Apolar Chains Research Articles

Elucidating effect of dicarboxylate anions on nanostructural organization of dicationic imidazolium-based ionic liquids

This work reports the influence of the dicarboxylate anion (oxalate, malonate succinate, glutarate, adipate, pimelate) on the aggregation process of ionic liquids derived from 1,8-bis(3-methylimidazolium-1-yl)-octane [C8(MIM)2] and 1,10-bis(3-methylimidazolium-1-yl)-decano [C10(MIM)2] in water solution. The aggregation behavior was investigated using electrical conductivity, nuclear magnetic resonance, transmission electron microscopy, atomic force microscopy, and zeta potential. Results showed that the aggregates have a wormlike morphology. The CAC values for [C10(MIM)2]2+ increase in the following order: [Oxa] < [Suc] < [Mal] < [Glu] < [Adi] < [Pim], which indicates a direct relationship with the increase in the number of methylene groups of the dianion spacer. In the case of [C8(MIM)2]2+, there was no relationship between the CAC value and the anion’s alkyl spacer chain length, which was attributed to the flexibility and complexity of the dynamic behavior of the aggregates. Anions on the nanorganized structures of micelles are oriented in the way that carboxylate groups are at the aggregate surface (forming hydrogen bonds with cationic heads and water), and apolar alkyl chains are in the hydrophobic (downshift) region of the micelles making an arrangement where they also adopt the bend conformation of alkyl chains. The aggregation of dicationic ILs with dicarboxylate anions is a very innovative topic of investigation in the literature, and more research on different structures, system conditions, and techniques could be done to gain a better understanding of these systems.

Spatial organization of the ions at the free surface of imidazolium-based ionic liquids

HypothesisExperimental information on the molecular scale structure of ionic liquid interfaces is controversial, giving rise to two competing scenarios, namely the double layer-like and “chessboard”-like structures. This issue can be resolved by computer simulation methods, at least for the underlying molecular model. Systematically changing the anion type can elucidate the relative roles of electrostatic interactions, hydrophobic (or, strictly speaking, apolar) effects and steric restrictions on the interfacial properties. SimulationsMolecular dynamics simulation is combined with intrinsic analysis methods both at the molecular and atomic levels, supplemented by Voronoi analysis of self-association. FindingsWe see no evidence for the existence of a double-layer-type arrangement of the ions, or for their self-association at the surface of the liquid. Instead, our results show that cation chains associate into apolar domains that protrude into the vapour phase, while charged groups form domains that are embedded in this apolar environment at the surface. However, the apolar chains largely obscure the cation groups, to which they are bound, while the smaller and more mobile anions can more easily access the free surface, leading to a somewhat counterintuitive net excess of negative charge at the interface. Importantly, this excess charge could only be identified by applying intrinsic analysis.

(Invited) Limitation of Molecular Twisting: Upgrading a Donor-Acceptor Dye to Drive H2 Evolution

Dye-sensitized photoelectrochemical cells (DSPECs) have attracted wide attention to convert solar energy into high-energy chemicals. A DSPEC consists of a photoanode performing the oxidation half reaction and aphotocathode performing the reduction half reaction. In this presentation I will demonstrate how the performance of a dye-sensitized photocathode can be manipulated to enhance performance and even produce hydrogen! We have used a state- of-the-art dye (D-A P1 dye) on the surface of optimized NiO, and co-adsorbed myristic acid (Tetradecanoic Acid), which has a carboxyl anchoring group and a long apolar alkyl chain. Time-resolved photoluminescence and Density Functional Theory studies show that twisting lowers the energy levels of the photoexcited D-A dye, while twisting is inhibited in case myristic acid is co-adsorbed on the NiO surface. The presence of myristic acid also favors light-induced charge separation, as apparent from femtosecond transient absorption, and increases the apparent photocurrent. Very interestingly, only in the presence of myristic acid, light-induced H2 evolution is observed in aqueous media, despite the absence of a H2 evolution catalyst. We assign the H2 generation to a synergetic effect of inhibited twisting of the D-A dye radical anion increasing its electrochemical potential, combined with charge transfer and conversion of H+ on the hydroxylated NiO surface. Our work illustrates the importance of understanding effects of photoinduced intramolecular twisting and demonstrates that control thereof offers a simple design approach for efficient solar fuel devices.

Oleochemical carbonates: A comprehensive characterization of an emerging class of organic compounds

Dialkyl carbonates (DAC) with short-medium alkyl length - oleochemical carbonates – are attracting attention because of their appealing properties, including low viscosity, flammability, toxicity, environmental impact and wide range of applications: lubricants, personal care, fuel additives etc. However, not much is known concerning their chemical physical properties and, more importantly, on the nature of microscopic correlations that eventually determine bulk performances. In view of this paucity, we present a large exploration of a series of chemical physical properties of a set of DACs ranging from dimethyl up to didodecyl carbonate. This study extends previously determined databases, thus providing a complete picture of the temperature dependence of chemical physical properties around room temperature. Furthermore, we explored the microscopic morphology of DACs, by synergic exploitation of X-ray scattering and Molecular Dynamics techniques. These tools allow detecting the existence of a distinct degree of mesoscopic spatial segregation between polar carbonate moieties and apolar alkyl chains domains. The role of first neighbour carbonate moieties in driving the corresponding molecules towards weak hydrogen bonding interactions and alkyl chain alignment is described. Such an effect is related to the overall mesoscopic segregation of alkyl tails that isolate small droplets formed by stacked carbonate groups. Such a highly compartmentalised morphology can explain and potentially suggest applications of DACs in fields as relevant as separation, catalysis, lubrication etc.

Lipid Interactions Between Flaviviruses and Mosquito Vectors.

Mosquito-borne flaviviruses, such as dengue (DENV), Zika (ZIKV), yellow fever (YFV), West Nile (WNV), and Japanese encephalitis (JEV) viruses, threaten a large part of the human populations. In absence of therapeutics and effective vaccines against each flaviviruses, targeting viral metabolic requirements in mosquitoes may hold the key to new intervention strategies. Development of metabolomics in the last decade opened a new field of research: mosquito metabolomics. It is now clear that flaviviruses rely on mosquito lipids, especially phospholipids, for their cellular cycle and propagation. Here, we review the biosyntheses of, biochemical properties of and flaviviral interactions with mosquito phospholipids. Phospholipids are structural lipids with a polar headgroup and apolar acyl chains, enabling the formation of lipid bilayer that form plasma- and endomembranes. Phospholipids are mostly synthesized through the de novo pathway and remodeling cycle. Variations in headgroup and acyl chains influence phospholipid physicochemical properties and consequently the membrane behavior. Flaviviruses interact with cellular membranes at every step of their cellular cycle. Recent evidence demonstrates that flaviviruses reconfigure the phospholipidome in mosquitoes by regulating phospholipid syntheses to increase virus multiplication. Identifying the phospholipids involved and understanding how flaviviruses regulate these in mosquitoes is required to design new interventions.

25-hydroxycholesterol interacts differently with lipids of the inner and outer membrane leaflet – The Langmuir monolayer study complemented with theoretical calculations

25–hydroxycholesterol (25−OH), a molecule with unusual behavior at the air/water interface, being anchored to the water surface alternatively with a hydroxyl group at C(3) or C(25), has been investigated in mixtures with main membrane phospholipids (phosphatidylcholines – PCs, and phosphatidylethanolamines – PEs), characteristic of the outer and inner membrane leaflet, respectively. To achieve this goal, the classical Langmuir monolayer approach based on thermodynamic analysis of interactions was conducted in addition to microscopic imaging of films (in situ with BAM and after transfer onto mica with AFM), surface–sensitive spectroscopy (PM–IRRAS), as well as theoretical calculations. Our results show that the strength of interactions is primarily determined by the kind of polar group (strong, attractive interactions leading to surface complexes formation were found to occur with PCs while weak or repulsive ones with PEs). Subsequently, the saturation of phosphatidylcholines apolar chain(s) was found to be crucial for the structure of the formed complexes. Namely, saturated PC (DPPC) does not have preferences regarding the orientation of 25−OH molecule in surface complexes (which results in the two possible 25−OH arrangements), while unsaturated PC (DOPC) enforces one specific orientation of oxysterol (with C(3)−OH group). Our findings suggest that the transport of 25−OH between inner and outer membrane leaflet can proceed without orientation changes, which is thermodynamically advantageous. This explains results found in real systems showing significant differences in the rate of transmembrane transport of 25−OH and the other chain–oxidized oxysterols compared to their ring–oxidized analogues or cholesterol.

Energetics and structures of the tilted phases of fatty acid Langmuir monolayers.

Langmuir monolayers are monomolecular deep films composed of amphiphilic molecules which are typically confined to a water/air interface in a bi-dimensional structure. Due to the important applications in many research areas, they have been studied for many years. Their phase diagrams present several condensed phases, showing untilted or tilted structures at low values of surface pressure. In this paper, we present a novel density functional study on tilted phases of different fatty acid Langmuir monolayers. By means of this study, a further understanding of the physical chemistry properties and the nature of the formation of tilted monolayers can be achieved. Our calculations reveal that, regardless of the number of carbon atoms which form the apolar chain, the transversal (or conventional in the case of untilted phases) unit cell shows similar dimensions, ca. 4.9 × 6.8 Å, which is in fair agreement with the range of the observed data. The energy variation of the unit cell as a function of the inclination of the molecules, reveals an abrupt increase in values larger than 45° and 36° for NN- and NNN-tilt, respectively, in fair agreement with the experimental observation of L2h (NN) and L2' (NNN) phases of fatty acids. All of the fatty acids explored (from 10 to 19 carbon atoms) yield similar results. Finally, the energetics and structural changes of the monolayer along the variation of the area per molecule, obtained by enlarging in a-, b- or both axes of the untilted unit cell, have been explored. This study reveals that the untilted phases are energetically more stable at low values of area per molecule (high surface concentration), as it is expected. When the area per molecule values are increased, tilted phases (along NN or NNN-direction) with b/a ratio typical of herringbone (HB) or pseudo-herringbone (PHB) structures are found in the lowest energy configurations, which depend on how the distortion of the untilted unit cell is performed. For example, HB structures are the most stable when the molecules tilt along the enlarged axis of the untilted unit cell (a or b), meanwhile unit cell structures characteristic of PHB configurations occur in the opposite cases and at larger values of the area per molecule (low surface concentrations). All these predictions are in good agreement with the GIXD observations of the different phases of the phase diagram of fatty acid Langmuir monolayers.

Core-Size Dispersity Dominates the Self-Assembly of Polymer-Grafted Nanoparticles in Solution

In polymer-grafted nanoparticles (PGN), covalent tethering of apolar polymer chains to a polar inorganic nanoparticle core induces the formation of self-assembled aggregates. Since the nature of th...

The effect of protonation in a family of peptide based gemini amphiphiles on the interaction in Langmuir films

The behavior and properties of four new gemini amphiphilic pseudopeptides (GAPs) were studied in monomolecular films formed at the air-water interface using surface pressure measurements, polarization-modulation infrared reflection-absorption spectroscopy as well as computational modeling. The molecules used differed in the structure of the polar heads containing amino and amide groups and in the number of apolar hydrocarbon chains. To better understand the role of the polar heads in the intra- and intermolecular interaction, the experiments were performed at different pH values of the water subphase.The experimental and theoretical results show that the interaction between the molecules forming monolayers change in function of pH; these changes depend on the pseudopeptide used. We propose that the effects observed are due to the differences in the protonation state of the polar heads in the four molecules. This outcome may give a handle on preparation of pH-dependent supramolecular structures based on tailor-made GAPs.

Influence of the hydrophobic domain on the self-assembly and hydrogen bonding of hydroxy-amphiphiles.

The amphiphiles 1-octadecanol (octadecyl (stearyl) alcohol, ODA) and 1,2-dioleoylglycerol (DOG) were studied by IR spectroscopy and X-ray diffraction combined with multiscale theoretical modeling. The computations allowed us to rationalize the experimental findings and deduce the supramolecular structure of the formed assemblies while providing a fairly detailed insight into their hydrogen-bonding patterns. IR spectra revealed that the amphiphilic assemblies dramatically differ in structural order and hydrogen-bond strength, both being high in ODA and low in DOG. On the other hand, both compounds demonstrated common features, namely a splitting of the IR bands arising from O-H stretching vibrations (νOH) as well as complete hydrophobicity. However, the observed phenomena have different origins in the two amphiphiles. While the νOH split in ODA occurs due to a vibrational coupling along the string of inter-layer O-HO hydrogen bonds, in DOG it arises from different types of hydrogen bonds (intra- and intermolecular). The hydrophobicity of ODA stems from the very tight O-HO hydrogen bonding network connecting the opposite monolayers in a densely packed tilted crystalline phase (Lc'), whereas in DOG it occurs because the polar sites are locked inside reverted micellar-like assemblies. ODA and DOG illustrate that, in the assemblies of amphiphilic hydroxyl compounds, hydrogen bonds can be formed in a wide structural latitude, which is primarily governed by the chemical nature of apolar chains. Such a wide structural variability of OH-involving hydrogen bonds can be essential for the biological functioning of relevant molecules, such as glycolipids, acylglycerols, and, potentially, glycoproteins and carbohydrates.

Metronidazole within phosphatidylcholine lipid membranes: New insights to improve the design of imidazole derivatives

Metronidazole is a imidazole derivative with antibacterial and antiprotozoal activity. Despite its therapeutic efficacy, several studies have been developing new imidazole derivatives with lower toxicity. Considering that drug-membrane interactions are key factors for drugs pharmacokinetic and pharmacodynamic properties, the aim of this work is to provide new insights into the structure–toxicity relationship of metronidazole within phosphatidylcholine membranes. For that purpose, lipid membrane models (liposomes and monolayers) composed of dipalmitoylphosphatidylcholine were used. Experimental techniques (determination of partition coefficients and Langmuir isotherm measurements) were combined with molecular dynamics simulations. Different pHs and lipid phases were evaluated to enable a better extrapolation for in vivo conditions. The partition of metronidazole depends on the pH and on the biphasic system (octanol/water or DPPC/water system). At pH 1.2, metronidazole is hydrophilic. At pH 7.4, metronidazole disturbs the order and the packing of phospholipids. For this toxic effect, the hydroxyl group of the side chain of metronidazole is crucial by interacting with the water embedded in the membrane and with the phosphate group and the apolar chains of phospholipids.

Structural and Mechanical Properties of Supramolecular Polyethylenes

Thymine (Thy) or 2,6-diamino-1,3,5-triazine (DAT) end-groups were efficiently installed on well-defined polyethylenes (PEs) synthesized by catalyzed chain growth (CCG) polymerization. Mono- and bifunctional low-molar mass PEs (1200–1500 g·mol–1) formed lamellar morphologies with long-range order upon cooling from the melt due to microphase segregation of polar supramolecular units and apolar PE chains. Crystallization of Thy functions into rigid planes at 180 °C induced very long-range lamellar order in Thy-functionalized PEs and dramatically suppressed PE crystallization (from 67% to 19%). DAT-functionalized PEs, whose end-groups do not crystallize, showed slightly reduced PE crystallinity (62%) and less long-range order, since assembly was instead driven by PE crystallization. Mechanical analysis of the bifunctional PEs demonstrated high moduli roughly proportional to PE crystallinity but low strains at break due to the absence of chain entanglements and/or tie chains between crystalline lamellae. This ...

Surface structure evolution in a homologous series of ionic liquids

Interfaces of room temperature ionic liquids (RTILs) are important for both applications and basic science and are therefore intensely studied. However, the evolution of their interface structure with the cation's alkyl chain length [Formula: see text] from Coulomb to van der Waals interaction domination has not yet been studied for even a single broad homologous RTIL series. We present here such a study of the liquid-air interface for [Formula: see text], using angstrom-resolution X-ray methods. For [Formula: see text], a typical "simple liquid" monotonic surface-normal electron density profile [Formula: see text] is obtained, like those of water and organic solvents. For [Formula: see text], increasingly more pronounced nanoscale self-segregation of the molecules' charged moieties and apolar chains yields surface layering with alternating regions of headgroups and chains. The layering decays into the bulk over a few, to a few tens, of nanometers. The layering periods and decay lengths, their linear [Formula: see text] dependence, and slopes are discussed within two models, one with partial-chain interdigitation and the other with liquid-like chains. No surface-parallel long-range order is found within the surface layer. For [Formula: see text], a different surface phase is observed above melting. Our results also impact general liquid-phase issues like supramolecular self-aggregation and bulk-surface structure relations.

Influence of Hofmeister I- on Tuning Optoelectronic Properties of Ampholytic Polythiophene by Varying pH and Conjugating with RNA.

A significant tuning of optoelectronic properties of polythiophene (PT) chains due to Hofmeister iodide (I-) ion is demonstrated in ampholytic polythiophene [polythiophene-g-poly{(N,N,N-trimethylamino iodide)ethyl methacrylate-co-methacrylic acid}, APT] at different pHs. In acidic medium, the absorption and emission signals of PT chromophore exhibit appreciable blue shift in the presence of I- as counteranion only. The cooperative effect of undissociated -COOH and quaternary ammonium groups immobilize I- near the apolar PT chain causing threading of grafted chains and hence twisting of the backbone attributing to the blue shift. As medium pH is increased, dethreading of the PT backbone occurs due to ionization of -COOH group, releasing quencher iodide ions from the vicinity of the PT chains resulting in a red shift in absorption and a sharp hike in fluorescence intensity (390 times) for an increase of excitons lifetime. With an increase of pH, morphology changes from a multivesicular aggregate with vacuoles to smaller size vesicles and finally to nanofibrillar network structure. Dethreading is also found when APT interacts with RNA showing a significant hike of fluorescence (22 times) for displacing iodide ions forming a nanofibrillar network morphology. Threading and dethreading also affect the resistance, capacitance, and Warburg impedance values of APT. Molecular dynamics simulation of a model APT chain in a water box supports the threading at lower pH where the iodide ions pose nearer to the PT chain than that at higher pH causing dethreading. So the influence of Hofmeister I- ion is established for tuning the optoelectronic properties of a novel PT based polyampholyte by changing pH or by conjugating with RNA.

Toward Truly Water‐Soluble Rodlike Polyelectrolytes: Synthesis of Poly(para‐phenylenes) Wrapped in Ethylene Oxideand Amino Side Groups

Suzuki and Yamamoto cross‐coupling protocols are applied to synthesize water‐soluble poly(p‐phenylene) (PPP) derivatives decorated with oligoethylene oxide (OEO) and tertiary amino side groups. It is shown that constitutionally well‐defined PPPs can be obtained having degrees of polycondensation, P n, of 30–60. In some cases, however the heteroatoms in the side chains affect the monomer synthesis and prevent proper chain growth through coordination of metal species present in the reaction medium. It is shown that essentially uncharged but still water‐soluble PPPs result if (i) the side groups bear their heteroatoms in the right position, and (ii) if the water‐soluble segments of the lateral substituents prevent intermolecular hydrophobic interactions of the apolar main chains reliably. In other words, the lateral substituents have to wrap the PPP core structure tightly in a closed outer shell of water‐soluble OEO moieties. These PPPs constitute a valuable new pool of model systems for future polyelectrolyte research, being highly complementary to what has been available so far. image

The Role of Intermolecular Interactions in the Micellization Process of Alkyltrimethyl Ammonium Bromides in Water

Abstract The micellization process of model cationic surfactants, alkyltrimethylammonium bromides with different alkyl chain length: dodecyl-(C12TAB), tetradecyl-(C14TAB) and hexadecyl- (C16TAB) has been investigated by the conductivity measurements over the temperature range 298.2 K–313.2 K. Understanding micelle formation requires its complete thermodynamic parameters, which were estimated by applying the proposed alternative derivation of pseudo-phase model. The critical micelle concentration (CMC), standard free Gibbs energy (Δmic G 0), enthalpy (Δmic H 0) and entropy (Δmic S 0) of micellization were analysed as a function of the increase in alkyl chain and temperature. At lower temperatures, the micellization in each case was found to be entropy-driven due to the increase in bulk water entropy. London or dispersion interactions are responsible for the cohesion between the apolar chains in the micelles and increase as the length of chains increases. Δmic H 0 reflects the contribution of London interactions, electrostatic repulsion between head groups and removing the alkyl chains from water (dehydration of CH2 and CH3 groups). As the temperature is increased, less energy is required for dehydration and hence the enthalpy of micellization became more exothermic and its effect more significant. The enthalpy-entropy compensation phenomenon was observed for all studied surfactants.

Structural Properties and Aggregation Behavior of 1-Hexyl-3-methylimidazolium Iodide in Aqueous Solutions.

The structural properties of 1-hexyl-3-methylimidazolium iodide ([C6mim]I)/water mixtures with molar ratios ranging from 1:1 to 1:200 have been investigated using molecular dynamics (MD) simulations with extended X-ray absorption fine structure (EXAFS) experimental data. The presence of a complex network of interactions among cations, anions, and water molecules has been highlighted from the MD simulations, even if water molecules have been found to interact preferentially with the I(-) anion. The EXAFS results show that, also for the 1:1 [C6mim]I/water mixture, the water molecules are placed next to the I(-) anion, and the I(-) hydration shell becomes more and more crowded with increasing water content. Tight ion pairs have been detected in the [C6mim]I/water mixtures with molar ratios from 1:1 to 1:12, while no ionic pairs were found in the most diluted solutions. The aggregation behavior has been determined from MD simulations with the aid of S(q) functions. For the most concentrated IL/water mixtures with molar ratios between 1:1 and 1:12 the existence of long-range structural correlations has been evidenced, even if the apolar chains are not completely segregated as expected for micelle-like structures. Conversely, for the 1:200 mixture, that is above the experimental critical aggregation concentration value, the alkyl chains are completely separated from each other.

Use of isothermal titration calorimetry to study surfactant aggregation in colloidal systems

BackgroundIsothermal titration calorimetry (ITC) is a general technique that allows for precise and highly sensitive measurements. These measurements may provide a complete and accurate thermodynamic description of association processes in complex systems such as colloidal mixtures. Scope of the reviewThis review will address uses of ITC for studies of surfactant aggregation to form micelles, with emphasis on the thermodynamic studies of homologous surfactant series. We will also review studies on surfactant association with polymers of different molecular characteristics and with colloidal particles. General significanceITC studies on the association of different homologous series of surfactants provide quantitative information on independent contribution from their apolar hydrocarbon chains and polar headgroups to the different thermodynamic functions associated with micellization (Gibbs energy, enthalpy and entropy). Studies on surfactant association to polymers by ITC provide a comprehensive description of the association process, including examples in which particular features revealed by ITC were elucidated by using ancillary techniques such as light or X-ray scattering measurements. Examples of uses of ITC to follow surfactant association to biomolecules such as proteins or DNA, or nanoparticles are also highlighted. Finally, recent theoretical models that were proposed to analyze ITC data in terms of binding/association processes are discussed. Major conclusionsThis review stresses the importance of using direct calorimetric measurements to obtain and report accurate thermodynamic data, even in complex systems. These data, whenever possible, should be confirmed and associated with other ancillary techniques that allow elucidation of the nature of the transformations detected by calorimetric results, providing a complete description of the process under scrutiny. This article is part of a Special Issue entitled Microcalorimetry in the BioSciences — Principles and Applications, edited by Fadi Bou-Abdallah.

DPD Molecular Simulations of Asphaltene Adsorption on Hydrophilic Substrates: Effects of Polar Groups and Solubility

Adsorption of asphaltenes onto a polar substrate (e.g., a mineral) was modeled with dissipative particle dynamics (DPD) simulations, using continental asphaltene models. The adsorption mechanisms in 10–20% wt, of asphaltene in toluene/ heptane solutions were studied (well above the solubility limit). The structure in the adsorbed layer was highly sensitive to the presence of polar groups in the alkyl side chains and heteroatom content in the aromatic ring structure. Four types of asphaltene models were used: completely apolar (zero adsorption), apolar chains and polar heteroatoms, polar chains and no heteroatoms, and polar chains and heteroatoms (maximum adsorption). One hundred asphaltene monomers were distributed homogeneously in the solvent initially, in a ∼(10 nm)3 domain.Asphaltene monomers adsorbed irreversibly on the substrate via the polar group in the side chains, resulting in an average perpendicular orientation of the aromatic rings relative to the substrate. More frequent π–π stacking of the aromatic rings occurred for less solubility (more heptane), as in aggregates. With apolar side chains, only the heteroatoms in the aromatic ring structure had affinity to the substrate, but the ring plane did not have any preferred direction.An important finding is that the aromatic ring assemblies “shielded” the substrate and polar groups that were anchored to the substrate, resulting in an effective non-polar surface layer seen by asphaltenes in the bulk, leading to much lower adsorption probability of the remaining asphaltenes. This “adsorption termination” effect leads to mono-layer formation. Continued adsorption with multilayering and reversible nanoaggregate adsorption occurred when both side chains in the model asphaltene (located on opposite sides of the aromatic sheet) contained polar groups, with a higher probability of exposing further polar groups to the bulk asphaltene. The general conclusion is that the number and position of the polar groups in side chains determine to a large degree the adsorption and aggregation behavior/efficiency of (continental) asphaltenes, in line with experimental evidence. The heteroatoms in the aromatic ring structure plays a more passive role in this context, only by providing organization via more π–π stacking in the adsorbed layer, and in aggregates.

Environmental polarity induces conformational transitions in a helical peptide sequence from bacteriophage T4 lysozyme and its tandem duplicate: a molecular dynamics simulation study.

Our recent molecular dynamics (MD) simulation of an insertion/duplication mutant 'L20' of bacteriophage T4 lysozyme demonstrated a solvent induced α→β transition in a loosely held duplicate helical region, while α-helical conformation in the parent region was relatively stabilized by its tertiary interactions with the neighboring residues. The solution NMR of the parent helical sequence, sans its protein context, showed no inherent tendency to adopt a particular secondary structure in pure water but showed α-helical propensity in TFE/water and SDS micelles. In this study we investigate the conformational preference of the 'parent' and 'duplicate' sequences, sans the protein context, in pure water and an apolar TFE/water solution. Apolar TFE/water solution is a model for non-polar protein context. We performed MD simulations of the two peptides, in explicit water and 80% (v/v) TFE/water, using GROMOS 53a6 force field, at 300 K and 1 bar (under NPT conditions). We show that in TFE/water mixture, salt bridges are stabilized by apolar TFE molecules and main chain-main chain hydrogen bonds promote the α-helical conformation, particularly in the duplicate peptide. Solvent exposure, in pure water, resulted in an α→β transition to form a triple stranded β-sheet structure in the 'duplicate' sequence, with a rare psi-loop topology, while a mixture of turn/bend conformations were adopted by the 'parent' sequence. Thus the differences in conformational preference of the parent and duplicate sequence sans protein context, in pure water and TFE/water, implicate the importance of the environment polarity in dictating the peptide conformation. Mechanism of folding of the observed psi-loop in the duplicate sequence gives insights into folding of this rare β-sheet topology.