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The electronic structure of alkali aurides. A four-component Dirac-Kohn-Sham study.

Spectroscopic constants, including dissociation energies, harmonic and anharmonic vibrational frequencies, and dipole moments, are calculated for the complete alkali auride series (LiAu, NaAu, KAu, RbAu, CsAu). The four-component formulation of relativistic density functional theory has been employed in this study, using the G-spinor basis sets implemented recently in the program BERTHA. The performance of four standard nonrelativistic density functionals employed is investigated by comparing the results with the best available theoretical and experimental data. The present work provides the first theoretical predictions on the molecular properties of RbAu. The intermetallic bond that occurs in the alkali auride series is highly polar and is characterized by a large charge transfer from the alkali metals to gold. The extent of this electron transfer has been investigated using several different charge analysis methods, enabling us to reach some general conclusions on their relative performance. We further report a detailed analysis of the topological properties of relativistic electron density in the bonding region, discussing the features of this approach which characterize the nature of the chemical bond. We have also computed the fully relativistic density for the alkali halides MBr and MI (M = Li, Na, K, Rb, and Cs). The comparative study shows that, on the basis of several topological properties and the variation in bond lengths, the gold atom behaves similarly to a halogen intermediate between Br and I.

Journal Article↗

On the graphical analysis of the electronic structure of ferromagnetic clusters of medium size.

In a previous work, a theoretical approach, suitable to describe systems having a large number of fermions, was proposed, and results for ferromagnetic surface clusters of medium size (100-1000 atoms) were presented. The aim of the present contribution is to complete this previous work. Several significant theoretical and technical details, omitted previously, are provided here. The obtained spin orbitals are analyzed, by studying their symmetry, energy, and d contribution properties.

Electrons↗

Magnetic properties of ferric hemoproteins and the relation to electronic structure of the prosthetic group.

Recently, it has been shown that the magnetic data of bacterial cytochromes c' and of some model complexes are consistent with a quantum mechanically mixed spin state. This new mixed spin state is to distinguish from thermally mixed pure high-spin and low-spin states. Based on ligand field model, the dependence of the magnetic state of a heme complex on the nature of the axial ligands is discussed.

Chemical Phenomena↗

Theoretical study on electronic structure and optical properties of phenothiazine-containing conjugated oligomers and polymers.

The application of polyfluorenes in polymeric light-emitting diodes has been hampered because of the charge injection difficulties and the troublesome formation of a tailed emission band at long wavelengths (>500 nm) during device fabrication and operation, leading to both a color instability and reduced efficiency. The incorporation of the phenothiazine units has been proven to significantly enhance the hole injection and charge carrier balance and at the same time efficiently suppress the keto defect emission. In this contribution, we apply quantum-chemical techniques to investigate poly[10-(N-(2'-methyl)phenothiazine-3,7-diyl) and its fluorene copolymer poly[10-(N-(2'-methyl)phenothiazine-3,7-diyl)-co-alt-2,7-(9,9-dimethylfluorene)] (PFPTZ) and gain a detailed understanding the influence of phenothiazine units on the electronic and optical properties of fluorene derivatives. Density functional theory (DFT) and time-dependent DFT approaches are employed to study the neutral molecules, HOMO-LUMO gaps (Delta(H-L)), the lowest excitation energies (E(g)'s), positive and negative ions, as well as the IPs and EAs, focusing on the superiority of the electronic and optical properties attributed to the introduction of electron-donating moiety phenothiazine (PTZ) through comparing with pristine polyfluorene. The outcomes show that the highly nonplanar conformation of phenothiazine ring in the ground state preclude sufficiently close intermolecular interactions essential to forming aggregates or excimers. Furthermore, the HOMO energies lift about 0.4 eV, and thus, the IPs decrease about 0.3 eV in PFPTZ, suggesting the significant improved hole-accepting and transporting abilities, due to the electron-donating properties of phenothiazine ring by the presence of electron-rich sulfur and nitrogen heteroatoms and highly nonplanar characters, resulting in the enhanced performances in both efficiency and brightness compared with pristine polyfluorene. In addition, even though the introduction of electron-donating moiety PTZ onto fluorene leads to a slight bathochromic shift in absorption and emission spectra, the copolymer still exhibited strong blue emission.

Journal Article↗

Geometrical and electronic structures of dinuclear complex ions {(mu-bpym)[Cu(EAr3)2]2}2+ with intramolecular "organic sandwich" formation (E = P or As; Ar = Aryl; bpym = 2,2'-bipyrimidine).

The compound {(mu-bpym)[Cu(AsPh3)2]2}(BF4)2 (1) has been prepared and studied in comparison with the triphenylphosphine analogue 2. Qualitatively, the structure of 1 with characteristically distorted copper(I) coordination caused by Ph/bpym/Ph sandwich interactions is similar to that of 2 and is approximately reproduced by DFT calculations for the model complex ions {(mu-bpym)[Cu(EMe2Ph)2]2}2+, E = P or As. In contrast, the dinuclear {(mu-bpym)[Cu(P(3-Me-C6H4)3)2]2}(BF4)2 (3) displays a distinctly less distorted metal coordination geometry due to the steric requirements of the methyl groups in the meta-tolyl substituents. The electrochemical reduction of 1 is less reversible than for the phosphine analogues; the one-electron-reduced form 1*- exhibits a broad, unresolved EPR signal at g = 2.0023. Resonance Raman spectroscopy of 1 shows the typical vibrations of the bpym ligand in agreement with the MLCT assignment of the long-wavelength transitions below 500 nm. All three dinuclear complexes exhibit luminescence at room temperature in the solid and in solution.

Journal Article↗

Theoretical investigations of the electronic structure and spectroscopy of mononuclear, non-heme [Fe-NO](6) complexes.

The unusual metal coordination and spin-state of the Fe(III) center in nitrile hydratase (NHase) has stimulated the synthesis of numerous model complexes in efforts to understand the reactivity and spectroscopic properties of the enzyme. A particular problem has been the development of model Fe(III) complexes that exhibit reversible, photolabile binding to nitric oxide (NO) in a manner similar to that observed for the NHase metal center. We now report a detailed NBO analysis of the ground-state chemical bonding in three [Fe-NO](6) complexes that exhibit different responses to irradiation, together with investigations of their spectroscopic properties using semiempirical INDO/S CI singles calculations. Our computational studies reveal a correlation between the photolability of these complexes and the existence of low-energy transitions that promote an electron into the Fe-NO pi(*) antibonding molecular orbital. In addition to providing detailed insights into how the ligand field influences the spectroscopy of these mononuclear complexes, these studies strengthen our previous conclusions regarding the role of post-translational cysteine modification in modulating the photoreactivity of the inactive, NO complex of NHase.

Journal Article↗

Collision-energy-resolved Penning ionization electron spectroscopy of p-benzoquinone: study of electronic structure and anisotropic interaction with He(*)(2 (3)S) metastable atoms.

Collision energy dependence of partial ionization cross sections (CEDPICS) of p-benzoquinone with He(*)(2 (3)S) metastable atoms indicates that interaction potentials between p-benzoquinone and He(*)(2 (3)S) are highly anisotropic in the studied collision energy range (100-250 meV). Attractive interactions were found around the C==O groups for in-plane and out-of-plane directions, while repulsive interactions were found around CH bonds and the benzenoid ring. Assignment of the first four ionic states of p-benzoquinone and an analogous methyl-substituted compound was examined with CEDPICS and anisotropic distributions of the corresponding two nonbonding oxygen orbitals (n(O) (+),n(O) (-)) and two pi(CC) orbitals (pi(CC) (+),pi(CC) (-)). An extra band that shows negative CEDPICS was observed at ca. 7.2 eV in Penning ionization electron spectrum.

Journal Article↗

Electronic structure and chain-length effects in diplatinum polyynediyl complexes trans,trans-[(X)(R3P)2Pt(C triple bond C)(n)Pt(PR3)2(X)]: a computational investigation.

Structure and bonding in the title complexes are studied using model compounds trans,trans-[(C6H5)(H3P)2Pt(C triple bond C)(n)Pt(PH3)2(C6H5)] (PtCxPt; x = 2n = 4-26) at the B3LYP/LACVP* level of density functional theory. Conformations in which the platinum square planes are parallel are very slightly more stable than those in which they are perpendicular (DeltaE = 0.12 kcal mol(-1) for PtC8Pt). As the carbon-chain length increases, progressively longer C triple bond C triple bonds and shorter triple bond C-C triple bond single bonds are found. Whereas the triple bonds in HCxH become longer (and the single bonds shorter) as the interior of the chain is approached, the PtC triple bond C triple bonds in PtCxPt are longer than the neighboring triple bond. Also, the Pt-C bonds are shorter at longer chain lengths, but not the H-C bonds. Accordingly, natural bond orbital charge distributions show that the platinum atoms become more positively charged, and the carbon chain more negatively charged, as the chain is lengthened. Furthermore, the negative charge is localized at the two terminal C triple bond C atoms, elongating this triple bond. Charge decomposition analyses show no significant d-pi* backbonding. The HOMOs of PtCxPt can be viewed as antibonding combinations of the highest occupied pi orbital of the sp-carbon chain and filled in-plane platinum d orbitals. The platinum character is roughly proportional to the Pt/Cx/Pt composition (e.g., x = 4, 31 %; x = 20, 6 %). The HOMO and LUMO energies monotonically decrease with chain length, the latter somewhat more rapidly so that the HOMO-LUMO gap also decreases. In contrast, the HOMO energies of HCxH increase with chain length; the origin of this dichotomy is analyzed. The electronic spectra of PtC4Pt to PtC10Pt are simulated. These consist of two pi-pi* bands that redshift with increasing chain length and are closely paralleled by real systems. A finite HOMO-LUMO gap is predicted for PtCinfinityPt. The structures of PtCxPt are not strictly linear (average bond angles 179.7 degrees -178.8 degrees ), and the carbon chains give low-frequency fundamental vibrations (x = 4, 146 cm(-1); x = 26, 4 cm(-1)). When the bond angles in PtC12Pt are constrained to 174 degrees in a bow conformation, similar to a crystal structure, the energy increase is only 2 kcal mol(-1). The above conclusions should extrapolate to (C triple bond C)(n) systems with other metal endgroups.

Journal Article↗

Ligand redox effects in the synthesis, electronic structure, and reactivity of an alkyl-alkyl cross-coupling catalyst.

The ability of the terpyridine ligand to stabilize alkyl complexes of nickel has been central in obtaining a fundamental understanding of the key processes involved in alkyl-alkyl cross-coupling reactions. Here, mechanistic studies using isotopically labeled (TMEDA)NiMe(2) (TMEDA = N,N,N',N'-tetramethylethylenediamine) have shown that an important catalyst in alkyl-alkyl cross-coupling reactions, (tpy')NiMe (2b, tpy' = 4,4',4' '-tri-tert-butylterpyridine), is not produced via a mechanism that involves the formation of methyl radicals. Instead, it is proposed that (terpyridine)NiMe complexes arise via a comproportionation reaction between a Ni(II)-dimethyl species and a Ni(0) fragment in solution upon addition of a terpyridine ligand to (TMEDA)NiMe(2). EPR and DFT studies on the paramagnetic (terpyridine)NiMe (2a) both suggest that the unpaired electron resides heavily on the terpyridine ligand and that the proper electronic description of this nickel complex is a Ni(II)-methyl cation bound to a reduced terpyridine ligand. Thus, an important consequence of these results is that alkyl halide reduction by (terpyridine)NiR(alkyl) complexes appears to be substantially ligand based. A comprehensive survey investigating the catalytic reactivity of related ligand derivatives suggests that electronic factors only moderately influence reactivity in the terpyridine-based catalysis and that the most dramatic effects arise from steric and solubility factors.

Alkanes↗

Electronic structure of diamagnetic and paramagnetic hexanuclear chalcohalide clusters of rhenium.

Hexanuclear chalcohalide clusters of rhenium(III) of general formula [Re(6)S(4+x)Cl(10-x)](x-) with x = 1-4 have been studied using quantum chemical DFT calculations. The optimized structures reproduce the geometrical features found from X-ray data for the members of the series. The relative stability of different stereoisomers for the mono- and dianions has been estimated. The analysis of the tetraanion series [Re(6)Q(8)X(6)](4-) with Q = S, Se and X = Cl, Br, I, and CN demonstrates the influence of the mu(1)- and mu( 3)-ligands on the strength of Re-apical ligand bond. It is shown that the tetragonal distortion found for the stable oxidized paramagnetic species [Re(6)S(8)Cl(6)]*(3-) results from the Jahn-Teller effect for a doubly degenerate electronic state.

Journal Article↗

Excited-State Electronic Structure in Polypyridyl Complexes Containing Unsymmetrical Ligands.

Step-scan Fourier transform infrared absorption difference time-resolved (S(2)FTIR DeltaA TRS) and time-resolved resonance Raman (TR(3)) spectroscopies have been applied to a series of questions related to excited-state structure in the metal-to-ligand charge transfer (MLCT) excited states of [Ru(bpy)(2)(4,4'-(CO(2)Et)(2)bpy)](2+), [Ru(bpy)(2)(4-CO(2)Et-4'-CH(3)bpy)](2+), [Ru(bpy)(4,4'-(CO(2)Et)(2)bpy)(2)](2+), [Ru(4,4'-(CO(2)Et)(2)bpy)(3)](2+), [Ru(bpy)(2)(4,4'-(CONEt(2))(2)bpy)](2+), [Ru(bpy)(2)(4-CONEt(2)-4'-CH(3)bpy)](2+), and [Ru(4-CONEt(2)-4'-CH(3)bpy)(3)](2+) (bpy is 2,2'-bipyridine). These complexes contain bpy ligands which are either symmetrically or unsymmetrically derivatized with electron-withdrawing ester or amide substituents. Analysis of the vibrational data, largely based on the magnitudes of the nu(CO) shifts of the amide and ester substituents (Deltanu(CO)), reveals that the ester- or amide-derivatized ligands are the ultimate acceptors and that the excited electron is localized on one acceptor ligand on the nanosecond time scale. In the unsymmetrically substituted acceptor ligands, the excited electron is largely polarized toward the ester- or amide-derivatized pyridine rings. In the MLCT excited states of [Ru(bpy)(2)(4,4'-(CO(2)Et)(2)bpy)](2+) and [Ru(bpy)(2)(4,4'-(CONEt(2))(2)bpy)](2+), Deltanu(CO) is only 60-70% of that observed upon complete ligand reduction due to a strong polarization interaction in the excited state between the dpi(5) Ru(III) core and the excited electron.

Journal Article↗

Application of time-resolved infrared spectroscopy to electronic structure in metal-to-ligand charge-transfer excited states.

Infrared data in the nu(CO) region (1800-2150 cm(-1), in acetonitrile at 298 K) are reported for the ground (nu(gs)) and polypyridyl-based, metal-to-ligand charge-transfer (MLCT) excited (nu(es)) states of cis-[Os(pp)2(CO)(L)](n)(+) (pp = 1,10-phenanthroline (phen) or 2,2'-bipyridine (bpy); L = PPh3, CH(3)CN, pyridine, Cl, or H) and fac-[Re(pp)(CO)3(4-Etpy)](+) (pp = phen, bpy, 4,4'-(CH3)2bpy, 4,4'-(CH3O)2bpy, or 4,4'-(CO2Et)2bpy; 4-Etpy = 4-ethylpyridine). Systematic variations in nu(gs), nu(es), and Delta(nu) (Delta(nu) = nu(es) - nu(gs)) are observed with the excited-to-ground-state energy gap (E(0)) derived by a Franck-Condon analysis of emission spectra. These variations can be explained qualitatively by invoking a series of electronic interactions. Variations in dpi(M)-pi(CO) back-bonding are important in the ground state. In the excited state, the important interactions are (1) loss of back-bonding and sigma(M-CO) bond polarization, (2) pi(pp*-)-pi(CO) mixing, which provides the orbital basis for mixing pi(CO)- and pi(4,4'-X(2)bpy)-based MLCT excited states, and (3) dpi(M)-pi(pp) mixing, which provides the orbital basis for mixing pipi- and pi(4,4'-X(2)bpy*-)-based MLCT states. The results of density functional theory (DFT) calculations on the ground and excited states of fac-[Re(I)(bpy)(CO)3(4-Etpy)](+) provide assignments for the nu(CO) modes in the MLCT excited state. They also support the importance of pi(4,4'-X2bpy*-)-pi(CO) mixing, provide an explanation for the relative intensities of the A'(2) and A' ' excited-state bands, and provide an explanation for the large excited-to-ground-state nu(CO) shift for the A'(2) mode and its relative insensitivity to variations in X.

Journal Article↗

Theoretical study of the effects of solvent environment on photophysical properties and electronic structure of paracyclophane chromophores.

We use first-principles quantum-chemical approaches to study absorption and emission properties of recently synthesized distyrylbenzene (DSB) derivative chromophores and their dimers (two DSB molecules linked through a [2.2]paracyclophane moiety). Several solvent models are applied to model experimentally observed shifts and radiative lifetimes in Stokes nonpolar organic solvents (toluene) and water. The molecular environment is simulated using the implicit solvation models, as well as explicit water molecules and counterions. Calculations show that neither implicit nor explicit solvent models are sufficient to reproduce experimental observations. The contact pair between the chromophore and counterion, on the other hand, is able to reproduce the experimental data when a partial screening effect of the solvent is taken into account. Based on our simulations we suggest two mechanisms for the excited-state lifetime increase in aqueous solutions. These findings may have a number of implications for organic light-emitting devices, electronic functionalities of soluble polymers and molecular fluorescent labels, and their possible applications as biosensors and charge/energy conduits in nanoassemblies.

Journal Article↗

Thermochemical properties of HxNO molecules and ions from ab initio electronic structure theory.

Coupled-cluster calculations through noniterative triple excitations were used to compute optimized structures, atomization energies at 0 K, and heats of formation at 0 and 298 K for NH2O, HNOH, NH2O-, NH2OH+, NH3OH+, HNO-, and HON. These molecules are important in the gas-phase oxidation of NH3, as well as its solution-phase chemistry. The O-H, N-H, and N-O bond energies of these molecules are given and compared. The N-H and O-H bond energies are quite low, and, for NH2OH, the O-H bond is weaker than the N-H bond (by 7.5 kcal/mol). The energetics for a variety of ionic chemical processes in the gas phase, including the electron affinities of NH2O and HNO, the proton affinities of NH2O and NH2OH, and the acidities of NH2OH and NH2O, are given. The compounds are weak bases and weak acids in the gas phase. Solvation effects were included at the PCM and COSMO levels. The COSMO model gave better values than the PCM model. The relative values for pKa for NH2O and NH2OH are in good agreement with the experimental values, showing both compounds to be very strong bases in aqueous solution with NH2OH being the stronger base by 1.8 pK units at the COSMO level, compared to the experimental pK difference of 1.1+/-0.3 pK units. We predict that NH2OH+ will not be formed in aqueous solution, because it is a very strong acid. Based on the known acidity of NH3OH+, we predict pKa(NH2OH+)=-5.4 at the COSMO level, which is in good agreement with the experimental estimate of pKa(NH2OH+)=-7+/-2.

Journal Article↗

An ab initio study of electronic structure and spectra of 8-bromoguanine: a comparative study with guanine.

Ground state geometries of the four tautomeric forms keto-N9H, keto-N7H, enol-N9H and enol-N7H of 8-bromoguanine (8BG) were optimized using the ab initio RHF procedure employing a mixed basis set consisting of the 6-311 + G* basis set for the nitrogen atom of the amino group and the bromine atom, and the 4-31G basis set for all other atoms. These calculations were followed by correlation correction of the total energy at the MP2 level using the same basis set. The different tautomeric forms of 8BG in the ground state were solvated using the isodensity surface polarized continuum model (IPCM) of the SCRF theory both at the RHF and MP2 levels. Excited states were generated employing configuration interaction among singly excited configurations (CIS) obtained using a limited window of filled and empty molecular orbitals. Formation of hydrogen-bonded complexes between 8BG and three water molecules in the ground and excited states was considered in order to account for solvent effects approximately. Excited state geometry was optimized in each case for the lowest singlet excited state which was found to be of pi-pi* type. Vibrational frequency analysis was performed in order to ensure that the stationary points located on the potential energy surfaces by geometry optimization were minima. It is found that 8BG would occur in the ground state dominantly in the keto-N7H form both at the aqueous solution-air interface and inside the bulk liquid. The observed absorption and fluorescence spectra of 8BG can be explained satisfactorily considering only the keto-N7H form of the molecule. The enol tautomers of 8BG do not appear to be important from the point of view of ground state properties or electronic spectra. The observed differences between the behaviors of guanine and 8BG can be easily explained on the basis of the results obtained.

DNA↗

Optical spectra and electronic structure of flavine mononucleotide in flavodoxin crystals.

The polarized single-crystal absorption spectra of the oxidized and semiquinone forms of flavodoxin from Clostridium MP have been measured with a double beam recording microspectrophotometer. The spectra establish that the radical species in the crystal is the neutral (blue) falvine semiquinone. Combination of the spectra reported here with polarization data from previous fluorescence and stretched-film studies provides transition moment directions for the first two phi-phi transitions of the oxidized form. Predictions of molecular orbital theory are in good agreement with these experimental directions. The crystal spectra of the semiquinone indicate that the two lowest frequency transitions have the same detailed orbital origin as the corresponding transitions of the oxidized form; in the semiquinone these transitions appear at lower frequency, are closer together, and, as predicted from detailed considerations of transition probabilities, exhibit approximately half the absorption intensity. Our hypothesis of a common orbital origin suggests that semiquinone formation takes place by the addition of an electron to the lowest empty phi orbital of the oxidized form without any gross electronic rearrangement.

Bacterial Proteins↗

Electronic structure of methoxy-, bromo-, and nitrobenzene grafted onto Si(111).

The properties of Si(111) surfaces grafted with benzene derivatives were investigated using ultraviolet photoemission spectroscopy (UPS) and X-ray photoelectron spectroscopy (XPS). The investigated materials were nitro-, bromo-, and methoxybenzene layers (-C(6)H(4)-X, with X = NO(2), Br, O-CH(3)) deposited from diazonium salt solutions in a potentiostatic electrochemical process. The UPS spectra of the valence band region are governed by the molecular orbital density of states of the adsorbates, which is modified from the isolated state in the gas phase due to molecule-molecule and molecule-substrate interaction. Depending on the adsorbate, clearly different emission features are observed. The analysis of XPS intensities clearly proves multilayer formation for bromo- and nitrobenzene in agreement with the amount of charge transferred during the grafting process. Methoxybenzene forms only a sub-monolayer coverage. The detailed analysis of binding energy shifts of the XPS emissions for determining the band bending and the secondary electron onset in UPS spectra for determining the work function allow one to discriminate between surface dipole layers--changing the electron affinity--and band bending, affecting only the work function. Thus, complete energy band diagrams of the grafted Si(111) surfaces can be constructed. It was found that silicon surface engineering can be accomplished by the electrochemical grafting process using nitrobenzene and bromobenzene: silicon-derived interface gap states are chemically passivated, and the adsorbate-related surface dipole effects an increase of the electron affinity.

Journal Article↗

Comparative study of cluster- and supercell-approaches for investigating heterogeneous catalysis by electronic structure methods: tunneling in the reaction N + H --> NH on Ru(0001).

Different ruthenium clusters of various sizes are constructed with the aim to model the Ru(0001) surface with a sufficient accuracy for predicting catalysis by hybrid density functional methods (B3LYP). As an example reaction the hydrogenation step N(ads) + H(ads) --> NH(ads) from the catalytic production cycle of ammonia is chosen. A cluster of 12 ruthenium atoms is found to reproduce experimental geometries and frequencies of the various reactants on the surface satisfyingly. To get the geometries of adsorbed hydrogen qualitatively correct it is shown that second layer atoms have to be included in the model cluster. Boundary effects are believed to have minor effects on optimized geometries, whereas the effects on reaction barriers are significant. A comparison of model cluster calculations to a periodic supercell approach employing plane waves and density functional methods (RPBE) reveals similar barriers for reaction. The influence of tunneling in this reaction is determined by the small curvature tunneling approach on the electronic surfaces.

Journal Article↗