Biomolecular and amphiphilic films probed by surface sensitive X-ray and neutron scattering

In this review article we discuss the thin film analytical techniques of interface sensitive X-ray and neutron scattering applied to aligned stacks of amphiphilic bilayers, in particular phospholipid membranes in the fluid L phase. We briefly discuss how the structure, composition, fluctuations and interactions in lipid or synthetic membranes can be studied by modern surface sensitive scattering techniques, using X-rays or neutrons as a probe. These techniques offer an in-situ approach to study lipid bilayer systems in different environments over length scales extending from micrometer to nanometer, both with and without additional membrane-active molecules such as amphiphilic peptides or membrane proteins.     

Interaction of blockcopolymer micelles as probed by small-angle neutron and by small-angle X-ray scattering

 The analysis of the interaction of micelles formed by a blockcopolymer is given by means of small-angle X-ray (SAXS) and small-angle neutron scattering (SANS). The blockcopolymer consists of poly(styrene) and poly(ethylene oxide) (molecular weight of each block: 1000 g/mol) and forms well-defined micelles (weight-association number: 400, weight-average diameter: 15.4 nm) in water. The internal structure has been studied previously (Macromolecules 29:4006 (1996)) by SAXS. There it has been shown that the micelles are spherical objects. The structure factor S(q) as a function of the scattering vector q (q=(4π/λ) sin (θ/2); λ: wavelength of the radiation in the medium; θ: scattering angle) can be extracted from both sets of small-angle scattering data (SANS: q≤0.4 nm^-1; SAXS: q≤0.6 nm^-1). It is shown that particle interaction in the present system can be described by assuming soft interaction which is modeled by a square-step potential. Received: 12 May 1997 Accepted: 9 July 1997     

The hydrogen bond in ice probed by soft x-ray spectroscopy and density functional theory

We combine photoelectron and x-ray absorption spectroscopy with density functional theory to derive a molecular orbital picture of the hydrogen bond in ice. We find that the hydrogen bond involves donation and back-donation of charge between the oxygen lone pair and the O-H antibonding orbitals on neighboring molecules. Together with internal s-p rehybridization this minimizes the repulsive charge overlap of the connecting oxygen and hydrogen atoms, which is essential for a strong attractive electrostatic interaction. Our joint experimental and theoretical results demonstrate that an electrostatic model based on only charge induction from the surrounding medium fails to properly describe the internal charge redistributions upon hydrogen bonding.     

Anharmonicity in a fragile glass-former probed by inelastic neutron scattering

Within the overall understanding of the glass transition, the relationship between microscopic dynamics and fragility is still to be clarified. Decalin is an organic glass former, for which a cis/trans mixture exhibits the highest known degree of fragility in a molecular system. It is therefore an ideal system for the investigation of microscopic dynamics in fragile systems. In the present study, the microscopic dynamics of pure cis-decalin has been measured by inelastic and quasi-elastic incoherent neutron scattering, giving the single particle self-correlation function. The fast relaxation dynamics and low-frequency vibrational modes are reported here. Both in the glass and in the crystal the vibrations show strong anharmonic behavior. In the glass phase, the short time microscopic dynamics evolve rapidly with temperature, however do not exhibit any significant change around the glass transition temperature T(g). The elastic intensity provides a measure of the mean square displacements which are comparable to those measured in other fragile glass formers, in particular, the archetypical fragile glass former orthoterphenyl. It appears that the microscopic relaxation gets unfrozen, relative to T(g), at much lower temperature than in other fragile systems.     

Carbohydrate-protein recognition probed by density functional theory and ab initio calculations including dispersive interactions

Carbohydrate-protein recognition has been studied by electronic structure calculations of complexes of fucose and glucose with toluene, p-hydroxytoluene and 3-methylindole, the latter aromatic molecules being analogues of phenylalanine, tyrosine and tryptophan, respectively. We use mainly a density functional theory model with empirical corrections for the dispersion interactions (DFT-D), this method being validated by comparison with a limited number of high level ab initio calculations. We have calculated both binding energies of the complexes as well as their harmonic vibrational frequencies and proton NMR chemical shifts. We find a range of minimum energy structures in which the aromatic group can bind to either of the two faces of the carbohydrate, the binding being dominated by a combination of OH-pi and CH-pi dispersive interactions. For the fucose-toluene and alpha-methyl glucose-toluene complexes, the most stable structures involve OH-pi interactions, which are reflected in a red shift of the corresponding O-H stretching frequency, in good quantitative agreement with experimental data. For those structures where CH-pi interactions are found we predict a corresponding blue shift in the C-H frequency, which parallels the predicted proton NMR shift. We find that the interactions involving 3-methylindole are somewhat greater than those for toluene and p-hydroxytoluene.     

Hydrogen dynamics in Na3AlH6: a combined density functional theory and quasielastic neutron scattering study

Understanding the elusive catalytic role of titanium-based additives on the reversible hydrogenation of complex hydrides is an essential step toward developing hydrogen storage materials for the transport sector. Improved bulk diffusion of hydrogen is one of the proposed effects of doping sodium alanate with TiCl3, and here we study hydrogen dynamics in doped and undoped Na3AlH6 using a combination of density functional theory calculations and quasielastic neutron scattering. The hydrogen dynamics is found to be vacancy mediated and dominated by localized jump events, whereas long-range bulk diffusion requires significant activation. The fraction of mobile hydrogen is found to be small for both undoped and doped Na3AlH6, even at 350 K, and improved hydrogen diffusion as a result of bulk-substituted titanium is found to be unlikely. We also propose that previously detected low-temperature point defect motion in sodium alanate could result from vacancy-mediated sodium diffusion.     

Influence of deuteration on lithium acetate dihydrate studied by inelastic X-ray scattering, density functional theory, thermal expansion, elastic and thermodynamic measurements

The influence of deuteration on the properties of lithium acetate dihydrate has been investigated by thermal expansion measurements, ultrasound spectroscopy and calorimetry. Inelastic X-ray scattering has been employed to investigate if the low temperature structural phase transition can be detected by a change in the vibrational spectrum. Density functional theory, DFT, calculations have been employed to complement the experimental investigations. The thermal expansion coefficients and the specific heat of the deuterated compound differ significantly from the protonated form. The differences in the elastic stiffness coefficients are just above the detection limit of the technique employed here. Temperature dependent inelastic X-ray spectroscopic measurements show no significant change of the vibrational spectrum when crossing the transition temperature. The DFT calculations show that the methyl group dynamics are best described in the framework of coupled rotators of opposing methyl groups. One of the coupled rotational modes corresponds to a hindered rotator with a barrier of 15 meV, while the other is a free rotator.     

Solvent entrainment in and flocculation of asphaltenic aggregates probed by small-angle neutron scattering

While small-angle neutron scattering (SANS) has proven to be very useful for deducing the sizes and masses of asphaltenic aggregates in solution, care must be taken to account for solvation effects within the aggregates so as to not err in the characterization of these important systems. SANS measurements were performed on solutions of asphaltenes dispersed in deuterated solvents in which a broad spectrum of solute and solvent chemical compositions was represented. Fits to the scattering intensity curves were performed using the Guinier approximation, the Ornstein-Zernike (or Zimm) model, a mass-fractal model, and a polydisperse cylinder model. The mass-fractal model provided apparent fractal dimensions (2.2-3) for the aggregates that generally decreased with increasing aggregate size, indicating increased surface roughness for larger aggregates. The polydisperse cylinder model provided typical values of the particle thicknesses from 5 to 32 angstroms, the average particle radius from 25 to 125 angstroms, and approximately 30% radius polydispersity. Subsequent calculation of average aggregate molar masses suggested a range of solvent entrainment from 30 to 50% (v/v) within the aggregates that were consistent with previous viscosity measurements. Additional calculations were performed to estimate the proportion of microparticle to nanoparticle aggregates in the solutions. The results indicate that the inclusion of solvation effects is essential for the accurate determination of aggregate molecular weights and fractal dimensions.     

Acetone adsorption on ice investigated by X-ray spectroscopy and density functional theory

Using a combination of X-ray photoemission and near-edge X-ray absorption spectroscopy (NEXAFS) as well as density-functional theory (DFT), we have investigated the adsorption of acetone on ice in the temperature range from 218 to 245 K. The adsorption enthalpy determined from experiment (45 kJ mol(-1)) agrees well with the adsorption energy predicted by theory (41 to 44 kJ mol(-1)). Oxygen K-edge NEXAFS spectra indicate that the presence of acetone at the ice surface does not induce the formation of a pre-melted layer at temperatures up to 243 K. DFT calculations show that the energetically most favored adsorption geometry for acetone on ice is with the molecular plane almost parallel to the surface.     

Inverse freezing in α-cyclodextrin solutions probed by quasi elastic neutron scattering

Solutions of α-cyclodextrin, 4-methylpyridine and water undergo a reversible liquid–solid phase transition on heating (“inverse freezing”). In this paper quasi elastic neutron scattering (QENS) measurements are reported, from which the diffusive dynamics of different components in the liquid and solid phases is determined. Results imply that, in solution, α-cyclodextrin is contained in a solvation shell of 4-methylpyridine molecules, while in the crystal phase, the majority of the cell contents are immobilized on the nanosecond timescale. This information will be important in evaluating the entropy of the system in its different phases and in understanding the unusual phase transition.     

An average-of-configuration method for using Kohn-Sham density functional theory in modeling ligand-field theory

The Amsterdam Density Functional (ADF) package has been used to constrain Kohn-Sham DFT in such a fashion that a transition from KS-DFT to ligand-field theory in the form of the parametrical d(q)() model is completely well-defined. A relationship is established between the strong-field approximation of the parametrical d(2) model for the tetrahedral complexes VCl(4)(-) and VBr(4)(-) and certain fixed-orbital ADF-computed energies. In this way values for all the parameters of the d(2)() model may be computed, thus allowing the ADF results to be expressed in terms of a KS-DFT energy matrix that can be diagonalized. This means that the KS-DFT deficiency with regard to computation of nondiagonal elements has been overcome and the KS-DFT eigenenergies have become available through the KS-DFT mimicking of the ligand-field plus repulsion model. By using mutually orthogonal strong-field energy matrices, the mimicking has been further elucidated. The computed values for the empirical parameters of VCl(4)(-) and VBr(4)(-) are in good agreement with experimental data. The spectrochemical and the nephelauxetic series have been computed by including the remaining halide complexes and the quantitatively special position of F(-)() among the halides corroborated for both series.     

Structure and dynamics of halogenoethanol-water mixtures studied by large-angle X-ray scattering, small-angle neutron scattering, and NMR relaxation

To clarify the structure of solvent clusters formed in halogenoethanol-water mixtures at the molecular level, large-angle X-ray scattering (LAXS) measurements have been made at 298 K on 2,2,2-trifluoroethanol (TFE), 2,2,2-trichloroethanol (TCE), and their aqueous mixtures in the TFE and TCE mole fraction ranges of 0.002 < or = x(TFE) < or = 0.9 and 0.5 < or = x(TCE) < or = 0.9, respectively. The radial distribution functions (RDFs) for TFE-water mixtures have shown that the structural transition from inherent TFE structure to the tetrahedral-like structure of water takes place at x(TFE) approximately 0.2. In the TCE-water mixtures inherent TCE structure remains in the range of 0.5 < or = x(TCE) < or = 1. Small-angle neutron scattering (SANS) experiments have been performed on CF(3)CH(2)OD- (TFE-d(1)-) D(2)O and CF(3)CD(2)OH- (TFE-d(2)-) H(2)O mixtures in the TFE mole fraction range of 0.05 < or = x(TFE) < or = 0.8. The SANS results in terms of the Ornstein-Zernike correlation length have revealed that TFE and water molecules are most heterogeneously mixed with each other in the TFE-water mixture at x(TFE) approximately 0.15, i.e., both TFE clusters and water clusters are most enhanced in the mixture. To evaluate the dynamics of TFE and ethanol (EtOH) molecules in TFE-water and ethanol-water mixtures, respectively, (1)H NMR relaxation rates for the methylene group within alcohol molecules have been measured by using an inversion-recovery method. The alcohol concentration dependence of the relaxation rates for the TFE-water and ethanol-water mixtures has shown a break point at x(TFE) approximately 0.15 and x(EtOH) approximately 0.2, respectively, where the structural transition from alcohol clusters to the tetrahedral-like structure of water takes place. On the basis of the present results, the most likely structure models of solvent clusters predominantly formed in TFE-water and TCE-water mixtures are proposed. In addition, effects of halogenation of the hydrophobic groups on clustering of alcohol molecules are discussed from the present results, together with the previous ones for ethanol-water and 1,1,1,3,3,3-hexafluoro-2-propanol- (HFIP-) water mixtures.     

Lattice dynamics of tetrahedrally bonded boron nitride probed by inelastic X-ray scattering

We report experimental results on the lattice dynamics of zincblende and wurtzite boron nitride obtained by inelastic X-ray scattering (IXS) on polycrystalline samples. The generalized vibrational density of states and the orientation averaged longitudinal acoustic phonon dispersion are determined, and the longitudinal and shear sound speeds as well as the Debye temperature are derived. Our results are compared to ab initio lattice dynamics calculations and available elastic and thermodynamic data.     

Surface-enhanced Raman scattering of 4,4′-bipyridine on silver by density functional theory calculations

Surface-enhanced Raman scattering (SERS) of 4,4′-bipyridine (BPy) on silver foil substrate was measured using the 488, 514.5, and 1064 nm excitation lines. Density functional theory (DFT) methods were used to calculate the structure and vibrational spectra of Ag–BPy, Ag₃–BPy and Ag₄–BPy complexes with B3LYP/6-31++G(d,p)(C,H,N)/Lanl2dz(Ag) basis set. The Raman bands of BPy were assigned on the basis of the calculation of potential energy distribution. The calculated spectra of Ag–BPy and Ag₄–BPy complexes were much closer to the experimental results of BPy adsorbed on silver surface than that of Ag₃–BPy complexes. The vibrational frequencies that are sensitive to the planar or non-planar structure of BPy and to the dihedral angle of two pyridyl rings were discussed. The DFT results showed that the angles between two pyridyl rings for Ag–BPy and Ag₄–BPy were skewed by about 38.44° and 37.1°, respectively. The energy gaps of the HOMO and LUMO from DFT were 415–912 nm for BPy–Ag complexes. The relative intensities of SERS bands changed with different excitation laser lines. Thus, a chemical enhancement mechanism should play an important role in the SERS of BPy on silver substrate.     

Combined X-ray absorption spectroscopy and density functional theory examination of ferrocene-labeled peptides

A combination of soft X-ray absorption spectroscopy (XAS) measurements and StoBe density functional theory (DFT) calculations has been used to study the electronic structures of the ferrocene-labeled peptides Fc-Pro(n)-OBz (n = 1-4). Excellent agreement between the measured and the simulated data is observed in all cases, and the origin of all major spectral features was assigned. The breaking of the degeneracy of the ferrocene 3e(2u)-like unoccupied molecular orbital under the influence of a substituent attached to a Cp ring was observed experimentally. The influence of the bonding environment on the O 1s and N 1s XAS spectra was examined. A corrected assignment of one of the major features in the Fe 2p XAS spectra of ferrocene is proposed and supported by the DFT simulations, as well as the measured spectra.     

Thermal [1,5] hydrogen sigmatropic shifts in cis,cis-1,3-cyclononadienes probed by gas-phase kinetic studies and density functional theory calculations

The kinetics of gas-phase thermal [1,5] hydrogen shifts interconverting the five isomeric mono-deuterium-labeled cis,cis-1,3-cyclononadienes have been followed at four temperatures from 240 to 287 degrees C. The activation parameters found were Ea = 37.1 +/- 0.8 kcal/mol, log A = 11.6 +/- 0.3, DeltaH++ = 36.0 +/- 0.8 kcal/mol, and DeltaS++ = -9.0 +/- 0.3 eu. Density functional theory based calculations have provided geometries and energies for the ground-state cyclononadiene conformational isomers, for the transition states linking one to another, and for the transition states for [1,5] hydrogen shifts responsible for isomerizations among the five labeled dienes. A generalized formulation of the Winstein-Holness equation is presented and applied to the complex system, one that involves 11 ground-state conformers, 10 transition states separating them, and five transition states for [1,5] hydrogen shifts. The value for the empirical Ea derived from calculated mole fractions of ground-state conformers and calculated energies for specific ground-state conformers and [1,5] hydrogen shift transition structures was 37.5 kcal/mol, in excellent agreement with the experimentally obtained activation energy. The significance of conformational options in various ground states and transition structures for the [1,5] hydrogen shifts is considerable, an inference that may well have general applicability.     

X-ray and density functional theory structural study of 1,3,5,7,9-penta-tert-butylcorannulene, C40H50

The first X-ray structural characterization of an alkyl-substituted corannulene, namely, 1,3,5,7,9-penta-tert-butylcorannulene (C40H50), has been accomplished. The addition of bulky tert-butyl groups to the corannulene core flattens the bowl and affects the solid-state packing. The presence of two enantiomers, in addition to positional disorder of the C40H50 bowls in the solid-state structure, has prevented the acquisition of accurate geometric parameters of this open geodesic polyarene. Therefore, DFT calculations have been used to describe its molecular geometry and to access bond lengths, bond angles, and a bowl depth.     

Alkoxy-derived multiscale porous TiO<Subscript>2</Subscript> gels probed by ultra-small-angle X-ray scattering and small-angle X-ray scattering

Titania (TiO₂) monoliths with well-defined bicontinuous macropores and gel skeletons were prepared through the alkoxy-derived sol–gel process accompanied by spinodal decomposition, and the structural evolution during evaporation drying and heat treatment was probed by a combination of ultra-small-angle X-ray scattering and small-angle X-ray scattering. X-ray scattering profiles of wet and dried gels revealed that microporous structures related to the existence of primary particles are present in the gel skeletons at the wet stage and are preserved during drying. Additionally, it is found that the primary particles swollen in the wet condition are dried to compact aggregates to produce the smooth surface of gel skeletons. Upon heating at 400 °C, the particle–particle correlation associated with regularity of mesostructures is enhanced. From nitrogen adsorption–desorption measurements, the average pore size is less than 1 nm in the dried gel and increases to 3.1 nm by the heat treatment. Homogeneous growth of primary particles due to interparticle-polycondensation reaction is responsible for the increased size and uniform distribution of mesopores in the heat-treated gel.     

Thermal properties and mixing state of ethylene glycol-water binary solutions by calorimetry, large-angle X-ray scattering, and small-angle neutron scattering

Thermal properties and mixing states of ethylene glycol (EG)-water binary solutions in the entire mole fraction range of EG, 0 < or = x(EG) < or = 1, have been clarified by using differential scanning calorimetry (DSC), large-angle X-ray scattering (LAXS), and small-angle neutron scattering (SANS) techniques. The DSC curves obtained have shown that the EG-water solutions over the range of EG mole fraction 0.3 < or = x(EG) < or = 0.5 are kept in the supercooling state until approximately 100 K, and those in the range of 0.6 < or = x(EG) < or = 0.8 are vitrified, and those in the ranges of 0 < x(EG) < or = 0.2 and 0.9 < or = x(EG) < 1 are crystallized. The radial distribution function (RDF) for pure EG obtained from the LAXS measurements has suggested that a gauche conformation of an EG molecule is favorable in the liquid. The RDFs for the EG-water solutions have shown that the structure of the binary solutions moderately changes from the inherent structure of EG to the tetrahedral-like structure of water when the water content increases. The SANS intensities for deuterated ethylene glycol (HOCD2CD2OH) (EGd4)-water solutions at x(EG) = 0.4 and 0.6 have not been significantly observed in the temperature range from 298 to 173 K, showing that EG and water molecules are homogeneously mixed. On the other hand, the SANS intensities at x(EG) = 0.2 and 0.9 have been strengthened when the temperature decreases due to crystallization of the solutions. On the basis of all the present results, a relation between thermal properties of EG-water binary solutions and their mixing states clarified by the LAXS and SANS measurements has been discussed at the molecular level.