2‐[(Acetyloxy)methyl]‐4‐(acetylsulfanyl)‐2‐(ethoxycarbonyl)‐3‐oxobutyl Group: A Thermolabile Protecting Group for Phosphodiesters

The phosphodiester linkage of 3′‐O‐levulinoylthymidine 5′‐methylphosphate ( 5 ) has been protected with 2‐[(acetyloxy)methyl]‐4‐(acetylsulfanyl)‐2‐(ethoxycarbonyl)‐3‐oxobutyl group (to give 1 ) to study the potential of this group as an esterase‐ and thermolabile protecting group. The group turned out to be unexpectedly thermolabile, being removed as ethyl 3‐(acetyloxy)‐4‐(acetylsulfanyl)‐2‐methylidenebut‐3‐enoate ( 10 ) without accumulation of any intermediates. The half‐life of this reaction at pH 7.5 and 37° is 14 min. Hog liver esterase (HLE), in turn, removes the protecting group as ethyl 4‐(acetylsulfanyl)‐2‐methylidene‐3‐oxobutanoate ( 12 ). On using 2.6 units of HLE in 1 ml, the rate of the enzymatic deprotection was still only one third of that of the nonenzymatic reaction. The mechanisms of both reactions have been studied and discussed. The crucial step seems to be removal of the O‐bound Ac group, either by esterase or by migration to the neighboring 3‐oxo group (nonenzymatic removal). This triggers the removal by retro‐aldol condensation/elimination mechanism. No alkylation of glutathione (GSH) upon the deprotection of 1 could be detected.     

Hydrophobicities of poly(ε-caprolactone) oligomers functionalized with different succinic anhydrides

Different succinic anhydrides were used for modification of hydrophobicities of linear and star-shaped poly (ε-caprolactone) oligomers with different molecular weights. Hydroxyl-terminated poly(ε-caprolactone) oligomers were acid-functionalized either with succinic anhydride (SAH) or with alkenylsuccinic anhydrides (ASAs) containing 8 or 18 carbons in their alkenyl chains. Hydrophobicities of the linear and corresponding star-shaped oligomers were investigated by immersion studies and by water contact angle measurements. In comparison with SAH functionalized oligomers, alkenyl chain containing oligomers showed lower thermal transitions and higher hydrophobicities. In addition, oligomers with 18 carbons alkenyl chain showed considerably higher hydrophobicities than corresponding oligomers with 8 carbon alkenyl chain.     

Performance of an air sampler and a gamma-ray detector in a small unmanned aerial vehicle

The performance of an air sampler and a small gamma-ray spectrometer was tested in an unmanned aerial vehicle (UAV) able to carry payload with mass up to 0.5 kg. Operation of the sampler was investigated with the aid of radon progeny normally present in outdoor air. Detection limits for several transuranium nuclides in air are of the order of 0.3 Bq m^?3 assuming 0.5 h sampling time and 1 h counting time in direct alpha spectrometry. Unshielded ¹³⁷Cs and ⁶⁰Co point sources at the ground level were used to test the CsI spectrometer. Detection limits are approximately 1 GBq or larger depending on the flying altitude.     

Dynamic journeying under uncertainty

We introduce a journey planning problem in multi-modal transportation networks under uncertainty. The goal is to find a journey, possibly involving transfers between different transport services, from a given origin to a given destination within a specified time horizon. Due to uncertainty in travel times, the arrival times of transport services at public transport stops are modeled as random variables. If a transfer between two services is rendered unsuccessful, the commuter has to reconsider the remaining path to the destination. The problem is modeled as a Markov decision process in which states are defined as paths in the transport network. The main contribution is a backward induction method that generates an optimal policy for traversing the public transport network in terms of maximizing the probability of reaching the destination in time. By assuming history independence and independence of successful transfers between services we obtain approximate methods for the same problem. Analysis and numerical experiments suggest that while solving the path dependent model requires the enumeration of all paths from the origin to the destination, the proposed approximations may be useful for practical purposes due to their computational simplicity. In addition to on-time arrival probability, we show how travel and overdue costs can be taken into account, making the model applicable to freight transportation problems.     

A set of triple-resonance nuclear magnetic resonance experiments for structural characterization of organophosphorus compounds in mixture samples

The ¹H, ¹³C correlation NMR spectroscopy utilizes J_CH couplings in molecules, and provides important structural information from small organic molecules in the form of carbon chemical shifts and carbon-proton connectivities. The full potential of the ¹H, ¹³C correlation NMR spectroscopy has not been realized in the Chemical Weapons Convention (CWC) related verification analyses due to the sample matrix, which usually contains a high amount of non-related compounds obscuring the correlations of the relevant compounds. Here, the results of the application of ¹H, ¹³C, ³¹P triple-resonance NMR spectroscopy in characterization of OP compounds related to the CWC are presented. With a set of two-dimensional triple-resonance experiments the J_HP, J_CH and J_PC couplings are utilized to map the connectivities of the atoms in OP compounds and to extract the carbon chemical shift information. With the use of the proposed pulse sequences the correlations from the OP compounds can be recorded without significant artifacts from the non-OP compound impurities in the sample. Further selectivity of the observed correlations is achieved with the application of phosphorus band-selective pulse in the pulse sequences to assist the analysis of multiple OP compounds in mixture samples. The use of the triple-resonance experiments in the analysis of a complex sample is shown with a test mixture containing typical scheduled OP compounds, including the characteristic degradation products of nerve agents sarin, soman, and VX. The viability of the approach in verification analysis is demonstrated in the analysis of the 30th OPCW Proficiency Test sample.     

Hydrolytic reactions of diribonucleoside 3',5'-(3'-N-phosphoramidates): kinetics and mechanisms for the P-O and P-N bond cleavage of 3'-amino-3'-deoxyuridylyl-3',5'-uridine

Hydrolytic reactions of 3'-amino-3'-deoxyuridylyl-3',5'-uridine (2a), an analogue of uridylyl-3',5'-uridine having the 3'-bridging oxygen replaced with nitrogen, have been followed by RP HPLC over a wide pH range. The only reaction taking place under alkaline conditions (pH > 9) is hydroxide ion-catalyzed hydrolysis (first-order in [OH(-)]) to a mixture of 3'-amino-3'-deoxyuridine 3'-phosphoramidate (7) and uridine (4). The reaction proceeds without detectable accumulation of any intermediates. At pH 6-8, a pH-independent formation of 3'-amino-3'-deoxyuridine 2'-phosphate (3) competes with the base-catalyzed cleavage. Both 3 and in particular 7 are, however, rather rapidly dephosphorylated under these conditions to 3'-amino-3'-deoxyuridine (5). In all likelihood, both 3 and 7 are formed by an intramolecular nucleophilic attack of the 2'-hydroxy function on the phosphorus atom, giving a phosphorane-like intermediate or transition state. Under moderately acidic conditions (pH 2-6), the predominant reaction is acid-catalyzed cleavage of the P-N3' bond (first-order in [H(+)]) that yields an equimolar mixture of 5 and uridine 5'-phosphate (6). The reaction is proposed to proceed without intramolecular participation of the neighboring 2'-hydroxyl group. Under more acidic conditions (pH < 2), hydrolysis to 3 and 4 starts to compete with the cleavage of the P-N bond, and this reaction is even the fastest one at pH < 1. Formation of 2'-O,3'-N-cyclic phosphoramidate as an intermediate appears probable, although its appearance cannot be experimentally verified. The rate constants for various partial reactions have been determined. The reaction mechanisms and the effect that replacing the 3'-oxygen with nitrogen has on the behavior of the phosphorane intermediate are discussed.     

Isopiestic study of the interactions between calcium chloride and methyl glycofuranosides in aqueous solution

Osmotic coefficients have been determined for three isomeric methyl glycofuranosides, viz. methyl -D-lyxo-, -D-ribo-, and -D-ribofuranosides in aqueous solution by the isopiestic comparison method. The method was further applied to measure the osmotic coefficients for the ternary system consisting of calcium chloride, methyl glycofuranoside, and water. The results are analyzed in terms of an excess function from which the salting constants for the glycosides are derived. Relationships between the salting constants and the complexing of methyl glycofuranosides with calcium ion are discussed.     

Macrocyclic amines as catalysts of the hydrolysis of the triphosphate bridge of the mRNA 5'-cap structure

The reactions of a 5'-cap model compound P1-(7-methylguanosine) P3-guanosine 5',5'-triphosphate, m7GpppG, were studied in the presence of three different macrocyclic amines (2-4) under neutral conditions. The only products observed in the absence of the macrocycles resulted from the base-catalysed imidazole ring-opening and the acid-catalysed cleavage of the N7-methylguanosine base, whereas in the presence of these catalysts hydrolysis of the triphosphate bridge predominated. The latter reaction yielded guanosine 5'-monophosphate, guanosine 5'-diphosphate, 7-methylguanosine 5'-monophosphate and 7-methylguanosine 5'-diphosphate as the initial products, indicating that both of the phosphoric anhydride bonds were cleaved. The overall catalytic activity of all three macrocycles was comparable. The hydrolysis to guanosine 5'-diphosphate and 7-methylguanosine 5'-monophosphate was slightly more favoured than the cleavage to yield guanosine 5'-monophosphate and 7-methylguanosine diphosphate. All the macrocycles also enhanced the subsequent hydrolysis of the nucleoside diphosphates, 2 being more efficient than 3 and 4.     

Phosphodiester cleavage of ribonucleoside monophosphates and polyribonucleotides by homo- and heterodinuclear metal complexes of a cyclohexane-based polyamino-polyol ligand

The ability of the dinuclear complexes of tdci [1,3,5-trideoxy-1,3,5-tris(dimethylamino)-cis-inositol] to promote the cleavage of the phosphodiester bonds of nucleoside 2',3'-cyclic monophosphates, dinucleoside monophosphates and polyribonucleotides has been studied. The homodinuclear copper(II) and zinc(II) complexes efficiently promote the hydrolysis of cyclic nucleotides. The second-order rate constant (k(2) approximately 0.44 M(-1) s(-1)) estimated for the cleavage of 2',3'-cAMP induced by dinuclear copper(II) complexes is about 107 times greater than that for the hydroxide-ion-catalysed reaction. The complex selectively cleaves the 2'O-P bond of 2',3'-cUMP and forms the 3'-product in 91 % yield. An equimolar mixture of copper(II), zinc(II) and tdci proved to be more efficient than either of the binary systems: a 7-20-fold rate enhancement was observed for the cleavage of 2',3'-cNMP substrates. The half-life for the hydrolysis of 2',3'-cAMP decreased from 300 days to five minutes at 25 degrees C when the concentration of each of the three components was 2.5 mM. In contrast to the copper(II) or zinc(II) complexes of tdci, the heterodinuclear species promoted the hydrolysis of several dinucleoside monophosphates. For two ApA isomers, cleavage of the 3',5'-bond was about 6.5 times faster than cleavage of the 2',5'-bond. On the basis of the kinetic data, a trifunctional mechanism is suggested for the heterodinuclear-complex-promoted cleavage of the phosphodiester bond. Double Lewis acid activation occurs when the metal ions bind to the phosphate oxygen atoms. In particular, a metal-bound hydroxide ion serves as a general base or a nucleophilic catalyst, and, presumably, a zinc(II)-bound aqua ligand behaves as a general acid and facilitates the departure of the leaving alkoxide group. The effect of the complexes on the hydrolysis of poly(U), poly(A) and type III native RNA was also investigated, and, for the first time, kinetic data on the cleavage of the phosphodiester bonds of polyribonucleotides by a dinuclear complex was obtained.