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PubMed2006

Conformations and electronic structures of axially coordinated fullerene-porphyrin-fullerene triad (C60CHCOO)2-Sn(IV) porphyrin.

The conformational (cis and trans) stability and electronic structures of (C(60)CHCOO)(2)-Sn(IV) porphyrin, recently synthesized as a novel fullerene-porphyrin-fullerene triad linked by metal axial coordination, have been studied by ab initio calculations. The cis conformer was found to be slightly more stable than the trans by 1.38 kcal/mol in the neutral compound. Upon the addition of an electron to the triad, the relative stability of the cis conformer was found to be higher (3.29 kcal/mol) than that in the neutral one. From the investigation of frontier molecular orbitals, for the cis conformer, it was found that the electrons are localized in HOMO of the porphyrin, while the electrons are localized in LUMO of the syn-fullerene. For the trans conformer, it was found that the electrons are localized in HOMO of the porphyrin, while the electrons are localized in LUMO of one of the two fullerene moieties, and the electrons are localized in LUMO2 of the other fullerene moiety, but the LUMO and LUMO2 have the same orbital energy. Thus, the PET may take place unidirectionally in the cis conformer from the porphyrin to the syn-fullerene, while it is bidirectional from the porphyrin to both of the fullerene moieties.

Electron Transport↗
PubMed2005

Electronic structure, spectra, and magnetic circular dichroism of cyclohexa-, cyclohepta-, and cyclooctapyrrole.

Three recently obtained expanded porphyrins represent nice examples of compounds for which the electronic and spectral properties can be predicted from symmetry considerations alone. Perimeter-model-based theoretical analysis of the electronic structure of doubly protonated cyclo[6], cyclo[7], and cyclo[8]pyrrole leads to the anticipation of qualitatively the same electronic absorption and magnetic circular dichroism patterns for all three compounds. These predictions are fully confirmed by experiments, as well as DFT and INDO/S calculations. Due to a characteristic pattern of frontier molecular orbitals, a degenerate HOMO and a strongly split LUMO pair, the three cyclopyrroles show comparable absorption intensity in the Q and Soret regions. Magnetic circular dichroism spectra reveal both A and B Faraday terms, of which the signs and magnitudes are in remarkably good agreement with theoretical expectations. The values of the magnetic moments of the two lowest degenerate excited states have also been obtained.

Circular Dichroism↗
PubMed2005

Probing the geometric and electronic structures of the low-temperature azide adduct and the product-inhibited form of oxidized manganese superoxide dismutase.

The geometric and electronic structures of the six-coordinate azide adduct of oxidized manganese superoxide dismutase (Mn3+ SOD) that is formed at low temperatures, LT N3-Mn3+ SOD, has been examined in detail through a combined spectroscopic/computational approach. Electronic absorption, circular dichroism (CD), magnetic CD (MCD) and variable-temperature, variable-field (VTVH) MCD spectroscopies were used to determine electronic transition energies and to obtain an estimate of zero-field splitting parameters for LT N3-Mn3+ SOD. These experimental data were utilized in conjunction with semiempirical intermediate neglect of differential overlap/spectroscopic parametrization-configuration interaction (INDO/S-CI) and time-dependent density functional theory (TD-DFT) computations to evaluate hypothetical active-site models of LT N3-Mn3+ SOD generated by constrained DFT geometry optimizations. Collectively, our spectroscopic/computational results indicate that N3- binding to Mn3+ SOD at low temperatures promotes neither protonation of the axial solvent ligand nor reorientation of the redox-active molecular orbital, both of which had been previously suggested. Using the same experimentally validated computational approach, models of the product-inhibited form of MnSOD were also developed and evaluated by their relative energies and TD-DFT-computed absorption spectra. On the basis of our computational results as well as previously published kinetic data, we propose that the product-inhibited form of MnSOD is best described as a side-on peroxo-Mn3+ adduct possessing an axial H2O ligand. Notably, attempts to generate a stable hydroperoxo-Mn3+ SOD species by protonation of the proximal O atom of the hydroperoxo ligand resulted in dissociation of HOO- and eventual H+ transfer from Tyr34 to HOO-, generating deprotonated Tyr34 and H2O2. The implications of these results with respect to the mechanism of O2*- dismutation by MnSOD are discussed.

Azides↗
PubMed2006

Characterising the electronic structure of ionic liquids: an examination of the 1-butyl-3-methylimidazolium chloride ion pair.

In this paper we analyse the electronic properties of gas-phase 1-butyl-3-methylimidazolium Cl ion pairs, [C(4)C(1)im]Cl, in order to deepen our understanding of ionic liquids in general. Examination of charge densities, natural bond orbitals (NBO), and delocalised molecular orbitals computed at the B3LYP and MP2/6-31(++)G(d,p) levels have enabled us to explain a number of experimental phenomena: the relative acidity of different sites on the imidazolium ring, variations in hydrogen-bond donor and acceptor abilities, the apparent contradiction of the hydrogen-bond-donor parameters for different types of solute, the low probability of finding a Cl(-) anion at the rear of the imidazolium ring and the expansion of the imidazolium ring in the presence of a strong hydrogen-bond acceptor. The unreactive but coordinating environment and large electrochemical window have also been accounted for, as has the strong electron-donating character of the carbon atoms to the rear of the ring in associated imidazolylidenes. The electronic structure of the [C(4)C(1)im](+) cation is best described by a C(4)==C(5) double bond at the rear, and a delocalised three-centre 4 e(-) component across the front (N(1)-C(2)-N(3)) of the imidazolium ring; delocalisation between these regions is also significant. Hydrogen-bond formation is driven by Coulombic stabilisation, which compensates for an associated destabilisation of the electronic part of the system. Interactions are dominated by a large positive charge at C(2) and the build up of pi-electron density above and below the ring, particularly that associated with the double bond between C(4) and C(5). The NBO partial charges have been computed and compared with those used in a number of classical simulations.

Journal Article↗
PubMed2004

Theoretical studies on the electronic structure of Ti8C12 isomers.

Density functional calculation are performed to study Ti(8)C(12) isomers (T(d), C(3v), and D(2d)) in the neutral, cationic, and anionic charge states. C(3v) symmetry is found to be the most stable geometry for the neutral and anion, and the C(3v) and D(2d) isomers to be quasi-iso-energetic lowest for the cation. The electronic structure analysis show that d electron tends to be localized in the ground state. The theoretical assignment for the features in the experimental photoelectron spectra is given. All results obtained are in good agreement with the available experimental data and indicate that the C(3v) and D(2d) isomers may coexist in the photoelectron spectroscopy experiment.

Journal Article↗
PubMed2001

On 'infinite basis set limits' in molecular electronic structure calculations.

Sequences of basis sets can be constructed so as to approach the 'infinite basis set limit' in molecular electronic structure calculations. Extrapolation procedures can also be devized to provide accurate values of this limit. However, some care is required since the 'infinite basis set limit' may not correspond to the limit supported by a complete basis set. Extrapolation procedures can then lead to limiting values, which are not estimates of the exact solutions.

Journal Article↗
PubMed2001

Spectroscopic properties and electronic structure of low-spin Fe(III)-alkylperoxo complexes: homolytic cleavage of the O-O bond.

The spectroscopic properties, electronic structure, and reactivity of the low-spin Fe(III)-alkylperoxo model complex [Fe(TPA)(OH(x))(OO(t)Bu)](x+) (1; TPA = tris(2-pyridylmethyl)amine, (t)Bu = tert-butyl, x = 1 or 2) are explored. The vibrational spectra of 1 show three peaks that are assigned to the O-O stretch (796 cm(-1)), the Fe-O stretch (696 cm(-)(1)), and a combined O-C-C/C-C-C bending mode (490 cm(-1)) that is mixed with upsilon(FeO). The corresponding force constants have been determined to be 2.92 mdyn/A for the O-O bond which is small and 3.53 mdyn/A for the Fe-O bond which is large. Complex 1 is characterized by a broad absorption band around 600 nm that is assigned to a charge-transfer (CT) transition from the alkylperoxo pi*(upsilon) to a t(2g) d orbital of Fe(III). This metal-ligand pi bond is probed by MCD and resonance Raman spectroscopies which show that the CT state is mixed with a ligand field state (t(2g) --> e(g)) by configuration interaction. This gives rise to two intense transitions under the broad 600 nm envelope with CT character which are manifested by a pseudo-A term in the MCD spectrum and by the shapes of the resonance Raman profiles of the 796, 696, and 490 cm(-1) vibrations. Additional contributions to the Fe-O bond arise from sigma interactions between mainly O-O bonding donor orbitals of the alkylperoxo ligand and an e(g) d orbital of Fe(III), which explains the observed O-O and Fe-O force constants. The observed homolytic cleavage of the O-O bond of 1 is explored with experimentally calibrated density functional (DFT) calculations. The O-O bond homolysis is found to be endothermic by only 15 to 20 kcal/mol due to the fact that the Fe(IV)=O species formed is highly stabilized (for spin states S = 1 and 2) by two strong pi and a strong sigma bond between Fe(IV) and the oxo ligand. This low endothermicity is compensated by the entropy gain upon splitting the O-O bond. In comparison, Cu(II)-alkylperoxo complexes studied before [Chen, P.; Fujisawa, K.; Solomon, E. I. J. Am. Chem. Soc. 2000, 122, 10177] are much less suited for O-O bond homolysis, because the resulting Cu(III)=O species is less stable. This difference in metal-oxo intermediate stability enables the O-O homolysis in the case of iron but directs the copper complex toward alternative reaction channels.

Circular Dichroism↗
PubMed2005

Sulfur K-edge XAS and DFT calculations on P450 model complexes: effects of hydrogen bonding on electronic structure and redox potentials.

Hydrogen bonding (H-bonding) is generally thought to play an important role in tuning the electronic structure and reactivity of metal-sulfur sites in proteins. To develop a quantitative understanding of this effect, S K-edge X-ray absorption spectroscopy (XAS) has been employed to directly probe ligand-metal bond covalency, where it has been found that protein active sites are significantly less covalent than their related model complexes. Sulfur K-edge XAS data are reported here on a series of P450 model complexes with increasing H-bonding to the ligated thiolate from its substituent. The XAS spectroscopic results show a dramatic decrease in preedge intensity. DFT calculations reproduce these effects and show that the observed changes are in fact solely due to H-bonding and not from the inductive effect of the substituent on the thiolate. These calculations also indicate that the H-bonding interaction in these systems is mainly dipolar in nature. The -2.5 kcal/mol energy of the H-bonding interaction was small relative to the large change in ligand-metal bond covalency (30%) observed in the data. A bond decomposition analysis of the total energy is developed to correlate the preedge intensity change to the change in Fe-S bonding interaction on H-bonding. This effect is greater for the reduced than the oxidized state, leading to a 260 mV increase in the redox potential. A simple model shows that E degrees should vary approximately linearly with the covalency of the Fe-S bond in the oxidized state, which can be determined directly from S K-edge XAS.

Binding Sites↗
PubMed2006

DFT description on electronic structure and optical absorption properties of anionic S-doped anatase TiO2.

Plane-wave-based pseudopotential density functional theory (DFT) calculations are used to characterize the doping effect of S substituting for O in anatase TiO(2). Through band structure calculation, a direct band gap is predicted in TiO(2)(-)(x)S(x). Electronic structure analysis shows that the doping S could substantially lower the band gap of TiO(2) by the presence of an impurity state of S 3p on the upper edge of the valence band. Excitations from the impurity state of S 3p to the conduction band may be responsible for the red shift of the absorption edge observed in the S-doped TiO(2). The band gap lowering and red shift of the absorption edge are found to increase as the sulfur concentration increases.

Journal Article↗
PubMed2006

Electronic structure study by means of x-ray spectroscopy and theoretical calculations of the "ferric star" single molecule magnet.

The electronic structure of the single molecule magnet system {M[Fe(L(1))(2)](3)}4CHCl(3) [M=Fe,Cr;L(1)=CH(3)N(CH(2)CH(2)O)(2) (2-)] has been studied using x-ray photoelectron spectroscopy, x-ray-absorption spectroscopy, soft-x-ray emission spectroscopy, as well as theoretical density-functional-based methods. There is a good agreement between theoretical calculations and experimental data. The valence band mainly consists of three bands between 2 and 30 eV. Both theory and experiments show that the top of the valence band is dominated by the hybridization between Fe 3d and O 2p bands. From the shape of the Fe 2p spectra it is argued that Fe in the molecule is most likely in the 2+ charge state. Its neighboring atoms (O,N) exhibit a magnetic polarization yielding effective spin S=52 per iron atom, giving a high-spin state molecule with a total S=5 effective spin for the case of M=Fe.

Journal Article↗
PubMed2002

Magnetization-direction-dependent local electronic structure probed by scanning tunneling spectroscopy.

Scanning tunneling spectroscopy (STS) of thin Fe films on W(110) shows that the electronic structure of domains and domain walls is different. This experimental result is explained on the basis of first-principles calculations. A detailed analysis reveals that the spin-orbit induced mixing between minority d(xy+xz) and minority d(z(2)) spin states depends on the magnetization direction and changes the local density of states in the vacuum detectable by STS. As a consequence nanometer-scale magnetic structure information is obtained even by using nonmagnetic probe tips.

Journal Article↗
PubMed1996

Theoretical Study of Electronic Structures and Spectra of Chalcogenido Complexes of Molybdenum, trans-Mo(Q)(2)(PH(3))(4) (Q = O, S, Se, Te).

Electronic structures of the title complexes have been studied using quantum chemical computations by different methods. It is shown that the results of Xalpha calculations agree well with expectations from classical ligand-field theory, but both are far from being in agreement with the results given by ab initio calculations. The HOMO in the ab initio Hartree-Fock molecular orbital diagrams of all these complexes is a chalcogen p(pi) lone pair orbital rather than the metal nonbonding d(xy)() orbital previously proposed. Electronic transition energies were calculated by CASSCF and CI methods. The results suggest that in the cases when Q = S, Se, and Te the lowest energy transitions should be those from the p(pi) lone pair orbitals to the metal-chalcogen pi orbitals. The calculated and observed electronic spectra of the oxo complex are in good agreement and very different from the spectra of the other complexes, and the lowest absorptions were accordingly assigned to transitions of different origins.

Journal Article↗
PubMed2006

Theoretical investigation of the molecular, electronic structures and vibrational spectra of a series of first transition metal phthalocyanines.

A theoretical investigation of the fully optimized geometries and electronic structures of metallophthalocyanines FePc, CoPc, NiPc, CuPc and ZnPc has been conducted with the density functional theory (DFT) method. A comparison between the different molecules for the geometry, molecular orbital, and atomic charge is made. The simulated order of the sizes of the central hole is FePc>CoPc>NiPc NiPc>CuPc>ZnPc, and the atomic charges of the central metal (M=Fe, Co, Ni, Cu, Zn) ions vary in the same order, FePc>CoPc>NiPc CoPc>FePc>CuPc>ZnPc, and the corresponding peaks predicted at 894, 896, 898, 882 and 871 cm(-1), respectively, also exhibit the same order as above-mentioned. Moreover, the lines of fit through plots of the experimental IR and Ra frequencies versus the calculated ones show very good correlations.

Electrons↗
PubMed2007

Electronic structure of CO--an exercise in modern chemical bonding theory.

This paper discusses recent progress that has been made in the understanding of the electronic structure and bonding situation of carbon monoxide which was analyzed using modern quantum chemical methods. The new results are compared with standard models of chemical bonding. The electronic charge distribution and the dipole moment, the nature of the HOMO and the bond dissociation energy are discussed in detail.

Journal Article↗
PubMed2005

Electronic structure of phospho-olivines Li(x)FePO4 (x = 0, 1) from soft-x-ray-absorption and -emission spectroscopies.

The electronic structure of the phospho-olivine Li(x)FePO4 was studied using soft-x-ray-absorption (XAS) and emission spectroscopies. Characteristic changes in the valence and conduction bands are observed upon delithation of LiFePO4 into FePO4. In LiFePO4, the Fe-3d states are localized with little overlap with the O-2p states. Delithiation of LiFePO4 gives stronger hybridization between Fe-3d states and O-2p states leading to delocalization of the O-2p states. The Fe L-edge absorption spectra yield "fingerprints" of the different valence states of Fe in LiFePO4 and FePO4. Resonant soft-x-ray-emission spectroscopy at the Fe L edge shows strong contributions from resonant inelastic soft x-ray scattering (RIXS), which is described using an ionic picture of the Fe-3d states. Together the Fe L-edge XAS and RIXS study reveals a bonding character of the Fe 3d-O2p orbitals in FePO4 in contrast to a nonbonding character in LiFePO4.

Journal Article↗
PubMed2002

Electronic structure of the trilayer cuprate superconductor Bi(2)Sr(2)Ca(2)Cu(3)O(10+delta).

The low-energy electronic structure of the nearly optimally doped trilayer cuprate superconductor Bi(2)Sr(2)Ca(2)Cu(3)O(10+delta) is investigated by angle-resolved photoemission spectroscopy. The normal state quasiparticle dispersion and Fermi surface and the superconducting d-wave gap and coherence peak are observed and compared with those of single- and bilayer systems. We find that both the superconducting gap magnitude and the relative coherence-peak intensity scale linearly with T(c) for various optimally doped materials.

Journal Article↗
PubMed2004

Iron wheels on silicon: wetting behavior and electronic structure of adsorbed organostannoxane clusters.

Atomic force microscopy and synchrotron radiation (SR) spectroscopy have been used to study the wetting behavior and electronic structure of thin films of a novel organometallic cluster--[BuSn(O)OC(O)Fc]6 ("Fc" = ferrocenyl)--on silicon substrates. This cluster comprises six ferrocene units connected to a stannoxane central core--"an iron wheel on a tin drum" (V. Chandrasekhar; et al. Angew. Chem., Int. Ed. 2000, 39, 1833). Thin films spin-cast onto native oxide-terminated silicon readily dewet the substrate. We have utilized advanced image analysis techniques based on Minkowski functionals to provide a detailed quantitative analysis of the morphology of the stannoxane overlayers. This analysis shows that the dewetting patterns are rather far removed from those expected to arise from a simple Poisson distribution of centers, and we discuss the implications of this finding in terms of nucleated and spinodal dewetting. Variations in both the surface roughness and the in-plane correlation length have been followed as a function of annealing time to probe the surface dewetting dynamics. SR valence band photoemission illustrates that the highest occupied molecular orbital (HOMO) of the cluster is found 2 eV below the Fermi level. Fe 2p --> 3d and Sn 3d --> 5p resonant photoemission spectroscopy have been used to enhance the cross sections of the partial density of states associated with the Fe and Sn atoms. Sn atoms make a large contribution to the HOMO of the cluster, whereas the Fe atoms are associated with an electronic environment seemingly very similar to that in the "parent" ferrocene molecule.

Journal Article↗
PubMed2005

Bimetallic clusters Pt6Au: geometric and electronic structures within density functional theory.

Within density functional theory at the general gradient approximation for exchange and correlation (BPW91) and the relativistic 19-electron Los Alamos National Laboratory effective core pseudopotentials and basis sets (3s3p2d), the geometric and electronic structures of Pt(6)Au bimetallic clusters have been studied in detail in comparison with Pt(7). A total of 38 conformations for Pt(6)Au are located. The most stable conformation for Pt(6)Au is a sextet with an edge- and face-capped trigonal bipyramid, in which the Au atom caps an edge of the trigonal bipyramid. Pt(6)Au, in general, prefers a three-dimensional geometry and high spin electronic state with multireference character. The electronic impact of the doping of Au in Pt clusters on the overall chemical activity of the doped bimetallic cluster is not as significant as that of the doping of Pt in Au clusters; however, the doping of Au lowers the chemical activity, thus enhancing the chemoselectivity in the gas phase, of PtAu bimetallic clusters.

Journal Article↗