Theoretical study of adsorption of O((3)P) and H(2)O on the rutile TiO(2)(110) surface

The adsorption of oxygen atoms O(3P) on both ideal and hydrated rutile TiO(2)(110) surfaces is investigated by periodic density functional theory (DFT) calculations within the revised Perdew-Burke-Ernzerhof (RPBE) generalized gradient approximation and a four Ti-layer slab, with (2 x 1) and (3 x 1) surface unit cells. It is shown that upon adsorption on the TiO(2) surface the spin of the O atom is completely lost, leading to stable surface peroxide species on both in-plane and bridging oxygen sites with O-binding energies of about 1.0-1.5 eV, rather than to the kinetically unstable terminal Ti-O and terminal O-O species with smaller binding energies of 0.1-0.7 eV. Changes in O-atom coverage ratios between 1/3 and 1 molecular layer (ML) and coadsorption of H(2)O have only minor effects on the O-binding energies of the stable peroxide configurations. High O-atom diffusion barriers of about 1 eV are found, suggesting a slow recombination rate of adsorbed O atoms on TiO(2)(110). Our results suggest that the TiOOTi peroxide intermediate experimentally observed in photoelectrolysis of water should be interpreted as a single spinless O adatom on TiO(2) surface rather than as two Ti-O* radicals coupled together.     

Modeling of the carbon dioxide solubility in imidazolium-based ionic liquids with the tPC-PSAFT equation of state

In this work, an equation of state (EoS) is developed to predict accurately the phase behavior of ionic liquid + CO2 systems based on the truncated perturbed chain polar statistical associating fluid theory (tPC-PSAFT) EoS. This EoS accounts explicitly for the dipolar interactions between ionic liquid molecules, the quadrupolar interactions between CO2 molecules, and the Lewis acid-base type of association between the ionic liquid and the CO2 molecules. Physically meaningful model pure-component parameters for ionic liquids are estimated based on literature data. All experimental vapor-liquid equilibrium data are correlated with a single linearly temperature-dependent binary interaction parameter. The ability of the model to describe accurately carbon dioxide solubility in various 1-alkyl-3-methylimidazolium-based ionic liquids with different alkyl chain lengths and different anions at pressures from 0 to 100 MPa and carbon dioxide fractions from 0 to 75 mol % is demonstrated. In all cases, good agreement with experimental data is obtained.     

Single Stage Tandem Mass Spectrometry Assignment of the C-5 Uronic Acid Stereochemistry in Heparan Sulfate Tetrasaccharides using Electron Detachment Dissociation

The analysis of heparan sulfate (HS) glycosaminoglycans presents many challenges, due to the high degree of structural heterogeneity arising from their non-template biosynthesis. Complete structural elucidation of glycosaminoglycans necessitates the unambiguous assignments of sulfo modifications and the C-5 uronic acid stereochemistry. Efforts to develop tandem mass spectrometric-based methods for the structural analysis of glycosaminoglycans have focused on the assignment of sulfo positions. The present work focuses on the assignment of the C-5 stereochemistry of the uronic acid that lies closest to the reducing end. Prior work with electron-based tandem mass spectrometry methods, specifically electron detachment dissociation (EDD), have shown great promise in providing stereo-specific product ions, such as the B₃ ^´ –CO₂, which has been found to distinguish glucuronic acid (GlcA) from iduronic acid (IdoA) in some HS tetrasaccharides. The previously observed diagnostic ions are generally not observed with 2-O-sulfo uronic acids or for more highly sulfated heparan sulfate tetrasaccharides. A recent study using electron detachment dissociation and principal component analysis revealed a series of ions that correlate with GlcA versus IdoA for a set of 2-O-sulfo HS tetrasaccharide standards. The present work comprehensively investigates the efficacy of these ions for assigning the C-5 stereochemistry of the reducing end uronic acid in 33 HS tetrasaccharides. A diagnostic ratio can be computed from the sum of the ions that correlate to GlcA to those that correlate to IdoA.

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Molecular dynamics simulations of D2O ice photodesorption

Molecular dynamics (MD) calculations have been performed to study the ultraviolet (UV) photodissociation of D(2)O in an amorphous D(2)O ice surface at 10, 20, 60, and 90 K, in order to investigate the influence of isotope effects on the photodesorption processes. As for H(2)O, the main processes after UV photodissociation are trapping and desorption of either fragments or D(2)O molecules. Trapping mainly takes place in the deeper monolayers of the ice, whereas desorption occurs in the uppermost layers. There are three desorption processes: D atom, OD radical, and D(2)O molecule photodesorption. D(2)O desorption takes places either by direct desorption of a recombined D(2)O molecule, or when an energetic D atom produced by photodissociation kicks a surrounding D(2)O molecule out of the surface by transferring part of its momentum. Desorption probabilities are calculated for photoexcitation of D(2)O in the top four monolayers and are compared quantitatively with those for H(2)O obtained from previous MD simulations of UV photodissociation of amorphous water ice at different ice temperatures [Arasa et al., J. Chem. Phys. 132, 184510 (2010)]. The main conclusions are the same, but the average D atom photodesorption probability is smaller than that of the H atom (by about a factor of 0.9) because D has lower kinetic energy than H, whereas the average OD radical photodesorption probability is larger than that of OH (by about a factor of 2.5-2.9 depending on ice temperature) because OD has higher translational energy than OH for every ice temperature studied. The average D(2)O photodesorption probability is larger than that of H(2)O (by about a factor of 1.4-2.3 depending on ice temperature), and this is entirely due to a larger contribution of the D(2)O kick-out mechanism. This is an isotope effect: the kick-out mechanism is more efficient for D(2)O ice, because the D atom formed after D(2)O photodissociation has a larger momentum than photogenerated H atoms from H(2)O, and D transfers momentum more easily to D(2)O than H to H(2)O. The total (OD + D(2)O) yield has been compared with experiments and the total (OH + H(2)O) yield from previous simulations. We find better agreement when we compare experimental yields with calculated yields for D(2)O ice than when we compare with calculated yields for H(2)O ice.     

Thermodynamic modeling of the phase behavior of binary systems of ionic liquids and carbon dioxide with the group contribution equation of state

The group contribution equation of state (GC-EOS) was applied to predict the phase behavior of binary systems of ionic liquids of the homologous families 1-alkyl-3-methylimidazolium hexafluorophosphate and tetrafluoroborate with CO2. Pure group parameters for the new ionic liquid functional groups [-mim][PF6] and [-mim][BF4] and interaction parameters between these groups and the paraffin (CH3, CH2) and CO2 groups were estimated. The GC-EOS extended with the new parameters was applied to predict high-pressure phase equilibria in binary mixtures of the ionic liquids [emim][PF6], [bmim][PF6], [hmim][PF6], [bmim][BF4], [hmim][BF4], and [omim][BF4] with CO2. The agreement between experimental and predicted bubble point data for the ionic liquids was excellent for pressures up to 20 MPa, and even for pressures up to about 100 MPa, the agreement was good. The results show the capability of the GC-EOS to describe phase equilibria of systems consisting of ionic liquids.     

Vinyl Glycosides in Oligosaccharide Synthesis (Part 6): 3-Buten-2-YL 2-Azido-2-Deoxy Glycosides and 3-Buten-2-YL 2-Phthalimido-2-Deoxy Glycosides as Novel Glycosyl Donors

ABSTRACT

An extension of the latent-active glycosylation strategy is reported whereby 3-buten-2-yl 2-deoxy-2-azidoglycosides and 3-buten-2-yl 2-deoxy-2-phthalimidoglycosides are used as building blocks for the preparation of amino sugar containing oligosaccharides. The allyl moieties of the latent substrates 5, 16 and 19 can be conveniently isomerised by treatment with a catalytic amount of (Ph₃P)₃RhCl/BuLi to give the active vinyl glycosides 6, 17 and 20 in high yield. These glycosyl donors were successfully used in glycosylations with acceptors 7, 9 and 11. In the case of glycosyl donor 6, the disaccharides 8, 10 and 12 could be obtained as anomeric mixtures or with high α-or β-selectivities depending on the reaction conditions selected. Glycosylations with glycosyl donors 17 and 20 in each case gave solely the β-linked products only in high yields.     

Synthetic, structural, and biosynthetic studies of an unusual phospho-glycopeptide derived from α-dystroglycan

Aberrant glycosylation of α-dystroglycan (α-DG) results in loss of interactions with the extracellular matrix and is central to the pathogenesis of several disorders. To examine protein glycosylation of α-DG, a facile synthetic approach has been developed for the preparation of unusual phosphorylated O-mannosyl glycopeptides derived from α-DG by a strategy in which properly protected phospho-mannosides are coupled with a Fmoc protected threonine derivative, followed by the use of the resulting derivatives in automated solid-phase glycopeptide synthesis using hyper-acid-sensitive Sieber amide resin. Synthetic efforts also provided a reduced phospho-trisaccharide, and the NMR data of this derivative confirmed the proper structural assignment of the unusual phospho-glycan structure. The glycopeptides made it possible to explore factors that regulate the elaboration of critical glycans. It was established that a glycopeptide having a 6-phospho-O-mannosyl residue is not an acceptor for action by the enzyme POMGnT1, which attaches β(1,2)-GlcNAc to O-mannosyl moietes, whereas the unphosphorylated derivate was readily extended by the enzyme. This finding implies a specific sequence of events in determining the structural fate of the O-glycan. It has also been found that the activity of POMGnT1 is dependent on the location of the acceptor site in the context of the underlying polypeptide/glycopeptide sequence. Conformational analysis by NMR has shown that the O-mannosyl modification does not exert major conformational effect on the peptide backbone. It is, however, proposed that these residues, introduced at the early stages of glycoprotein glycosylation, have an ability to regulate the loci of subsequent O-GalNAc additions, which do exert conformational effects. The studies show that through access to discrete glycopeptide structures, it is possible to reveal complex regulation of O-glycan processing on α-DG that has significant implications both for its normal post-translational maturation, and the mechanisms of the pathologies associated with hypoglycosylated α-DG.     

Dynamics of H2 dissociation on the 1/2 ML c(2 × 2)-Ti/Al(100) surface

The dissociation of H(2) on Ti-covered Al surfaces is relevant to the rehydrogenation and dehydrogenation of the NaAlH(4) hydrogen storage material. The energetically most stable structure for a 1/2 monolayer of Ti deposited on the Al(100) surface has the Ti atoms in the second layer with a c(2 × 2) structure, as has been confirmed by both low-energy electron diffraction and low-energy ion scattering experiments and density functional theory studies. In this work, we investigate the dynamics of H(2) dissociation on a slab model of this Ti/Al(100) surface. Two six-dimensional potential energy surfaces (PESs) have been built for this H(2) + Ti/Al(100) system, based on the density functional theory PW91 and RPBE exchange-correlation functionals. In the PW91 (RPBE) PES, the lowest H(2) dissociation barrier is found to be 0.65 (0.84) eV, with the minimum energy path occurring for H(2) dissociating above the bridge to top sites. Using both PESs, H(2) dissociation probabilities are calculated using the classical trajectory (CT), the quasi-classical trajectory (QCT), and the time-dependent wave-packet methods. We find that the QCT H(2) dissociation probabilities are in good agreement with the quantum dynamics results in the collision energy range studied up to 1.0 eV. We have also performed molecular beam simulations and present predictions for molecular beam experiments. Our molecular beam simulations show that H(2) dissociation on the 1/2 ML Ti/Al(100) surface is an activated process, and the reaction probability is found to be 6.9% for the PW91 functional and 1.8% for the RPBE at a nozzle temperature of 1700 K. Finally, we have also calculated H(2) dissociation rate constants by applying transition state theory and the QCT method, which could be relevant to modeling Ti-catalyzed rehydrogenation and dehydrogenation of NaAlH(4).     

Polar dibenzocyclooctynes for selective labeling of extracellular glycoconjugates of living cells

Although strain-promoted alkyne-azide cycloadditions (SPAAC) have found wide utility in biological and material sciences, the low polarity and limited water solubility of commonly used cyclooctynes represent a serious shortcoming. To address this problem, an efficient synthetic route has been developed for highly polar sulfated dibenzocyclooctynylamides (S-DIBO) by a Friedel-Crafts alkylation of 1,2-bis(3-methoxyphenyl)ethylamides with trichlorocyclopropenium cation followed by a controlled hydrolysis of the resulting dichlorocyclopropenes to give bis(3-methoxyphenyl)cyclooctacyclopropenones, which were subjected to methoxy group removal of the phenols, O-sulfation, and photochemical unmasking of the cyclopropenone moiety. Accurate rate measurements of the reaction of benzyl azide with various dibenzylcyclooctyne derivatives demonstrated that aromatic substitution and the presence of the amide function had only a marginal impact on the rate constants. Biotinylated S-DIBO 8 was successfully used for labeling azido-containing glycoconjugates of living cells. Furthermore, it was found that the substitution pattern of the dibenzylcyclooctynes influences subcellular location, and in particular it has been shown that DIBO derivative 4 can enter cells, thereby labeling intra- and extracellular azido-modified glycoconjugates, whereas S-DIBO 8 cannot pass the cell membrane and therefore is ideally suited for selective labeling of cell surface molecules. The ability to selectively label cell surface molecules will yield unique opportunities for glycomic analysis and the study of glycoprotein trafficking.     

Upper and lower bounds for the waiting time in the symmetric shortest queue system

In this paper we compare the exponential symmetric shortest queue system with two related systems: the shortest queue system with Threshold Jockeying and the shortest queue system with Threshold Blocking. The latter two systems are easier to analyse and are shown to give tight lower and upper bounds respectively for the mean waiting time in the shortest queue system. The approach also gives bounds for the distribution of the total number of jobs in the system.