Protons in Non-ionic Aqueous Reverse Micelles

Isomer-sourced structure iteration methods for in silico development of inhibitors: Inducing GTP-bound NRAS-Q61 oncogenic mutations to an "off-like" state

The NRAS-mutant subset of melanoma represent some of the most aggressive and deadliest types associated with poor overall survival. Unfortunately, for more than 40 years, no therapeutic agent directly targeting NRAS mutations has been clinically approved. In this work, based on microsecond scale molecular dynamics simulations, the effect of Q61 mutations on NRAS conformational characteristics is revealed at the atomic level. The GTP-bound NRAS-Q61R and Q61K mutations show a specific targetable pocket between Switch-II and α-helix 3 whereas the NRAS-Q61L non-polar mutation category shows a different targetable pocket. Moreover, a new isomer-sourced structure iteration method has been developed for the in silico design of potential inhibitor prototypes for oncogenes. We show the possibility of a designed prototype HM-387 to target activated NRAS-Q61R and that it can gradually induce the transition from the activated NRAS-Q61R to an "off-like" state.

Interfacial solvation and slow transport of hydrated excess protons in non-ionic reverse micelles

This work employs molecular dynamics simulations to investigate the solvation and transport properties of hydrated excess protons (with a hydronium-like core structure) in non-ionic Igepal CO-520 reverse micelles of various sizes in a non-polar solvent. Multiscale Reactive Molecular Dynamics (MS-RMD) simulations were used to describe vehicular and hopping diffusion during the proton transport process. As detailed herein, an excess proton shows a marked tendency to localize in the interfacial region of micellar water pools. Slow proton transport was observed which becomes faster with increasing micellar size. Further analysis reveals that the slow diffusion of an excess proton is a combined result of slow water diffusion and the low proton hopping rate. This study also confirms that a low proton hopping rate in reverse micelles stems from the interfacial solvation of hydrated excess protons and the immobilization of interfacial water. The low water density in the interfacial region makes it difficult to form a complete hydrogen bond network near the hydrated excess proton, and therefore locks in the orientation of hydrated proton cations. The immobilization of the interfacial water also slows the relaxation of the overall hydrogen bond network.

The Size of AOT Reverse Micelles

Reverse micelles (RMs) made from water and sodium bis(2-ethylhexyl) sulfosuccinate (AOT) are commonly studied experimentally as models of aqueous microenvironments. They are small enough for individual RMs to also be studied by molecular dynamics (MD) simulation, which yields detailed insight into their structure and properties. Although RM size is determined by the water loading ratio (i.e., the molar ratio of water to AOT), experimental measurements of RM size are imprecise and inconsistent, which is problematic when seeking to understand the relationship between water loading ratio and RM size, and when designing models for study by MD simulation. Therefore, a systematic study of RM size was performed by MD simulation with the aims of determining the size of an RM for a given water loading ratio, and of reconciling the results with experimental measurements. Results for a water loading ratio of 7.5 indicate that the interaction energy between AOT anions and other system components is at a minimum when there are 62 AOT anions in each RM. The minimum is due to a combination of attractive and repulsive electrostatic interactions that vary with RM size and the dielectric effect of available water. Overall, the results agree with a detailed analysis of previously published experimental data over a wide range of water loading ratios, and help reconcile seemingly discrepant experimental results. In addition, water loss and gain from an RM is observed and the mechanism of water exchange is outlined. This kind of RM model, which faithfully reproduces experimental results, is essential for reliable insights into the properties of RM-encapsulated materials.

Mechanisms of Particle Charging by Surfactants in Nonpolar Dispersions

Electric charging of colloidal particles in nonpolar solvents plays a crucial role for many industrial applications and products, including rubbers, engine oils, toners, or electronic displays. Although disfavored by the low solvent permittivity, particle charging can be induced by added surfactants, even nonionic ones, but the underlying mechanism is poorly understood, and neither the magnitude nor the sign of charge can generally be predicted from the particle and surfactant properties. The conclusiveness of scientific studies has been limited partly by a traditional focus on few surfactant types with many differences in their chemical structure and often poorly defined composition. Here we investigate the surface charging of poly(methyl methacrylate) particles dispersed in hexane-based solutions of three purified polyisobutylene succinimide polyamine surfactants with "subtle" structural variations. We precisely vary the surfactant chemistry by replacing only a single electronegative atom located at a fixed position within the polar headgroup. Electrophoresis reveals that these small differences between the surfactants lead to qualitatively different particle charging. In the respective particle-free surfactant solutions we also find potentially telling differences in the size of the surfactant aggregates (inverse micelles), the residual water content, and the electric solution conductivity as well as indications for a significant size difference between oppositely charged inverse micelles of the most hygroscopic surfactant. An analysis that accounts for the acid/base properties of all constituents suggests that the observed particle charging is better described by asymmetric adsorption of charged inverse micelles from the liquid bulk than by charge creation at the particle surface. Intramicellar acid-base interaction and intermicellar surfactant exchange help rationalize the formation of micellar ions pairs with size asymmetry.

Molecular dynamics simulation of water/BHDC cationic reverse micelles. structural characterization, dynamical properties, and influence of solvent on intermicellar interactions

We report results obtained from molecular dynamics (MD) experiments of benzylhexadecyldimethylammonium chloride (BHDC) cationic reverse micelles (RMs). In particular we analyzed equilibrium and dynamical characteristics of water/BHDC RMs in pure benzene, at two different water/BHDC ratios (W0 = 5 and W0 = 10). The RMs appear as elliptical aggregates with eccentricities close to ∼0.9. Analysis of the different spatial correlations reveals three different spatial domains in the RMs: a water inner pool, the surfactant interface, and the external solvent. The calculated accessible surface areas for the aqueous inner cores suggest a strong penetration of solvent molecules within the micellar interface domains. Comparison between the density profiles of both RMs shows an increment of the broadness in the distributions of all species at the interface, along with an increasing overlap between the tail segments of the surfactant and benzene molecules as one considers larger micelles. For the dynamical side, the rotational characteristic time scale for the confined water was found to be 1 order of magnitude larger than that of the bulk water. A similar effect was also observed for hydrogen bond dynamics. Both retardation effects diminish with the size of the aggregate. To the estimate the influence of the external solvent on the intermicellar interactions, free energy profiles for the coalescence process between RMs of similar size in pure benzene and in a n-heptane/benzene mixture were also investigated. The results indicate that the association process is facilitated by the presence of n-heptane in the external nonpolar phase. Comparison with previous theoretical and experimental results is also carried out.

Solvation of Coumarin 480 within nano-confining environments: structure and dynamics

Equilibrium and dynamical characteristics pertaining to the solvation of the fluorescent probe Coumarin 480 within different confining environments are investigated using molecular dynamics simulations. Three kinds of confining systems are examined: (i) the cetyltrimethylammonium bromide (CTAB)/isooctane/1-hexanol/water; cationic inverse micelle (IM) (ii) a CTAB/water direct micelle (DM), and (iii) a silica-surfactant nanocomposite, comprising a cylindrical silica pore (SP) containing small amounts of water and CTAB species adsorbed at the pore walls. The solvation structures in the three environments differ at a qualitative level: an exchange between bulk- and interface-like solvation states was found in the IM, whereas in the DM, the solvation states of the probe are characterized by its embedding at the interface, trapped among the surfactant heads and tails. Within the SP structure, the coumarin exhibits alternations between internal and interfacial solvation states that occur on a ∼20 ns time scale and operate via 90° rotations of its molecular plane. The solvation responses of the environment following a vertical excitation of the probe are also investigated. Solvation times resulted between 2 and 1000 times longer than those found in bulk water, with a fast-to-slow trend IM→DM→SP, which can be interpreted in terms of the solvation structures that prevail in each case.

Signatures of nanoconfinement on the linear and nonlinear vibrational spectroscopy of a model hydrogen-bonded complex dissolved in a polar solvent

The one-dimensional IR (1D-IR) absorption and IR pump-probe spectra of a hydrogen stretch in a model hydrogen-bonded complex dissolved in a polar solvent confined in spherical hydrophobic cavities of different sizes were simulated using ground-state mixed quantum-classical dynamics. Due to a thorough analysis of key properties of the complex and solvent from equilibrium trajectory data, we were able to gain insight into the microscopic details underlying the spectra. Both the 1D-IR and IR pump-probe spectra manifested the effects of confinement on the relative stabilities of the covalent and ionic forms of the complex through pronounced changes in their peak intensities and numbers. However, in contrast to the 1D-IR spectra, the time-resolved pump-probe spectra were found to be uniquely sensitive to the changes in the molecular dynamics as the cavity size is varied. In particular, it was found that the variations in the time evolutions of the peak intensities in the pump-probe spectra reflect the differences in the solvation dynamics associated with the various forms of the complex in different locations within the cavities. The ability to detect these differences underscores the advantage of using pump-probe spectroscopy for studying nanoconfined systems.

Computational study of the one- and two-dimensional infrared spectra of a proton-transfer mode in a hydrogen-bonded complex dissolved in a polar nanocluster

The signatures of nanosolvation on the one- and two-dimensional (1D and 2D) IR spectra of a proton-transfer mode in a hydrogen-bonded complex dissolved in polar solvent molecule nanoclusters of varying size are elucidated by using mixed quantum-classical molecular dynamics simulations. For this particular system, increasing the number of solvent molecules successively from N=7 to N=9 initiates the transition of the system from a cluster state to a bulk-like state. Both the 1D and 2D IR spectra reflect this transition through pronounced changes in their peak intensities and numbers, but the time-resolved 2D IR spectra also manifest spectral features that uniquely identify the onset of the cluster-to-bulk transition. In particular, it is observed that in the 1D IR spectra, the relative intensities of the peaks change such that the number of peaks decreases from three to two as the size of the cluster increases from N=7 to N=9. In the 2D IR spectra, off-diagonal peaks are observed in the N=7 and N=8 cases at zero waiting time, but not in the N=9 case. It is known that there are no off-diagonal peaks in the 2D IR spectrum of the bulk version of this system at zero waiting time, so the disappearance of these peaks is a unique signature of the onset of bulk-like behavior. Through an examination of the trajectories of various properties of the complex and solvent, it is possible to relate the emergence of these off-diagonal peaks to an interplay between the vibrations of the complex and the solvent polarization dynamics.

The conundrum of pH in water nanodroplets: sensing pH in reverse micelle water pools

In aqueous environments, acidity is arguably the most important property dictating the chemical, physical, and biological processes that can occur. However, in a variety of environments where the minuscule size limits the number of water molecules, the conventional macroscopic description of pH is no longer valid. This situation arises for any and all nanoscopically confined water including cavities in minerals, porous solids, zeolites, atmospheric aerosols, enzyme active sites, membrane channels, and biological cells and organelles. To understand pH in these confined spaces, we have explored reverse micelles as a model system that confines water to nanoscale droplets. At the appropriate concentrations, reverse micelles form in ternary or higher order solutions of nonpolar solvent, polar solvent (usually water), and amphipathic molecules, usually surfactants or lipids. Measuring the acidity, or local density of protons, commonly known as pH, of these nanoscopic water pools in reverse micelles is challenging. First, because the volume of the water in these reverse micelles is so minute, we cannot probe its proton concentration using traditional pH meters. Second, the traditional concept of pH breaks down in a nanosystem that includes fewer than 10(7) water molecules. Third, the interpretation of results from studies attempting to measure acidity or pH in these environments is nontrivial because the conditions fall outside the accepted IUPAC definition for pH. Researchers have developed experimental methods to measure acidity indirectly using various spectroscopic probe molecules. Most measurements of intramicellar pH have employed optical spectroscopy of organic probe molecules containing at least one labile proton coupled to electronic transitions to track pH changes in the environment. These indirect measurements of the pH reflect the local environment sensed by the probe and are complicated by the probe location within the sample and how that location affects properties such as pK(a). Thus, interpretation of the measurement in the highly heterogeneous reverse micellar environment can be challenging. Organic pH probes can often produce ambiguous acidity measurements, because the probes can readily associate with or penetrate the micellar interface. Protonation can also dramatically change the polarity of the probe and shift the probe's location within the system. As a result, researchers have developed highly charged pH-sensitive probes such as hydroxypyrene trisulfonate, vanadate or phosphate that reside in the water pool both before and after protonation. For inorganic probes researchers have used multinuclear NMR spectroscopy to directly measure conditions in the water droplet. Regardless of the probe and method employed, reverse micellar studies include many implicit assumptions. All reported pH measurements comprise averages of molecular ensembles rather than the response of a single molecule. Experiments also represent averages of the dynamic reverse micelles over the time of the experiments. Thus the experiments report results from an average molecular position, pK(a), ionic strength, viscosity, etc. Although the exact meaning of pH in nanosized waterpools challenges scientific intuition and experimental data are non-trivial to interpret, continued experimental studies are critical to improve understanding of these nanoscopic water pools. Experimental data will allow theorists the tools to develop the models that further explore the meaning of pH in nanosized environments.

Acidification of reverse micellar nanodroplets by atmospheric pressure CO2

Water absorption of atmospheric carbon dioxide lowers the solution pH due to carbonic acid formation. Bulk water acidification by CO(2) is well documented, but significantly less is known about its effect on water in confined spaces. Considering its prominence as a greenhouse gas, the importance of aerosols in acid rain, and CO(2)-buffering in cellular systems, surprisingly little information exists about the absorption of CO(2) by nanosized water droplets. The fundamental interactions of CO(2) with water, particularly in nanosized structures, may influence a wide range of processes in our technological society. Here results from experiments investigating the uptake of gaseous CO(2) by water pools in reverse micelles are presented. Despite the small number of water molecules in each droplet, changes in vanadium probes within the water pools, measured using vanadium-51 NMR spectroscopy, indicate a significant drop in pH after CO(2) introduction. Collectively, the pH-dependent vanadium probes show CO(2) dissolves in the nanowater droplets, causing the reverse micelle acidity to increase.

Ultrafast dynamics in reverse micelles

Recent advances in ultrafast laser technology have spurred investigations of microheterogeneous solutions. In particular, researchers have explored details of reverse micelles (RMs), which present isolated droplets of polar solvent sequestered from a continuous nonpolar phase by a surfactant layer. This review explores recent studies utilizing a variety of ultrafast laser techniques to uncover details about structure and dynamics in various RMs. Using ultrafast vibrational spectroscopy, researchers have probed hydrogen-bond dynamics and vibrational energy relaxation in RMs. These studies have developed our understanding of reverse micellar structure, identifying varying water environments in the RMs. In a plethora of experiments employing probe molecules, researchers have explored the confined environment presented by RMs and their impact on a range of chemical reactions. These studies have shown that confinement, rather than the specific interactions with surfactants, is an important factor determining the impact of the reverse micellar environment on the chemistry.

Dynamics of water nanodroplets and aqueous protons in non-ionic reverse micelles

We present a study of the microscopic dynamics of water trapped in reverse non-ionic micelles by means of a series of molecular dynamics simulations. The analysis of the effects of micellar confinement on spectroscopical properties of an excess proton has also been considered. Our micelles were microemulsions made with the neutral surfactant diethylene glycol monodecyl ether [CH(3)(CH(2))(11)(OC(2)H(4))(2)OH]. Simulation experiments including the proton species were performed using a multistate empirical valence bond Hamiltonian model. Diffusion of water in the micelle is markedly slower than that in the bulk liquid, in the same fashion as happens with reorientational dynamics. Spectral densities of hydrogens revealed a blue-shift of the OH-stretching vibration together with a split of the main band into two components. Absorption lineshapes of the solvated proton in the vicinity of the internal surface of the micelle indicate the coexistence of Eigen-like and Zundel-like structures and a tendency to red-shifting (compared to the aqueous unconstrained excess proton case) of the two relevant spectral bands (around 2000 and 2500 wavenumbers) mainly due to the slower dynamics of proton vibrations in water near interfaces.