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PubMed2006

Probing the electronic structure of ZnO nanowires by valence electron energy loss spectroscopy.

Valence electron energy loss spectroscopy in a transmission electron microscope is employed to investigate the electronic structure of ZnO nanowires with diameter ranging from 20 to 100 nm. Its excellent spatial resolution enables this technique to explore the electronic states of a single nanowire. We found that all of the basic electronic structure characteristics of the ZnO nanowires, including the 3.3 eV band gap, the single electron interband transitions at approximately = 9.5, approximately = 13.5,and approximately = 21.8 eV, and the bulk plasmon oscillation at approximately 18.8 eV, resemble those of the bulk ZnO. Momentum transfer resolved energy loss spectra suggest that the 13.5 eV excitation is actually consisted of two weak excitations at approximately = 12.8 and approximately = 14.8 eV, which originate from transitions of two groups of the Zn 3d electrons to the empty density of states in the conduction band, with a dipole-forbidden nature. The energy loss spectra taken from single nanowires of different diameters show several size-dependent features, including an increase in the oscillator strength of the surface plasmon resonance at approximately = 11.5 eV, a broadening of the bulk plasmon peak, and splitting of the O 2s transition at approximately = 21.8 eV into two peaks, which coincides with a redshift of the bulk plasmon peak, when the nanowire diameter decreases. All these observations can be well explained by the increased surface/volume ratio in nanowires of small diameter.

Journal Article↗
PubMed2000

Resonance Raman and semiempirical electronic structure studies of an odd-electron dinickel tetraiminoethylenedimacrocycle complex.

Resonance Raman studies of Ni2TIED3+ (TIED = tetraiminoethylenedimacrocycle) reveal that many modes couple to the intense electronic transition centered at 725 nm, a feature that is nominally similar to the intense delocalized intervalence absorption bands observed in the same region for Fe2(TIED)L4(5+) and Ru2(TIED)L4(5+) (L is any of several axial ligands). Time-dependent spectral modeling of the Raman and absorption spectra for the nickel compound was undertaken to understand the electronic transition. We were unable to model the Raman and absorption spectra successfully with a single electronic transition, suggesting that the absorption band is made up of two overlapping transitions. Semiempirical electronic structure calculations corroborate the suggestion. Additionally, these calculations indicate that the transitions are in fact ligand-localized transitions, with little metal involvement and no charge-transfer character. Furthermore, the ground-state electronic structure is best described as an identical pair of NiII centers bridged by a radical anion rather than a three-site mixed-valence assembly. Previous EPR studies (McAuley and Xu, Inorg. Chem. 1992, 31, 5549) had indicated primarily ligand character for the radical. The assignments are consistent with the resonance Raman results where the dominant modes coupled to the transitions are assigned as totally symmetric bridge vibrations.

Journal Article↗
PubMed2003

Structural, chemical topological, electrotopological and electronic structure hypotheses.

The first important hypothesis in the prediction of properties of synthesized molecules is the structural hypothesis. In the study of drug-receptor interactions, the case where the three-dimensional structure of the receptor is known allows the application of molecular simulation and energy calculations to estimate the binding affinity for a proposed series of compounds. The chemical topological hypothesis permits the description of molecular structures without using concepts such as force or energy. These notions would not be as dominant as supposed since they should be able to be deduced from topology. Although topological descriptors are able to describe specific physicochemical properties, there is no any mechanistic interpretation for topological descriptors, but they can be considered as essential magnitudes, able to describe molecular structure as an alternative and independent approach, since they allow an algebraic description of the structure itself. The hypothesis is based on the ability of topological descriptors for the prediction of virtually any kind of structure-related macroscopic property, and to design directly new compounds showing predetermined properties. It is possible to design new lead drugs ignoring the explicit mechanism of action, but only by topological similarity with other active compounds. This is a basic difference with all the conventional methods based on the use of physical variables, which need to know the specific drug-receptor interaction. The electrotopological hypothesis may be considered a synthesis of both previous hypotheses. Finally, the electronic structure hypothesis is formulated.

Electrons↗
PubMed2002

Perfluoroterephthalate bridged complexes with M-M quadruple bonds: ((t)BuCO(2))(3)M(2)(mu-O(2)CC(6)F(4)CO(2))M(2)(O(2)C(t)Bu)(3), where M = Mo or W. Studies of solid-state, molecular, and electronic structure and correlations with electronic and Raman spectral data.

The compounds [((t)BuCO(2))(3)M(2)(mu-O(2)CC(6)F(4)CO(2))M(2)(O(2)C(t)Bu)(3)], M(4)PFT, where M = Mo or W, are shown by model fitting of the powder X-ray diffraction data to have an infinite "twisted" structure involving M.O intermolecular interactions in the solid state. The dihedral angle between the M(2) units of each molecule is 54 degrees. Electronic structure calculations employing density functional theory (Gaussian 98 and ADF2000.01, gradient corrected and time dependent) on the model compounds (HCO(2))(3)M(2)(mu-O(2)CC(6)F(4)CO(2))M(2)(O(2)CH)(3), where M = Mo or W, reveal that in the gas phase the model compounds adopt planar D(2)(h) ground-state structures wherein M(2) delta to bridge pi back-bonding is maximized. The calculations predict relatively small HOMO-LUMO gaps of 1.53 eV for M = Mo and 1.22 eV for M = W for this planar structure and that, when the "conjugation" is removed by rotation of the plane of the C(6)F(4) ring to become orthogonal to the M(4) plane, this energy gap is nearly doubled to 2.57 eV for M = Mo and 2.18 eV for M = W. The Raman and resonance Raman spectra of solid M(4)PFT and of Mo(4)PFT in THF solution are dominated by bands assigned to the bridging perfluoroterephthalate (pft) group. The intensities of certain Raman bands of solid W(4)PFT are strongly enhanced on changing the excitation line from 476.5 nm (off resonance) to 676.5 nm, which is on resonance with the W(2) delta --> CO(2) (pft) pi transition at ca. 650 nm. The resonance enhanced bands are delta(s)(CO(2)) (pft) at 518 cm(-)(1) and its first overtone at 1035 cm(-)(1), consistent with the structural change to W(4)PFT expected on excitation from the ground to this pi excited state. The electronic transitions for solid Mo(4)PFT (lowest at 410 nm) were not accessible with the available excitation lines (457.9-676.5 nm), and no resonance Raman spectra of this compound could be obtained. For Mo(4)PFT in THF solution, it is the band at 399 cm(-)(1) assigned to nu(MoMo) which is the most enhanced on approach to resonance with the electronic band at 470 nm; combination bands involving the C(6)F(4) ring-stretching mode, 8a, are also enhanced.

Journal Article↗
PubMed2005

Ab initio electronic structure study of one-electron reduction of polychlorinated ethylenes.

Polychlorethylene radicals, anions, and radical anions are potential intermediates in the reduction of polychlorinated ethylenes (C(2)Cl(4), C(2)HCl(3), trans-C(2)H(2)Cl(2), cis-C(2)H(2)Cl(2), 1,1-C(2)H(2)Cl(2), C(2)H(3)Cl). Ab initio electronic structure methods were used to calculate the thermochemical properties, (298.15 K), S degrees (298.15 K,1 bar), and DeltaG(S)(298.15 K, 1 bar) of 37 different polychloroethylenyl radicals, anions, and radical anion complexes, C(2)H(y)Cl(3)(-)(y)(*), C(2)H(y)Cl(3)(-)(y)(-), and C(2)H(y))Cl(4)(-)(y)(*)(-) for y = 0-3, for the purpose of characterizing reduction mechanisms of polychlorinated ethylenes. In this study, 8 radicals, 7 anions, and 22 radical anions were found to have stable structures, i.e., minima on the potential energy surfaces. This multitude of isomers for C(2)H(y)Cl(4)(-)(y)(*)(-) radical anion complexes are pi*, sigma*, and -H...Cl(-) structures. Several stable pi* radical anionic structures were obtained for the first time through the use of restricted open-shell theories. On the basis of the calculated thermochemical estimates, the overall reaction energetics (in the gas phase and aqueous phase) for several mechanisms of the first electron reduction of the polychlorinated ethylenes were determined. In almost all of the gas-phase reactions, the thermodynamically most favorable pathways involve -H...Cl(-) complexes of the C(2)H(y)Cl(4)(-)(y)(*)(-) radical anion, in which a chloride ion is loosely bound to a hydrogen of a C(2)H(x)Cl(2)(-)(x))(*) radical. The exception is for C(2)Cl(4), in which the most favorable anionic structure is a loose sigma* radical anion complex, with a nearly iso-energetic pi* radical anion. Solvation significantly changes the product energetics with the thermodynamically most favorable pathway leading to C(2)H(y)Cl(3)(-)(y)(*) + Cl(-). The results suggest that a higher degree of chlorination favors reduction, and that reduction pathways involving the C(2)H(y)Cl(3)(-)(y)(-) anions are high energy pathways.

Journal Article↗
PubMed2005

Synthesis, crystal structure, magnetic properties, and electronic structure of the new ternary vanadate CuMnVO4.

A new magnetic oxide, CuMnVO4, was prepared, and its crystal structure was determined by single-crystal X-ray diffraction. The magnetic properties of CuMnVO4 were characterized by magnetic susceptibility and specific heat measurements, and the spin exchange interactions of CuMnVO4 were analyzed on the basis of spin-polarized electronic band structure calculations. CuMnVO4 contains MnO4 chains made up of edge-sharing MnO6 octahedra containing high-spin Mn2+ cations. Our work shows that CuMnVO4 undergoes a three-dimensional antiferromagnetic transition at approximately 20 K. Both the intrachain and interchain spin exchanges are antiferromagnetic, and the interchain spin exchange is not negligible compared to the intrachain spin exchange.

Journal Article↗
PubMed2006

Active site structures and the redox properties of blue copper proteins: atomic resolution structure of azurin II and electronic structure calculations of azurin, plastocyanin and stellacyanin.

Understanding how the active site structures of blue copper proteins determine their redox properties is the central structure-function relationship question of this important class of protein, also referred to as cupredoxins. We here describe both experimental and computational studies of azurin, plastocyanin and stellacyanin designed to define more accurately the geometric structures of the active site of the reduced and oxidized species, and thus to understand how these structures determine the redox potentials of these proteins. To this end the crystal structure of reduced azurin II has been determined at an atomic resolution of 1.13 Angstrom and is presented here. Co-ordinates and structure factors have been deposited in the RCSB Protein Data Bank with accession codes 2ccw and r2ccwsf respectively. The improved accuracy provided by the atomic resolution for the metal stereochemistry are utilised in conjunction with the EXAFS data for theoretical calculations. Multilevel calculations involving density functional theory and molecular mechanical potentials are used to predict both the geometric and electronic structure of the active sites of azurin, plastocyanin and stellacyanin and to estimate the relative redox potentials of these three proteins. We have also compared the relative energies of the structures obtained from experiment at varying resolutions, and from the isolated and embedded cluster calculations. We find significant energy differences between low and high (atomic) resolution structures arising primarily due to inaccuracies in the Cu-ligand distances in the lower resolution structures, emphasising the importance of accurate, very high resolution structural information. QM/MM structures are only approximately 1 kcal mol(-1) lower in energy than the 1.13 Angstrom structure while the optimized gas phase structure is 13.0 kcal mol(-1) lower in energy.

Alcaligenes↗
PubMed2003

Cyclic polyamidato dianions as bridges between Mo(2)(4+) units: synthesis, crystal structures, electrochemistry, absorption spectra, and electronic structures.

Compounds in which quadruply bonded Mo(2)(4+) units, Mo(2)(DAniF)(3) (DAniF = N,N'-di-p-anisylformamidinate), are linked by cyclic diamidate anions have been synthesized and characterized by X-ray crystallography and spectroscopic methods. As identified by the diamidate linker, these compounds are 4,6-dioxypyrimidinate (2), 2,3-dioxypyrazinate (3), 2,3-dioxyquinoxalinate (4), 2,3-dioxy-5,6-dicyanopyrazinate (5), and cyanurate (6). With uracilate, a dinuclear unlinked 1:1 adduct is formed, Mo(2)(DAniF)(3)(uracilate) (1). The cyclic voltammograms of 3-5 reveal significantly larger DeltaE(1/2) values (258 mV-308 mV) than that of the oxalate linked analogue (212 mV), which is indicative of greater charge delocalization in the mixed valent Mo(2)(4+)/Mo(2)(5+) species and hence greater communication between the two Mo(2) units. DeltaE(1/2) for 2 is substantially lower than those for 3-5. This difference is attributed to the meta disposition of the two amidate groups in 4,6-dioxypyrimidinate as compared to their ortho arrangement in the pyrazinate-type linkers. The absorption spectra of the linked compounds 3-5 are more complex than those of the analogous polyunsaturated dicarboxylate linked compounds and reveal at least two significant absorption bands within the region 420-550 nm. Compound 2 also has two bands but with significantly lower intensity. Time dependent DFT calculations upon 2 and 3 indicate rather different electronic structures for these two structural isomers. The two bands for 3 have delta --> pi character, and the pi type orbitals have substantial contributions from the Mo(2) units as well as from the diamidate linker. The excitations observed in 2 are mainly metal based. The differences between the electronic spectra of 2 and 3 are consistent with the electrochemistry in underscoring the profound physical effect of changing the symmetry of the diamidate linker.

Anions↗
PubMed1998

Effects of hydrogen bonds on the redox potential and electronic structure of the bacterial primary electron donor.

The primary donor, P, of photosynthetic bacterial reaction centers (RCs) is a dimer of excitonically interacting bacteriochlorophyll (BChl) molecules. The two constituents are named PL and PM to designate their close association with the L- and M-subunits, respectively, of the RC protein. A series of site-directed mutants of RCs from Rhodobacter sphaeroides has been constructed in order to model the effects of hydrogen bonding on the redox midpoint potential and electronic structure of P. The leucine residue at position M160 was genetically replaced with eight other amino acid residues capable of donating a hydrogen bond to the C9 keto carbonyl group of the PM BChl a molecule of P. Fourier transform (FT) (pre)resonance Raman spectroscopy with 1064 nm excitation was used to (i) determine the formation and strengths of hydrogen bonds on this latter keto carbonyl group in the reduced, neutral state (PO), and (ii) determine the degree of localization of the positive charge on one of the two constituent BChl molecules of P in its oxidized, radical cation state (P*+). A correlation was observed between the strength of the hydrogen bond and the increase in PO/P*+ redox midpoint potential. This correlation is less pronounced than that observed for another series of RC mutants where hydrogen bonds to the four pi-conjugated carbonyl groups of P were broken or formed uniquely involving histidinyl residues [Mattioli, T. A., Lin, X., Allen, J. P. and Williams, J. C. (1995) Biochemistry 34, 6142-6152], indicating that histidinyl residues are more effective in raising the PO/P*+ redox midpoint potential via hydrogen bond formation than are other hydrogen bond-forming residues. In addition, an increase in positive charge localization is correlated with the strength of the hydrogen bond and with the PO/P*+ redox midpoint potential. This latter correlation was analyzed using an asymmetric bacteriochlorophyll dimer model based on Hückel-type molecular orbitals in order to obtain estimates of certain energetic parameters of the primary donor. Based on this model, the correlation is extrapolated to the case of complete localization of the positive charge on PL and gives a predicted value for the P/P+ redox midpoint potential similar to that experimentally determined for the Rb. sphaeroides HL(M202) heterodimer. The model yields parameters for the highest occupied molecular orbital energies of the two BChl a constituents of P which are typical for the oxidation potential of isolated BChl a in vitro, suggesting that the protein, as compared to many solvents, does not impart atypical redox properties to the BChl a constituents of P.

Amino Acid Substitution↗
PubMed2003

Photoemission and the electronic structure of PuCoGa5.

The electronic structure of the first Pu-based superconductor PuCoGa5 is explored using photoelectron spectroscopy and a novel theoretical scheme. Exceptional agreement between calculation and experiment defines a path forward for understanding the electronic structure aspects of Pu-based materials. The photoemission results show two separate regions of 5f electron spectral intensity, one at the Fermi energy and another centered 1.2 eV below the Fermi level. The results for PuCoGa5 clearly indicate 5f electron behavior on the threshold between localized and itinerant. Comparisons to delta phase Pu metal show a broader framework for understanding the fundamental electronic properties of the Pu 5f levels in general within two configurations, one localized and one itinerant.

Journal Article↗
PubMed2006

Electron binding energies of hydrated H3O+ and OH-: photoelectron spectroscopy of aqueous acid and base solutions combined with electronic structure calculations.

The electronic structure of hydrated H3O+ and OH- is probed in a water jet by photoelectron spectroscopy employing 100 eV photons. The first ionization potential for OH- at 9.2 eV and the second ionization potential for H3O+ at 20 eV are resolved, corresponding to the removal of an electron from the 2ppi highest occupied molecular orbital and from the 1e orbital, respectively. These assignments are supported by present computational results based on a combination of molecular dynamics and ab initio calculations.

Journal Article↗
PubMed2005

Two ferromagnetic azido-bridged copper(ll) complexes studied by first-principle electronic-structure calculation.

The electronic structures of two ferromagnetic polynuclear copper(II) complexes, derived from end-to-end azido ligand and tridentate (NNN donor) Schiff base ligand, have been studied using the full-potential linearized augmented plane-wave method based on the density-functional theory. They are [Cu(L1)(micro-1,3-N3)]n(ClO4)n (1) and [Cu(L2)(micro-1,3-N3)]n(ClO4)n (2). The result shows that the spin populations in these two complexes are mainly distributed on the equatorial planes of a square pyramidal that surround the copper(II) ions. There are large and positive spin populations on copper(II) ions, small and positive spin populations on the three nitrogen atoms of tridentate Schiff base ligand, and the two terminal nitrogen atoms of asymmetrical end-to-end azido ligand, while weak and negative spin populations on the central nitrogen atoms of asymmetrical end-to-end azido ligand. Ferromagnetic coupling through the asymmetrical azido ligand in these two complexes has been mainly attributed to the spin delocalization, also with weak spin-polarization effect.

Journal Article↗
PubMed1995

Coherent potential approximation approach to electronic structure of DNA.

The electronic structure of DNA is theoretically investigated by use of the coherent potential approximation. Even when the sequence of the four kinds of bases is nonperiodic, guanine block forms the persistent highest valence band edge, and adenine block forms the persistent lowest conduction band edge state. According to the calculated joint density-of-states energy profiles, the site first attacked by the lowest excitation is adenine block. After this excitation, electrons are generated at adenine sites, and holes are generated at guanine sites. The resulting electronic structures of the valence band and conduction band suggest that the base complementarity in DNA produces the complementarity in the density-of-states divergences of the excited electrons and holes. This complementarity lowers the excitation instability in the DNA chains.

DNA↗
PubMed2004

Using molecular similarity to construct accurate semiempirical electronic structure theories.

Ab initio electronic structure methods give accurate results for small systems, but do not scale well to large systems. Chemical insight tells us that molecular functional groups will behave approximately the same way in all molecules, large or small. This molecular similarity is exploited in semiempirical methods, which couple simple electronic structure theories with parameters for the transferable characteristics of functional groups. We propose that high-level calculations on small molecules provide a rich source of parametrization data. In principle, we can select a functional group, generate a large amount of ab initio data on the group in various small-molecule environments, and "mine" this data to build a sophisticated model for the group's behavior in large environments. This work details such a model for electron correlation: a semiempirical, subsystem-based correlation functional that predicts a subsystem's two-electron density matrix as a functional of its one-electron density matrix. This model is demonstrated on two small systems: chains of linear, minimal-basis (H-H)(5), treated as a sum of four overlapping (H-H)(2) subsystems; and the aldehyde group of a set of HOC-R molecules. The results provide an initial demonstration of the feasibility of the approach.

Journal Article↗
PubMed2006

Electron group functions for the analysis of the electronic structures of molecules.

The electronic structure of a vast majority of molecular systems can be understood in terms of electron groups and their wave functions. They serve as a natural basis for bringing intuitive chemical and physical concepts into quantum chemical calculations. This article considers the general electron group functions formalism as well as its simple geminal version. We try to characterize the wave function with the group structure and its capabilities in actual calculations. For this purpose we implement a variational method based on the wave function in the form of an antisymmetrized product of strongly orthogonal group functions and perform a series of electronic structure calculations for small molecules and model systems. The most important point studied is the relation between the choice of electron groups and the results obtained. We consider energetic characteristics as well as optimal geometry parameters. In view of practical importance, the structure of variationally optimized local one-electron states is considered in detail as well as intuitive characteristics of chemical bonds.

Journal Article↗
PubMed2000

Insights into the Electronic Structure of Ceramics through Quantitative Analysis of Valence Electron Energy-loss Spectroscopy.

Valence electron energy-loss (VEEL) spectroscopy was performed on six ceramic materials in a dedicated scanning transmission electron microscope (STEM). Quantitative analysis of these data is described yielding access to the complex optical properties and the electronic structure of the materials. Comparisons are made on the basis of the interband transition strength describing transitions between occupied states in the valence band and empty states in the conduction band. This proves that the quantitative analysis of VEEL data is a competitive and complementary method to be considered when investigating the electronic structure of materials. Possibilities for improvement and extension of the analysis are discussed extensively.

Journal Article↗
PubMed2001

Valence electron energy loss study of Fe-doped SrTiO3 and a sigma13 boundary: electronic structure and dispersion forces.

Valence electron energy loss spectroscopy in a dedicated scanning transmission electron microscope has been used to obtain the interband transition strength of a sigma13 tilt grain boundary in SrTiO3. In a first step the electronic structure of bulk SrTiO3 has been analysed quantitatively by comparing VEELS spectra with vacuum ultraviolet spectra and with ab initio density of states calculations. The electronic structure of a near sigma13 grain boundary and the corresponding dispersion forces were then determined by spatially resolved VEELS. Also the effects of delocalization of the inelastic scattering processes were estimated and compared with results from the literature.

Journal Article↗
PubMed2006

Correlated electronic structure nonlinear response methods for structured environments.

This contribution concerns a brief outline of structural environment models where correlated electronic structure response methods are utilized for the determination of nonlinear optical properties of molecules. The presentation provides theory and applications of a heterogeneous dielectric media model and a quantum mechanical-classical mechanical model at the level of correlated electronic structure response methods. The correlated electronic structure response methods include the multiconfigurational self-consistent field method.

Journal Article↗