Molecular self-assembly of substituted terephthalic acids at the liquid/solid interface: investigating the effect of solvent.

Self-assembly of three related molecules - terephthalic acid and its hydroxylated analogues - at liquid/solid interfaces (graphite/heptanoic acid and graphite/1-phenyloctane) has been studied using a combination of scanning tunnelling microscopy and molecular mechanics and molecular dynamics calculations. Brickwork-like patterns typical for terephthalic acid self-assembly have been observed for all three molecules. However, several differences became apparent: (i) formation or lack of adsorbed monolayers (self-assembled monolayers formed in all systems, with one notable exception of terephthalic acid at the graphite/1-phenyloctane interface where no adsorption was observed), (ii) the size of adsorbate islands (large islands at the interface with heptanoic acid and smaller ones at the interface with 1-phenyloctane), and (iii) polymorphism of the hydroxylated terephthalic acids' monolayers, dependent on the molecular structure and/or solvent. To rationalise this behaviour, molecular mechanics and molecular dynamics calculations have been performed, to analyse the three key aspects of the energetics of self-assembly: intermolecular, substrate-adsorbate and solvent-solute interactions. These energetic characteristics of self-assembly were brought together in a Born-Haber cycle, to obtain the overall energy effects of formation of self-assembled monolayers at these liquid/solid interfaces.

Thermodynamics of halogen bonded monolayer self-assembly at the liquid-solid interface.

Monolayer self-assembly of a hexabrominated, three-fold symmetric aromatic molecule is studied at the heptanoic acid-graphite interface. Thermodynamical insights are obtained from an adapted Born-Haber cycle that is utilized to derive the overall enthalpy change including solvent effects. Comparison with theoretical entropy estimates suggests a minor influence of solvation.

Thermodynamics of 4,4'-stilbenedicarboxylic acid monolayer self-assembly at the nonanoic acid-graphite interface.

A direct calorimetric measurement of the overall enthalpy change associated with self-assembly of organic monolayers at the liquid-solid interface is for most systems of interest practically impossible. In previous work we proposed an adapted Born-Haber cycle for an indirect assessment of the overall enthalpy change by using terephthalic acid monolayers at the nonanoic acid-graphite interface as a model system. To this end, the sublimation enthalpy, dissolution enthalpy, the monolayer binding enthalpy in vacuum, and a dewetting enthalpy are combined to yield the total enthalpy change. In the present study the Born-Haber cycle is applied to 4,4'-stilbenedicarboxylic acid monolayers. A detailed comparison of these two aromatic dicarboxylic acids is used to evaluate and quantify the contribution of the organic backbone for stabilization of the monolayer at the nonanoic acid-graphite interface.

Theoretical study of charge recombination at the TiO2-electrolyte interface in dye sensitised solar cells.

The charge recombination reaction from the semiconductor (TiO(2)) conduction band to electron accepting electrolytes (I(2), I(2)(-), I(3)(-)) in dye-sensitised solar cells is investigated theoretically. The non-adiabatic theory of electron transfer has been adapted to compute the charge transfer rate measured in different experimental settings (namely with and without external illumination). In both cases we are able to provide an atomic level description of the charge recombination to the electrolyte (CRE), which is in good agreement with the experimental data available. The model employs a detailed density-functional theory (DFT) description of the semiconductor-electrolyte interface and the internal reorganization energy. A continuum dielectric model is used to evaluate the external component of the reorganization energy due to the solvent degrees of freedom. The intrinsic limitations of DFT are kept to a minimum by taking two key energetic parameters (the conduction band edge and the reaction energy) from the experiments. The proposed methodology correctly reproduces (i) the ratio between CRE rate to iodine and triiodide in dark, (ii) the absolute CRE rate to triiodide in dark, and (iii) the absolute CRE rate to I(2)(-) under illumination.

Modelling the manipulation of C60 on the Si001 surface performed with NC-AFM.

We present a theoretical model of manipulation of the C(60) molecule on the Si(001) surface with a non-contact atomic force microscope (NC-AFM). The model relies on the lowering of the energy barrier for the C(60) manipulation due to the interaction of the C(60) with an AFM tip and the subsequent thermal movement of the molecule over this barrier. We performed numerical simulations of these energy barriers for a series of tip positions relative to the molecule to show how the barriers change with the tip position. The values of these barriers are then used in kinetic Monte Carlo simulations to estimate the probability of the C(60) movement for different tip positions and temperatures. Virtual atomic force microscope simulations, which include the kinetic Monte Carlo treatment of the C(60) movement, are then performed to describe in real time the process of movement of the C(60) molecule during an NC-AFM scan. Our results demonstrate that manipulation of the C(60) molecule, which is covalently bound to the surface, is possible with NC-AFM, even though there is no continuous tip-molecule contact, which is known to be a necessary requirement for the C(60) manipulation with scanning tunnelling microscopy. We show that the manipulation event can be identified in real NC-AFM experiments as an abrupt change in the distance of the tip closest approach (topography), and as spikes in the frequency shift and dissipation signals.

Theoretical modelling of tip effects in the pushing manipulation of C(60) on the Si(001) surface.

We present the results of our theoretical studies on the repulsive (pushing) manipulation of a C(60) molecule on the Si(001) surface with several scanning tunnelling microscopy tips. We show that, for silicon tips, tip-C(60) bonds are formed even with tips that do not initially have dangling bonds, and this tip-C(60) interaction drives the manipulation of the molecule. The details of the atomic structure of the tip and its position relative to the molecule do not have a significant effect on the mechanism and the sequence of adsorption configurations during the pushing manipulation of C(60) along the trough, where the trough itself provides a guiding effect. The pushing manipulation is thus a very robust process that occurs largely independently of the tip structure. On the other hand, the pushing manipulation across an Si-Si dimer row into the neighbouring trough proceeds in a more complex way, with tip deformation and detachment more likely to occur. We demonstrate the role of tip deformation and tip-molecule bond rearrangement in the continuous manipulation of the molecule. Finally, we calculate and analyse the forces acting on the tip during manipulation and identify characteristic patterns.

Theoretical study of melamine superstructures and their interaction with the Au(111) surface.

Using a systematic method, based on considering all possible hydrogen bond connections between two melamine molecules, and ab initio density functional theory (DFT) calculations, we consider the possible planar superstructures that the molecules can form in two dimensions. This is relevant to the assembly of melamine on flat metal surfaces with a small lateral corrugation of the molecule-surface interaction energy. The structures considered include small clusters as well as periodic structures, such as one-dimensional filaments and two-dimensional monolayers. Then, the interaction of melamine structures with the Au(111) surface is considered in detail to elucidate the possible effect of the surface on the formed structures, including the influence of the van der Waals interaction, which is not taken into account in DFT-based methods. The problem of commensurability between the lattices of the gas-phase monolayer and of the substrate is also discussed.