Self-assembly of long chain alkanes and their derivatives on graphite

We combine scanning tunneling microscopy (STM) measurements with ab initio calculations to study the self-assembly of long chain alkanes and related alcohol and carboxylic acid molecules on graphite. For each system, we identify the optimum adsorption geometry and explain the energetic origin of the domain formation observed in the STM images. Our results for the hierarchy of adsorbate-adsorbate and adsorbate-substrate interactions provide a quantitative basis to understand the ordering of long chain alkanes in self-assembled monolayers and ways to modify it using alcohol and acid functional groups.     

Molecular relaxation dynamics of self-assembled monolayers

Dielectric relaxation spectroscopy is used to quantify molecular motion in alkylsilane SAMs coated on porous glass over a broad temperature range, -30 to -150 degrees C. Systematic measurements using SAMs with variable coating densities allow us to determine the effect of monolayer disorder on molecular mobility in thin molecular films. A relaxation process with an activation energy of approximately 25 kJ/mol is found to dominate dynamics of SAM-chain segments near the substrate. By introducing polar CN groups at the ends of the chain, we show that the relaxation process in the monolayer canopy can be isolated and studied. This approach can be generalized to other substituent polar groups to probe localized relaxation dynamics in surface-grafted monolayer films.     

High pressure solid-solid and solid-liquid transition data for long chain alkanes

The thermal behavior, upon heating, was studied for four alkanes: eicosane, tetracosane, triacontane, and tetracontane at pressures from (10 to 150) MPa. Using a transitiometer, the calorimetric signal, pressure, and temperature were measured at a very slow heating rate to guarantee thermal equilibrium.It was found that from the compounds studied, eicosane was the only one that did not present a solid-solid transition; the other compounds show a solid-solid transition a few Kelvin below the solid-liquid transition temperature. This solid-solid transition disappears when the pressure is increased in a triple point of type: solid + solid + liquid.     

Iso-branched semifluorinated alkanes in Langmuir monolayers

A series of semifluorinated n-alkanes (SFAs), of the general formula: (CF3)2CF(CF2)6(CH2)nH (in short iF9Hn), n = 11-20 have been synthesized and employed for Langmuir monolayer characterization. Surface pressure and electric surface potential measurements were performed in addition to Brewster angle microscopy results, which enabled both direct visualization of the monolayers structure and estimation of the monolayer thickness at different stages of compression. Our paper was aimed at investigating the influence of the iso-branching of the perfluorinated fragment of the SFA molecule on the surface behavior of these molecules at the air/water interface. It occurred that iF9 SFAs with the number of carbon atoms in the hydrogenated moiety from 11 to 20 are capable of Langmuir monolayer formation. Monolayers from iF9H11 to iF9H13 are instable, whereas those formed by iF9 SFAs with longer hydrogenated chains form stable films at the free surface of water. As compared to SFAs containing perfluorinated chain in a normal arrangement, iso-branched molecules have a greater tendency to aggregate. Lower stability of monolayers formed by iF9 SFAs as compared to F10 SFAs originated from the surface nucleation observed in BAM images, even at the very initial stages of compression. The dipole moment vector for iso-branched SFAs was found to be virtually aligned with the main axis of the molecule, contrary to F10 SFAs, where the dipole moment vector was calculated to be tilted with respect to the main molecular axis. Quantitative Brewster angle microscopy measurements (relative reflectivity experiments) enabled us to monitor the changes of monolayer thickness at different stages of monolayer compression.     

Thermodynamics of mixtures formed by polycyclic aromatic hydrocarbons with long chain alkanes

Thermodynamic properties of polycyclic aromatic hydrocarbons (PAH) and long chain alkanes determine the phase behaviour of heavy petroleum fractions. Studying thermodynamic excess functions of these systems is difficult and consequently experimental data available in the literature are scarce. Enthalpies of mixing of 13 PAH-alkane systems at temperature above the melting point of both components are reported in this paper. Morever, 13 solid-liquid equilibria of the same family of systems are presented. Experimental results were correlated using S.S.F. model (Rogalski and Malanowski, 1977). Several regularities observed in the liquid-solid phase diagrams of the systems studied are discussed     

Mixing in adsorbed monolayers: perfluorinated alkanes

The mixing behavior of binary combinations of perfluoroalkanes in the bulk and in solid monolayers adsorbed at the graphite/liquid interface, determined by calorimetry and powder diffraction, is reported. The perfluoroalkanes are found to generally have a smaller excess enthalpy of mixing on the surface than in the bulk, and their relative size ratio is a good parameter to predict the mixing behavior. The excess enthalpy of mixing for perfluoroalkanes is found to be significantly smaller than that of the closely related hydrocarbons. The preferential adsorption of longer homologues over shorter ones is observed. Interestingly, the extent of preferential adsorption with relative size ratio is very similar to that of the hydrocarbons. These results can be understood in terms of the increased compressibility and lower polarizability of the perfluoroalkanes compared to hydrocarbons.     

Molecular dynamics simulations of neutral chlorpromazine in zwitterionic phospholipid monolayers

Molecular dynamics simulations have been performed to investigate the interactions between chlorpromazine (CPZ), a neuroleptic drug used in the treatment of psychiatric disorders, and dipalmitoylphosphatidylcholine (DPPC), a zwitterionic phospholipid, in Langmuir monolayers. The results from simulations carried out at different monolayer surface densities were able to capture important features of the CPZ-lipid interaction. We find that neutral (unprotonated) CPZ is preferentially located in the lipid tail region of the phospholipids, in little contact with the aqueous phase, and that the orientation of its rigid ring structure and tail conformation vary with lipid surface density. CPZ is found to promote ordering of the lipid tails for all surface densities because of a reduction in the effective surface area per lipid upon addition of the drug. Similar effects have been observed in previous studies of cholesterol in DPPC monolayers, in which lipid tails were seen to order around the solute. This feature, however, is quite distinct from what we observe for the most dense monolayer considered here (area per lipid of 50 A(2)), for which we find that CPZ promotes a local distortion of the lipid tails in its immediate vicinity and a concomitant ordering of lipid tails located further away from the solute. This view is further supported by the results obtained for an approximated nonlinear vibrational sum frequency generation susceptibility, which showed greater tail disorder close to CPZ.     

Molecular dynamics simulations of the hexagonal structure of crystals with long methylene sequences

An unconstrained polymethylene crystal, consisting of 9600 CH₂ groups, in which each CH₂ is permitted to carry out stretching, bending, and torsional motion, has been studied at various temperatures using molecular dynamics simulations. Information about the atomistic details of the dynamics and structure of these crystals is presented. A significant disorder exists at tempratures well below the melting point. Close to melting, the disordered crystals have about 2% of gauche bonds that are distributed mainly at positions close to the surface of the crystal. The major disorder consists, however, of a collective twisting of the chains leading to a hexagonal crystal structure. The hexagonal structure of the symmetric motifs is caused by a dynamic multidomain arrangement of the chains. © 1993 John Wiley & Sons, Inc.     

Molecular dynamics and phase transitions in phospholipid monolayers at liquid-liquid interfaces

Stablen-hexadecane/water andn-tetradecane/water macroemulsions containing monolayers of natural (egg yolk lecithin, EY) and synthetic (dimyristoylphosphatidylcholine, DMPC) phospholipids at liquid-liquid interfaces were prepared. The existence of the monolayers was proved by studying the reduction kinetics of a surface-active spin probe with ascorbate anions. Spin labeled derivatives of stearic acid in which the nitroxide group is locared at different distances from the polar head (5-, 12-, and 16-doxylstearic acids) were used to study the temperature dependences of the molecular ordering, rotational mobility, and local polarity in the monolayers in emulsions and also in bilayers in liposomes obtained from the same lipids. In the EY monolayers, the degree of spin probe solubilization is higher, while the order parameters (S) and rotational correlation times (τ) are lower than those in EY bilayers. The differences between these parameters for mono- and bilayers increase with an increase in the distance of the reporter group from the aqueous phase. In the DMPC monolayers, a first-order phase transition was detected by measuring the temperature dependences ofS and τ. The temperature region of the phase transition in monolayers is shifted to lower temperatures with respect to that for bilayers and depends on the nature of the oil phase. It was concluded that the phospholipid monolayers in emulsions incorporate hydrocarbon molecules, whose concentration in the DMPC monolayers increases on going from the low-temperature (gel) to the high-temperature (liquid crystal) phase. Translated fromIzvestiya Akademii Nauk. Seriya Khimicheskaya, No. 3, pp. 418–425, March, 1998.     

Structural investigation of Langmuir and Langmuir-Blodgett monolayers of semifluorinated alkanes

The behavior of a semi-fluorinated alkane (C(10)F(21)C(19)H(39)) has been studied at the air-water interface by using surface pressure and surface potential-area isotherms as well as infrared spectroscopy for the Langmuir-Blodgett films. In addition, based on the quantum chemical PM3 semiempirical approach, the dimer structure was investigated, and the double helix was found to be the most stable conformation of the dimer. The obtained results allow us to imply that the phase transition observed in the course of the surface pressure/area isotherm is due to a conformational change originating from the double helix to a vertical, single helix configuration.     

Molecular dynamics simulation of the structural configuration of binary colloidal monolayers

Molecular dynamics simulations of binary colloidal monolayers, i.e., monolayers consisting of mixtures of two different particle sizes, are presented. In the simulations, the colloid particles are located at an oil-water interface and interact via an effective dipole-dipole potential. In particular, the influence of the particle ratio on the configurations of the binary monolayers is investigated for two different relative interaction strengths between the particles, and the pair correlation functions corresponding to the binary monolayers are calculated. The simulations show that the binary monolayers can only form two-dimensional crystals for certain particle ratios, for example, 2:1, 6:1, etc., while, for example, for a particle ratio of 7:1 the monolayers are found to be in a disordered, glassy state. The calculations also reveal that in analogy to the Wigner lattice the configurations are very sensitive to the relative interaction strength between the particles but not to the absolute magnitude of the interaction strength, even when particle size effects are taken into account. Consequently, it is argued that a comparison between the calculated configurations and actual binary particle monolayer systems could provide useful information on the relative interaction strength between large and small particles. Possible mechanisms giving rise to disparities in the interaction strength between large and small particles are described briefly.     

Incorporation and exclusion of long chain alkyl halides in fatty acid monolayers at the air-water interface

Mixed monolayers of deuterated palmitic acid C(15)D(31)COOH (dPA) and deuterated stearic acid C(17)D(35)COOH (dSA) with 1-bromoalkanes of different alkyl chain length (C(4) to C(16)) at the air-water interface were investigated. Alkanes and 1-chlorohexadecane ClC(16)H(33) (ClHex) were also studied to compare the effects of the halogen on the mixed monolayers. Surface pressure-area isotherms and Brewster angle microscopy (BAM) were used to obtain the organization and phase behavior, providing a macroscopic view of the mixed monolayers. A molecular-level understanding of the interfacial molecular organization and intermolecular interactions was obtained by using vibrational sum frequency generation (SFG) spectroscopy and infrared reflection-absorption spectroscopy (IRRAS). It was found that from the alkyl halide molecules investigated 1-bromopentadecane, BrC(15)H(31) (BrPent), 1-bromohexadecane, BrC(16)H(33) (BrHex), and ClHex incorporate into the fatty acid monolayers. Alkanes of 15- and 16-carbon chain length do not incorporate into the fatty acid monolayer, which suggests that the halogen is needed for incorporation. Isotherms and spectra suggest that BrHex molecules are squeezed out, or excluded, from the fatty acid monolayer as the surface pressure is increased, while BAM images confirm this. Additionally, SFG spectra reveal that the alkyl chains of both fatty acids (dPA and dSA) retain an all-trans conformation after the incorporation of alkyl halide molecules. BAM images show that at low surface pressures BrHex does not affect the two-dimensional morphology of the dPA and dSA domains and that BrHex is miscible with dPA and dSA. We also present for the first time BAM images of BrHex deposited on a water surface, which reveal the formation of aggregates while the surface pressure remains unchanged from that of neat water.     

Nucleation and growth in the collapsed langmuir monolayers from semifluorinated alkanes

The 3D phase formation was monitored in relaxation experiments of the collapsed Langmuir monolayers of selected partially fluorinated tetracosanes, that is, F6H18, F8H16, and F10H14. To carry out these experiments, the classical method of surface manometry, such as pi-A isotherms registration and the molecular area-time dependencies, under quasi-static monitoring conditions were applied. The evolution of 3D structures at the water/air interface was observed with Brewster angle microscopy (BAM). The obtained data were interpreted according to the nucleation-growth-collision theory model. It occurred that, even though the investigated chemicals are not classical surfactants and do not possess any polar headgroup, their evolution from a 2D monolayer to 3D structures can be successfully modeled with the above-mentioned theory. The influence of the subphase temperature on the nucleation process is also discussed.     

Molecular simulation studies of the structure of phosphorylcholine self-assembled monolayers

We report a study of the structure of phosphorylcholine self-assembled monolayers (PC-SAMs) on Au(111) surfaces using both molecular mechanics (MM) and molecular dynamics (MD) simulation techniques. The lattice structure (i.e., packing densities and patterns) of the PC chains was determined first, by examining the packing energies of different structures by MM simulations in an implicit solvent. The chain orientation (i.e., antiparallel and parallel arrangements of the PC head groups) was then evaluated. The initial azimuthal angles of the PC chains were also adjusted to ensure that the optimal lattice structure was found. Finally, the two most probable lattice structures were solvated with explicit water molecules and their energies were compared after 1.5 ns of MD simulations to verify the optimal structures obtained from MM. We found that the optimal lattice structure of the PC-SAM corresponds to a radical7 x radical7 R19degree lattice structure (i.e., surface coverage of 50.4 A(2)molecule) with a parallel arrangement of the head groups. The corresponding thickness of the optimal PC-SAM is 13.4 A which is in agreement with that from experiments. The head groups of the PC chains are aligned on the surface in such a way that their dipole components are minimized. The P-->N vector of the head groups forms an angle of 82 degrees with respect to the surface normal. The tilt direction of molecular chains was observed to be towards their next nearest neighbor.     

Effect of chain length of self-assembled monolayers in dip-pen nanolithography using molecular dynamics simulations

The pattern transfer mechanism of an alkanethiol self-assembled monolayer (SAM) with different chain lengths during the dip-pen nanolithography (DPN) process and pattern characterizations are studied using molecular dynamics (MD) simulations. The mechanisms of molecular transference, alkanethiol meniscus characteristics, surface adsorbed energy, transfer number, and pattern formation are evaluated during the DPN process at room temperature. The simulation results clearly show that the molecular transfer ability in DPN is strongly dependent on the chain length. Shorter molecules have significantly better transport and diffusion abilities between the meniscus and substrate surface, and the transport period can be maintained longer. The magnitude of adsorbed energy increases with chain length, so many more molecules can be transferred to the surface when shorter molecules are used. After deposition, the magnitude of the adsorbed area and pattern height decrease with increasing chain length.     

The dynamics of long chain polymers from intensity fluctuation spectroscopy

Linear, atactic polystyrene in the molecular weight range of 5 × 10⁶ to 20 × 10⁶ has been investigated in theta and non-theta solution conditions using the technique of Rayleigh Light scattering spectroscopy. An analysis of the scattered light line profile has allowed an approximate treatment based on the complete spectral analysis to determine the first Rouse mode as well as the centre-of-mass diffusion coefficient.     

Molecular dynamics simulations of structure and dynamics of organic molecular crystals

A set of model compounds covering a range of polarity and flexibility have been simulated using GAFF, CHARMM22, OPLS and MM3 force fields to examine how well classical molecular dynamics simulations can reproduce structural and dynamic aspects of organic molecular crystals. Molecular structure, crystal structure and thermal motion, including molecular reorientations and internal rotations, found from the simulations have been compared between force fields and with experimental data. The MM3 force field does not perform well in condensed phase simulations, while GAFF, CHARMM and OPLS perform very similarly. Generally molecular and crystal structure are reproduced well, with a few exceptions. The atomic displacement parameters (ADPs) are mostly underestimated in the simulations with a relative error of up to 70%. Examples of molecular reorientation and internal rotation, observed in the simulations, include in-plane reorientations of benzene, methyl rotations in alanine, decane, isopropylcyclohexane, pyramidal inversion of nitrogen in amino group and rotation of the whole group around the C-N bond. Frequencies of such dynamic processes were calculated, as well as thermodynamic properties for reorientations in benzene and alanine. We conclude that MD simulations can be used for qualitative analysis, while quantitative results should be taken with caution. It is important to compare the outcomes from simulations with as many experimental quantities as available before using them to study or quantify crystal properties not available from experiment.