Demonstration of an alternative mechanism for G-to-G cross-link formation

The cross-link dG-to-dG is an important product of DNA nitrosation. Its formation has commonly been attributed to nucleophilic substitution of N2 in a guaninediazonium ion by guanine, while recent studies suggest guanine addition to a cyanoamine derivative formed after dediazoniation, deprotonation, and pyrimidine ring-opening. The chemical viability of the latter mechanism is supported here by the experimental demonstration of rG-to-aG formation via rG addition to a synthetic cyanoamine derivative. Thus, all known products of nitrosative guanine deamination are consistent with the postulate of pyrimidine ring-opening. This postulated mechanism not only explains what is already known but also suggests that other products and other cross-links also might be formed in DNA deamination. The study suggests one possible new product: the structure isomer aG(N1)-to-rG(C2) of the classical G(N2)-to-G(C2) cross-link. While the formation of aG(N2)-to-rG(C2) has been established by chemical synthesis, the structure isomer aG(N1)-to-rG(C2) has been assigned tentatively based on its MS/MS spectrum and because this assignment is reasonable from a mechanistic perspective. Density functional calculations show preferences for the amide-iminol tautomer of the classical cross-link G(N2)-to-G(C2) and the amide-amide tautomer of G(N1)-to-G(C2). Moreover, the results suggest that both cross-links are of comparable thermodynamic stability, and that there are no a priori energetic or structural reasons that would prevent the formation of the structure isomer in the model reaction or in DNA.     

Mechanism of RuO2 crystallization in borosilicate glass: an original in situ ESEM approach

Ruthenium, a fission product arising from the reprocessing of spent uranium oxide (UOX) fuel, crystallizes in the form of acicular RuO(2) particles in high-level waste containment glass matrices. These particles are responsible for significant modifications in the physicochemical behavior of the glass in the liquid state, and their formation mechanisms are a subject of investigation. The chemical reactions responsible for the crystallization of RuO(2) particles with acicular or polyhedral shape in simplified radioactive waste containment glass are described. In situ high-temperature environmental scanning electron microscopy (ESEM) is used to follow changes in morphology and composition of the ruthenium compounds formed by reactions at high temperature between a simplified RuO(2)-NaNO(3) precursor and a sodium borosilicate glass (SiO(2)-B(2)O(3)-Na(2)O). The key parameter in the formation of acicular or polyhedral RuO(2) crystals is the chemistry of the ruthenium compound under oxidized conditions (Ru(IV), Ru(V)). The precipitation of needle-shaped RuO(2) crystals in the melt might be associated with the formation of an intermediate Ru compound (Na(3)Ru(V)O(4)) before dissolution in the melt, allowing Ru concentration gradients. The formation of polyhedral crystals is the result of the direct incorporation of RuO(2) crystals in the melt followed by an Ostwald ripening mechanism.     

Studies into the mechanism of CO-induced N2 cleavage promoted by an ansa-hafnocene complex and C-C bond formation from an observed intermediate

Carbonylation of the hafnocene dinitrogen complex, [Me(2)Si(η(5)-C(5)Me(4))(η(5)-C(5)H(3)-(t)Bu)Hf](2)(μ(2), η(2), η(2)-N(2)), yields the corresponding hafnocene oxamidide compound, arising from N(2) cleavage with concomitant C-C and C-N bond formation. Monitoring the addition of 4 atm of CO by NMR spectroscopy allowed observation of an intermediate hafnocene complex with terminal and bridging isocyanates and a terminal carbonyl. (13)C labeling studies revealed that the carbonyl is the most substitutionally labile ligand in the intermediate and that N-C bond formation in the bridging isocyanate is reversible. No exchange was observed with the terminal isocyanate. Kinetic data established that the conversion of the intermediate to the hafnocene oxamidide was not appreciably inhibited by carbon monoxide and support a pathway involving rate-determining C-C coupling of the isocyanate ligands. Addition of methyl iodide to the intermediate hafnocene resulted in additional carbon-carbon bond formation arising from CO homologation following nitrogen methylation. Similar reactivity with (t)BuNCO was observed where C-C coupling occurred upon cycloaddition of the heterocumulene. By contrast, treatment of the intermediate hafnocene with CO(2) resulted in formation of a μ-oxo hafnocene with two terminal isocyanate ligands.     

The interaction of an anionic gemini surfactant with conventional anionic surfactants

The interaction in two mixtures of an anionic gemini surfactant having N ,N -dialkylamide and carboxylate groups in a molecule, (CH2)2[N(COC11H23)CH(CO2H)CH2(CO2H)]2. 2NaOH (GA), and conventional anionic surfactants have been investigated in 0.1 M NaCl at pH 5.0. The two mixtures are GA/sodium dodecylsulfate (SDS) and GA/sodium N -dodecanoylglutamate (AGS) at a molar fraction of GA, alphaGA = 0.25 . Mixtures of both GA/SDS and GA/AGS exhibit synergism in surface tension reduction effectiveness. The GA/SDS mixture also exhibits synergism in surface tension reduction efficiency and mixed micelle formation, whereas the GA/AGS mixture does not. The interaction in mixed adsorption film formation is stronger than that in mixed micelle formation for the two mixtures. The interaction in the formation of the mixed adsorption film and the mixed micelle for the GA/SDS mixture is stronger in both formations than that for the GA/AGS mixture. The stronger interaction for the GA/SDS mixture may be caused by the combination of the smaller minimum area per molecule at the air/water interface (Amin) of the head groups in the GA molecule and the larger Amin in the SDS molecule.     

Multiscale surface self-assembly of an amyloid-like peptide

We present the 2D self-assembly properties of an amyloid-like peptide (LSFDNSGAITIG-NH2) (i.e., LSFD) over a whole range of spatial scales. This peptide is known to adopt an amyloid-like behavior in water where it aggregates into fibrils. Monolayers of this 12 amino acid peptide were built by direct spreading and compression of an organic unstructured LSFD solution at the air/water interface. Investigation by infrared spectroscopy of the peptide secondary structure reveals beta-sheet formation at the water surface. As evidenced by Brewster angle microscopy, compression of the peptidic film results in the formation of large condensed domains. We used atomic force microscopy to show that these domains are made of rather monodisperse, elongated domains of monomolecular thickness, which are about 1 microm long and hundred of nanometers wide. These nanodomains can be compacted up to the formation of a homogeneous monolayer on the micrometer scale. These bidimensional structures appear as a surface-induced counterpart of the bulk amyloid fibrils that do not form at the air/water interface. These self-assembled peptide nanostructures are also very promising for building organized nanomaterials.     

Characterization of an O2 adduct of an active cobalt-substituted extradiol-cleaving catechol dioxygenase

The first example of an O(2) adduct of an active Co-substituted oxygenase has been observed in the extradiol ring cleavage of the electron-poor substrate 4-nitrocatechol (4NC) by Co(II)-homoprotocatechuate 2,3-dioxygenase (Co-HPCD). Upon O(2) binding to the high-spin Co(II) (S = (3)/(2)) enzyme-substrate complex, an S = (1)/(2) EPR signal exhibiting (59)Co hyperfine splitting (A = 24 G) typical of a low-spin Co(III)-superoxide complex was observed. Both the formation and decay of the new intermediate are very slow in comparison to the analogous steps for turnover of 4NC by native high-spin Fe(II)-HPCD, which is likely to remain high-spin upon O(2) binding. A similar but effectively stable S = (1)/(2) intermediate was formed by the inactive [H200N-Co-HPCD(4NC)] variant. The observations presented shed light on the key roles played by the substrate, the second-sphere His200 residue, and the spin state of the metal center in facilitating O(2) binding and activation.     

High capacity of an Fe-air rechargeable battery using LaGaO(3)-based oxide ion conductor as an electrolyte

Rapid growth and improved functions of mobile equipment present the need for an advanced rechargeable battery with extremely high capacity. In this study, we investigated the application of fuel cell technology to an Fe-air rechargeable battery. Because the redox potential of Fe is similar to that of H(2), the combination of H(2) formation by the oxidation of Fe with a fuel cell has led to a new type of metal-air rechargeable battery. By decreasing the operating temperature, a deep oxidation state of Fe can be achieved, resulting in enlarged capacity of the Fe-air battery. We found that the metal Fe is oxidized to Fe(3)O(4) by using H(2)/H(2)O as mediator. The observed discharge capacity is 817 mA h g(-1)-Fe, which is approximately 68% of the theoretical capacity of the formation of Fe(3)O(4), 1200 mA h g(-1)-Fe, at 10 mA cm(-2) and 873 K. Moreover, the cycle stability of this cell is examined. At 1073 K, the cell shows a discharge capacity of ca. 800 mA h g(-1)-Fe with reasonably high discharge capacity sustained over five cycles.     

Heterogeneous kinetics of the dissolution of an inorganic salt, potassium carbonate, in an organic solvent, dimethylformamide

Understanding the mechanisms of solid-liquid systems is fundamental to the development and operation of processes for the production of agrochemicals and pharmaceuticals. The use of a strong inorganic base in an organic solvent, typically, potassium carbonate in dimethylformamide, is often used to facilitate the formation of a required anionic organic nucleophile. In this paper, the dissolution kinetics of potassium carbonate in dimethylformamide at elevated temperatures is studied in the presence of ultrasound, as revealed via monitoring of the deprotonation of 2-cyanophenol by dissolved K2CO3. Two independent experimental methods were employed; the loss of 2-cyanophenol was detected electrochemically at a platinum microdisk working electrode, and the formation of the 2-cyanophenolate anion was monitored via UV/visible spectroscopic analysis. The results were modeled by fitting the experimental data to a theoretical model for the surface-controlled dissolution of solid particles. The dissolution rate constant, k, for the dissolution of K2CO3 in DMF was found to have a value of (1.3 +/- 0.2) x 10(-7) mol cm(-2) s(-1) at 100 degrees C, and the activation energy for the dissolution was 44.2 +/- 0.4 kJ mol(-1) over the temperature range of 70-100 degrees C studied.     

A fluorophoric-axle-based, nonfluororescent, metallo anti-[3]pseudorotaxane: recovery of fluorescence by means of an axle substitution reaction

A Cu(2+)-templated, multinuclear, nonfluorescent, anti-[3]pseudorotaxane was synthesized on a fluorophoric axle. The Cu(2+)-templated [3]pseudorotaxane was characterized by the electrospray ionization mass spectroscopy (ESI-MS), UV/Vis and EPR spectroscopy, and single-crystal X-ray data. The ESI-MS showed peaks that support the formation of [3]pseudorotaxane. The UV/Vis spectrum of [3]pseudorotaxane in CH(3)CN showed a characteristic d-d band of a Cu(2+) complex at 650 nm. Further, the X-band in the EPR spectrum of [3]pseudorotaxane suggested a distorted square-pyramidal geometry of Cu(2+). Importantly, formation of the [3]pseudorotaxane was confirmed by the single-crystal X-ray structural analysis, which showed that one fluorophoric axle was threaded into two Cu(2+) macrocyclic wheels (MC-Cu(2+)) with an anti conformation. The UV/Vis and fluorescence titration experiments were carried out to follow the solution-state formation of [3]pseudorotaxane by MC-Cu(2+) and fluorophoric axle in CH(3)CN. In both studies, the sigmoidal curve fit supported the formation of 1:2 complex of the fluorophoric axle and MC-Cu(2+) complex. Secondly, the release of the fluorophoric axle from the nonfluorescent [3]pseudorotaxane through the formation of a [2]pseudorotaxane was demonstrated by titrating a solution of the [3]pseudorotaxane with a stronger bidentate chelating ligand, such as 1,10-phenanthroline (Phen). Substitution of the fluorophoric axle from the [3]pseudorotaxane with about 100% efficiency was achieved by the addition of approximately two equivalents of Phen, and the formation of a Phen-threaded [2]pseudorotaxane was established by ESI-MS of the resulting solution and a single-crystal X-ray study. Axle substitution was also confirmed by a fluorescence titration experiment, which showed a step-wise recovery of the fluorescence intensity of the fluorophoric axle. The association constants for the formation of the [3]- and [2]pseudrotaxanes were calculated from the fluorescence and UV/Vis data. In addition, 2,2'-bipyridine (BPy), which is a relatively weaker bidendate chelating ligand compared to Phen, showed an inefficient and incomplete axle substitution of the [3]pseudorotaxane, although BPy previously showed the formation of [2]pseudrotaxane with the MC-Cu(2+) wheel in solution and ESI-MS studies. In this context, the formation of a BPy-threaded [2]pseudrotaxane was further established by single-crystal X-ray diffraction study.     

Improvement of durability of an organic photocatalyst in p-xylene oxygenation by addition of a Cu(II) complex

The catalytic durability of an organic photocatalyst, 9-mesityl-10-methyl acridinium ion (Acr(+)-Mes), has been dramatically improved by the addition of [{tris(2-pyridylmethyl)amine}Cu(II)](ClO(4))(2) ([(tmpa)Cu(II)](2+)) in the photocatalytic oxygenation of p-xylene by molecular oxygen in acetonitrile. Such an improvement is not observed by the addition of Cu(ClO(4))(2) in the absence of organic ligands. The addition of [(tmpa)Cu](2+) in the reaction solution resulted in more than an 11 times higher turnover number (TON) compared with the TON obtained without [(tmpa)Cu(II)](2+). In the photocatalytic oxygenation, a stoichiometric amount of H(2)O(2) formation was observed in the absence of [(tmpa)Cu(II)](2+), however, much less H(2)O(2) formation was observed in the presence of [(tmpa)Cu(II)](2+). The photocatalytic mechanism was investigated by laser flash photolysis measurements in order to detect intermediates. The reaction of O(2)˙(-) with [(tmpa)Cu(II)](2+) monitored by UV-vis spectroscopy in propionitrile at 203 K suggested formation of [{(tmpa)Cu(II)}(2)O(2)](2+), a transformation which is crucial for the overall 4-electron reduction of molecular O(2) to water, and a key in the observed improvement in the catalytic durability of Acr(+)-Mes.     

Copper-catalyzed benzylic C-H oxygenation under an oxygen atmosphere via N-H imines as an intramolecular directing group

Copper-catalyzed benzylic C-H oxygenation under an oxygen atmosphere was developed starting from carbonitriles and Grignard reagents via N-H imine intermediates. The present process is characterized by the following two-step sequence in a one-pot manner: (1) addition of Grignard reagents to carbonitriles to form N-H imines and (2) benzylic C-H oxygenation (C═O bond formation) triggered by 1,5-hydrogen atom transfer with transient iminyl copper species.     

Unprecedented ROMP activity of low-valent rhenium-nitrosyl complexes: Mechanistic evaluation of an electrophilic olefin metathesis system

The reaction of [Re(H)(NO)2(PR3)2] complexes (1 a: R = PCy3; 1 b: R = PiPr3) with [H(OEt2)2][BAr(F)4] ([BAr(F)4] = tetrakis{3,5-bis(trifluoromethyl)phenyl}borate) in benzene at room temperature gave the corresponding cations [Re(NO)2(PR3)2][BAr(F)4] (2 a and 2 b). The addition of phenyldiazomethane to benzene solutions of 2 a and 2 b afforded the moderately stable cationic rhenium(I)-benzylidene-dinitrosyl-bis(trialkyl)phosphine complexes 3 a and 3 b as [BAr(F)4]- salts in good yields. The complexes 2 a and 2 b catalyze the ring-opening metathesis polymerization (ROMP) of highly strained nonfunctionalized cyclic olefins to give polymers with relatively high polydispersity indices, high molecular weights and over 80 % Z configuration of the double bonds in the chain backbone. However, these complexes do not show metathesis activity with acyclic olefins. The benzylidene derivatives 3 a and 3 b are almost inactive in ROMP catalysis with norbornene and in olefin metathesis. NMR experiments gave the first hints of the initial formation of carbene complexes from [Re(NO)2(PR3)2][BAr(F)4] (2 a and 2 b) and norbornene. In a detailed mechanistic study ESI-MS/MS measurements provided further evidence that the carbene formation is initiated by a unique reaction sequence where the cleavage of the strained olefinic bond starts with phosphine migration forming a cyclic ylide-carbene complex, capable of undergoing metathesis with alternating rhenacyclobutane formation and cycloreversion reactions ("ylide" route). However, even at an early stage the ROMP propagation route is expected to merge into an "iminate" route by attack by the ylide function on one of the N(NO) atoms followed by phosphine oxide elimination. The formation of phosphine oxide was confirmed by NMR spectroscopy. The proposed mechanism is supported further by detailed DFT calculations.     

Evidence for an ortho specific loss of OH· in some aromatic aldoximes from examination of metastable peak shapes

The mechanism for loss of an OH radical from the molecular ions of the ortho substituted compounds 2-methyl-, 2-hydroxy-, 2-amino- and 2-methoxybenzaldoxime has been studied. It is inferred from the examination of the first field free region (composite) metastable peak shapes that two distinct mechanisms are operating. Based upon additional deuterium labelling experiments it is proposed that loss of OH involves both participation of the ortho substituent in the formation of a 5-membered heterocyclic ring and the formation of a protonated isocyanide type ion via a 3-membered ring transition state. Loss of OCH3 from the corresponding O-methyl ethers probably occurs by similar mechanisms. The formation of a 5-membered ring is also proposed to be the driving force for the loss of H2NO in the spectrum of 2-methoxybenzaldoxime.     

Stereo-selectivity in a cyclotriphosphazene derivative bearing an exocyclic P-O moiety

Nucleophilic substitution reactions of N(3)P(3)Cl(4)[O(CH(2))(2)NCH(3)], (1) with the sodium salts of mono- and di-functional alcohols [methanol (2), phenol (3), tetraethyleneglycol (4) and 1,3-propanediol (5)] were carried out in order to investigate a possible directing effect of the spiro O-moiety on the formation of mono-substituted (2a, 3a), non-geminal di-substituted (2c, 3c) and ansa (4a, 5a) derivatives. Compounds isolated from the reactions were characterized by elemental analysis, mass spectrometry, (1)H and (31)P NMR spectroscopy and X-ray crystallographic analysis showed that the substituent OR in compounds (2a, 3a and 2c, 3c) and the ansa-ring in compounds (4a, 5a) formed cis to the P-O moiety of the exocyclic [O(CH(2))(2)NCH(3)] spiro ring. The formation of products (2a-d, 3a-d, 4a, 5a and 5b) was quantified from the (31)P NMR spectra of the reaction mixtures, which showed an overwhelming preference for derivatives (2a, 3a, 2c, 3c, 4a, 5a) with the substituent cis to the P-O moiety of the exocyclic spiro ring (2a, 3a, 2c, 3c, 4a, 5a), except for reaction with 1,3-propanediol where the six-membered ring spiro derivative (5b) was about three times more abundant than the eight-membered ring ansa-derivative (5a). Overwhelming formation of products with the substituent cis to the exocyclic P-O moiety is proof that the cation-assisted mechanism is responsible for the stereo-selectivity in the reactions with alkoxides.     

Formation of hydrogenated boron clusters in an external quadrupole static attraction ion trap

We report the formation of icosahedral B(12)H(8) (+) through ion-molecule reactions of the decaborane ion [B(10)H(x)(+) (x=6-14)] with diborane (B(2)H(6)) molecules in an external quadrupole static attraction ion trap. The hydrogen content n of B(12)H(n)(+) is determined by the analysis of the mass spectrum. The result reveals that B(12)H(8)(+) is the main product. Ab initio calculations indicate that B(12)H(8)(+) preferentially forms an icosahedral structure rather than a quasiplanar structure. The energies of the formation reactions of B(12)H(14)(+) and B(12)H(12)(+) between B(10)H(x)(+) (x=6,8) ions, which are considered to be involved in the formation of B(12)H(n)(+), and a B(2)H(6) molecule are calculated. The calculations of the detachment pathway of H(2) molecules and H atoms from the product ions, B(12)H(14)(+) and B(12)H(12) (+), indicate that the intermediate state has a relatively low energy, enabling the detachment reaction to proceed owing to the sufficient reaction energy. This autodetachment of H(2) accounts for the experimental result that B(12)H(8)(+) is the most abundant product, even though it does not have the lowest energy among B(12)H(n)(+).     

Analysis of amide bond formation with an alpha-hydroxy-beta-amino acid derivative, 3-amino-2-hydroxy-4-phenylbutanoic acid, as an acyl component: byproduction of homobislactone

In the synthesis of peptidomimetics containing alpha-hydroxy-beta-amino acid, the coupling of this N(beta)-protected beta-amino acid with amine components was generally performed without the protection of its alpha-hydroxyl group. However, the formation of dipeptides in low yield was often observed when sterically hindered amine components were used. Boc-Apns-OH [Apns: (2S,3S)-3-amino-2-hydroxy-4-phenylbutanoic acid, allophenylnorstatine] (6), which is one of such beta-amino acid derivatives, is intensively employed as a core structure in the development of HIV-1 protease inhibitors. There have been no precise studies, to date, that have examined amide bond formation with alpha-hydroxy-beta-amino acid derivatives as an acyl component. To determine the cause of this low-yield reaction, we studied the amide bond formation focusing on the activation step of N(beta)-protected alpha-hydroxy-beta-amino acid by using a model coupling reaction between 6 and H-Dmt-OR [Dmt: (R)-5,5-dimethyl-1,3-thiazolidine-4-carboxylic acid] (7). A significant amount of homobislactone 9 was formed through the activation of the carboxyl group of 6 to the benzotriazole-type active esters such as OBt and OAt. In addition, this homobislactone formation was markedly increased in the presence of a catalytic amount of a base, which exhibited good correlation with the low yield of the amide bond formation, suggesting that homobislactone formation is one major reason for the low yield of the amide bond formation. Moreover, homobislactones were also formed in other derivatives of the N(beta)-protected alpha-hydroxy-beta-amino acid, suggesting a common feature of this type of amino acids. The use of a strong activation method like EDC--HOAt without base addition enhanced amide bond formation, although a small amount of homobislactone may be formed during the coupling reaction.     

Synthesis and formation mechanism of nanoneedles and nanorods of manganese oxide octahedral molecular sieve using an ionic liquid

Single-crystalline cryptomelane-type manganese oxide octahedral molecular sieve (OMS-2) nanoneedles and nanorods were prepared by a solution-phase approach in the presence of an ionic liquid 1-n-butyl-3-methylimidazolium tetrafluoroborate ([BMIM]BF4). [BMIM]BF4 can act as a cosolvent, structure-directing agent, and reducing reagent in the reaction system. Based on the redox reaction of MnCl2 and KMnO4 in the mixed solvents of water and [BMIM]BF4, the formation of OMS-2 nanoneedles followed the rolling mechanism with lamellae as an intermediate. However, the direct reaction of KMnO4 with [BMIM]BF4 resulted in the formation of OMS-2 nanorods with diameters as small as 3-6 nm. The formation mechanism of OMS-2 nanostructures was discussed.     

Calcium binding by fulvic acids studied by an ion selective electrode an ultrafiltration method

The interaction between Ca(2+) and two well-characterized fulvic acids (Armadale and Laurentide FA) has been studied at 0.100 and 0.010M sodium nitrate using a fixed concentration of fulvic acid (100 ppm) and varying amounts of calcium (0.005-0.020 mmoles). Free calcium concentration was determined by in situ measurements employing a calcium electrode. For Armadale FA, free calcium was additionally determined via an ultrafiltration technique followed by atomic absorption measurements. For both fulvic acids, Ca(2+) binding was observed to be decreased by an increase in the ionic strength of the system. At the lower ionic strength the tendency for binding is dependent on the fulvic acid-to-metal ratio while at the higher ionic strength, the binding is insensitive to changes in the fulvic acid-to-metal ratio (an observation corroborating the contention that calcium binding to humic substances is primarily electrostatic). Comparison of the computed overall complex formation functions shows that values obtained from the ultrafiltration method were higher than those obtained using the calcium electrode. The binding of calcium was similar for the two fulvic acids.     

EC-backward-E electrochemistry supported by an alkoxyphenyl group

EC-backward-E electrochemistry through electrocatalytic formal [2+2] cycloaddition reaction between anodically activated aliphatic enol ethers and unactivated olefins possessing an alkoxyphenyl group was clearly described by using cyclic voltammetric studies and spin density observation with B3LYP/6-31G(d) calculations. The alkoxyphenyl group was found to regulate the electron transfer, which operates as an electron donor during the formation of the cyclobutane ring and as an electron acceptor from the anode to give the final product (EC-backward-E).     

Fixation of nitrogen in an electrospray mass spectrometer

The formation of an iron-nitrogen compound in an electrospray ionization instrument is reported. The iron was released from the stainless steel electrospray needle by acetic acid added to displace trifluoroacetic acid and the nitrogen was present as the drying gas. The product is an iron nitride ion, [N(2)FeOH](1+), m/z 100.9438, and is capable of addition to peptides and proteins.