The mechanism for alkane hydroxylation by the high-valent iron-oxo species invoked as an intermediate in Fe(tpa)/H(2)O(2) catalysis was investigated. Hydroxylation of methane and propane by HO-Fe(V)=O was studied by following the rebound mechanism associated with the heme center of cytochrome P450, and it is demonstrated that this species is capable of stereospecific alkane hydroxylation. The mechanism proposed for alkane hydroxylation by HO-Fe(V)=O accounts for the experimentally observed incorporation of solvent water into the products. An investigation of the possible hydroxylation of acetonitrile (i.e., the solvent used in the experiments) shows that the activation energy for hydrogen-atom abstraction by HO-Fe(V)=O is rather high and, in fact, rather similar to that of methane, despite the similarity of the H-CH(2)CN bond strength to that of the secondary C-H bond in propane. This result indicates that the kinetics of hydrogen-atom abstraction are strongly affected by the cyano group and rationalizes the lack of experimental evidence for solvent hydroxylation in competition with that of substrates such as cyclohexane.     

Vibrational and lifetime line broadenings in ESCA

The line profile of the narrow, symmetric 1s line from neon, recorded with the new ESCA instrument with X-ray monochromatization, is analyzed. The natural linewidth of this line is found to be 0.23 ± 0.02 eV, in good agreement with theoretical calculations of the oscillator strengths for Auger transitions and X-ray emission. Spectra from molecules show frequently asymmetric core electron lines under high resolution. This rules out previous explanations based on a chemical influence on the natural lifetime. Contrary to earlier assumptions, vibrational excitations are shown to be important in core electron spectra. For methane, the vibrational energy spacing is large enough to allow the vibrational lines to be partly resolved. Recent results from accurate PNO CI calculations on methane agree well with the experimental findings. The Franck-Condon transitions in the C1s and N1s lines from CO and N₂ are shown to be well described in the harmonic approximation and approximating the potential curves of the highly excited core hole states with the potential curve for the ground state of NO⁺, X¹ Σ⁺. Knowledge of vibrational excitations in core electron spectra is shown to be valuable in the analysis of high resolution X-ray emission spectra of free molecules.     

Quantum chemical modeling of CO oxidation by the active site of molybdenum CO dehydrogenase

The catalytic mechanism of molybdenum containing CO dehydrogenase has been studied using hybrid DFT methods with quite large chemical models. The recent high-resolution X-ray structure, showing the surprising presence of copper linked to molybdenum, was used as a starting point. A pathway was initially found with a low barrier for C-O bond formation and CO2 release. However, this pathway did not include the formation of any S-CO2 species, which had been suggested by experiments with an n-butylisocyanide inhibitor. When these SCO2 structures were studied they were found to lead to deep minima, making CO2 release much more difficult. A large effort was spent, including investigations of other spin states, varying the number of protons and electrons, adding water, etc., until a plausible pathway for S-C bond cleavage was found. In this pathway a water molecule is inserted in between molybdenum and the SCO2 group. Full catalytic cycles, including electron and proton transfers, are constructed both with and without S-C bond formation. When these pathways are extended to two full catalytic cycles it can be understood why the formation of the S-C bond actually makes catalysis faster, even though the individual step of CO2 release becomes much more difficult. These results agree well with experimental findings.     

Model studies of the chemisorption of hydrogen and oxygen on nickel surfaces

Atomic chemisorption of hydrogen and oxygen on the Ni(100) surface has been studied using an Effective Core Potential (ECP) approach described in a previous paper. Clusters of up to 50 nickel atoms have been used to model the surface. The computed chemisorption energies are 62 kcal/mol (exp. 63 kcal/mol) for hydrogen and 106 kcal/mol (exp. 115–130 kcal/mol) for oxygen. Correlating the adsorbate and the cluster-adsorbate bonds is extremely important for obtaining accceptable results, particularly for oxygen. Reasonable convergence of chemisorption energies is obtained with 40–50 cluster atoms for both hydrogen and oxygen. For hydrogen the addition of a third cluster layer stabilizes the results considerably. Both hydrogen and oxygen are adsorbed at (or close to) the four-fold hollow site. The calculated barriers for surface migration are also in good agreement with the experimental estimates. The calculated equilibrium heights above the surface are on the other hand too high compared with experiments. This disagreement is believed to be due to core-valence correlation effects, which are not incorporated in the present ECP. The cluster convergence for the height above the surface is much slower than for the chemisorption energy.     

The bonding in second row transition metal dihydrides,difluorides and dichlorides

Summary The dihydrides, the difluorides and the dichlorides of the second row transition metal atoms from yttrium to palladium have been studied with methods including electron correlation of all valence electrons. Comparisons are made to the previously studied corresponding diatomic systems. It is found that the general trends of the binding energies of the second hydride and halide remain the same as in the diatomic hydrides and halides. The second ligand binding energies for the dihalides thus vary much more than for the dihydrides. This is due to important attractive effects between the halide lone-pairs and empty 4d-orbitals to the left and strong repulsions towards occupied 4d-orbitals to the right. For some systems the second ligand binds much more than the first ligand, as for RuF₂ where the difference is 34.3 kcal/mol, whereas for other systems the reverse is true, as for PdCl₂ where the first ligand binds more than the second with 20.4 kcal/mol. The results can be explained by strong ligand field effects and differences in the atomic spectra.     

The Auger electron spectrum of water vapour

The Auger electron spectrum of water vapour has been recorded and analyzed. For the analysis, an approximate formula for calculating the intensities of the Auger electron lines is derived. It is shown, that the calculated intensities along with theoretical energies of the Auger transitions account well for the observed spectrum. In particular, new assignments in terms of transitions to triplet final states are suggested.     

Preparation and partial characterization of a soluble site-to-site directed enzyme complex composed of alcohol dehydrogenase and lactate dehydrogenase

A soluble, bifunctional enzyme complex has been prepared by crosslinking lactate dehydrogenase and alcohol dehydrogenase with glutaraldehyde. The crosslinking was performed on a solid phase while the active sites of alcohol dehydrogenase and lactate dehydrogenase were held adjacent to one another with the aid of a bis-NAD analog. Subsequently, the enzyme complex was released from the solid phase. The soluble enzyme complex was then purified by using NAD-Sepharose as an affinity adsorbent. Based on gel filtration experiments, the complex was estimated to consist of one of each dehydrogenase. By using a third enzyme, lipoamide dehydrogenase, which competes with lactate dehydrogenase for NADH produced by alcohol dehydrogenase, the effect of site-to-site orientation was studied. It was found that about 83% of the NADH produced by alcohol dehydrogenase was oxidized by site-to-site oriented lactate dehydrogenase compared to a figure of only about 61% obtained in an identical system of separate enzymes. This indicates that given two alternative routes, the preference for the one to lactate dehydrogenase over the one to lipoamide dehydrogenase is enhanced when lactate dehydrogenase and alcohol dehydrogenase are site-to-site oriented.