Mechanistic insight into the cleavage of an aromatic C-C bond by tungsten

The pathway for the cleavage of an aromatic C-C bond in quinoxaline by a tungsten(II) complex [W(PMe(3))(4)(η(2)-CH(2)PMe(2))H] is explored by performing detailed DFT calculations. The real active complex was found to be [W(PMe(3))(2)(η(2)-CH(2)PMe(2))H] rather than [W(PMe(3))(4)]. The key step in the whole reaction is the reductive elimination of two hydrides that are located originally on quinoxaline (see scheme).     

Effect of AOT on enzymatic activity of the organic solvent resistant tyrosinase from Streptomyces sp. REN-21 in aqueous solutions and water-in-oil microemulsions

The effect of AOT (sodium-bis(2-ethylhexyl sulfosuccinate)) on enzymatic activity of the organic solvent resistant tyrosinase (OSRT) in aqueous phosphate buffer solutions and in water-in-oil microemulsions of the water/AOT/isooctane system has been investigated. In contrast to mushroom tyrosinase, AOT does not activate OSRT in aqueous solutions, altering its activity very little at concentrations lower than 2 mM. Increasing contents of AOT in isooctane reduce the observed initial reaction rates of oxidation of t-butylcatechol (tBC) and 4-methylcatechol (4-MC). Similarly to mushroom tyrosinase, the effect has been described using an equation based on preferential binding of the substrates by surfactant interface layers. The apparent Michaelis-Menten substrate binding constants increase linearly with AOT concentration (with slopes of 0.12+/-0.02 and 0.051+/-0.006 for tBC and 4-MC, respectively), and the effective enzyme turnover number in the microemulsions remains practically constant.     

Metal-ion-dependent folding of a uranyl-specific DNAzyme: insight into function from fluorescence resonance energy transfer studies

Fluorescence resonance energy transfer (FRET) has been used to study the global folding of an uranyl (UO₂²⁺)‐specific 39E DNAzyme in the presence of Mg²⁺, Zn²⁺, Pb²⁺, or UO₂²⁺. At pH 5.5 and physiological ionic strength (100 mM Na⁺), two of the three stems in this DNAzyme folded into a compact structure in the presence of Mg²⁺ or Zn²⁺. However, no folding occurred in the presence of Pb²⁺ or UO₂²⁺; this is analogous to the “lock‐and‐key” catalysis mode first observed in the Pb²⁺‐specific 8–17 DNAzyme. However, Mg²⁺ and Zn²⁺ exert different effects on the 8–17 and 39E DNAzymes. Whereas Mg²⁺ or Zn²⁺‐dependent folding promoted 8–17 DNAzyme activity, the 39E DNAzyme folding induced by Mg²⁺ or Zn²⁺ inhibited UO₂²⁺‐specific activity. Group IIA series of metal ions (Mg²⁺, Ca²⁺, Sr²⁺) also caused global folding of the 39E DNAzyme, for which the apparent binding affinity between these metal ions and the DNAzyme decreases as the ionic radius of the metal ions increases. Because the ionic radius of Sr²⁺ (1.12 Å) is comparable to that of Pb²⁺ (1.20 Å), but contrary to Pb²⁺, Sr²⁺ induces the DNAzyme to fold under identical conditions, ionic size alone cannot account for the unique folding behaviors induced by Pb²⁺ and UO₂²⁺. Under low ionic strength (30 mM Na⁺), all four metal ions (Mg²⁺, Zn²⁺, Pb²⁺, and UO₂²⁺), caused 39E DNAzyme folding, suggesting that metal ions can neutralize the negative charge of DNA‐backbone phosphates in addition to playing specific catalytic roles. Mg²⁺ at low (<2 mM ) concentration promoted UO₂²⁺‐specific activity, whereas Mg²⁺ at high (>2 mM ) concentration inhibited the UO₂²⁺‐specific activity. Therefore, the lock‐and‐key mode of DNAzymes depends on ionic strength, and the 39E DNAzyme is in the lock‐and‐key mode only at ionic strengths of 100 mM or greater.     

Iron-catalyzed C2-C3 bond cleavage of phenylpyruvate with O2: insight into aliphatic C-C bond-cleaving dioxygenases

Iron(II)-phenylpyruvate complexes of tetradentate tris(6-methyl-2-pyridylmethyl)amine (6-Me3-TPA) and tridentate benzyl bis(2-quinolinylmethyl)amine (Bn-BQA) were prepared to gain insight into C-C bond cleavage catalyzed by dioxygenase enzymes. The complexes we have prepared and characterized are [Fe(6-Me3-tpa)(prv)][BPh4] (1), [Fe2(6-Me3-tpa)2(pp)][(BPh4)2] (2), and [Fe2(6-Me3-tpa)2(2'-NO2-pp)][(BPh4)2] (3), [Fe(6-Me3-tpa)(pp-Me)][BPh4] (4), [Fe(6-Me3-tpa)(CN-pp-Et)][BPh4] (5), and [Fe(Bn-bqa)(pp)] (8), in which PRV is pyruvate, PP is the enolate form of phenylpyruvate, 2'-NO2-PP is the enolate form of 2'-nitrophenylpyruvate, PP-Me is the enolate form of methyl phenylpyruvate, and CN-PP-Et is the enolate form of ethyl-3-cyanophenylpyruvate. The structures of mononuclear complexes 1 and 5 were determined by single-crystal X-ray diffraction. Both the PRV ligand in 1 and the CN-PP-Et ligand in 5 bind to the iron(II) center in a bidentate manner and form 5-membered chelate rings, but the alpha-keto moiety is in the enolate form in 5 with concomitant loss of a C-H(beta) proton. The PP ligands of 2, 3, 4, and 8 react with dioxygen to form benzaldehyde and oxalate products, which indicates that the C2-C3 PP bond is cleaved, in contrast to cleavage of the C1-C2 bond previously observed for complexes that do not contain alpha-ketocarboxylate ligands in the enolate form. These reactions serve as models for metal-containing dioxygenase enzymes that catalyze the cleavage of aliphatic C-C bonds.     

Mechanistic insight into water exchange and aqua/fluoride ligand substitution reactions on aqueous species of Al,Ga and In

Abstract

Two ligand substitution reactions on aqueous complexes of Al, Ga and In, water-exchange and aqua/fluoride substitution reactions, were investigated using density functional theory (DFT), and the preferred substituted mechanisms were estimated based on the activated energy barriers. A series of mechanistic changeovers were found and interpreted at the molecular level. Four factors influencing substitution mechanisms were summarized, i.e. the size of central metal ions, the volume of entering ligands, the charge of clusters, and structural rigidity. The present study provides an approach to probe the ligand substitution mechanism of some reactions inaccessible experimentally.     

N-Alkylamides from Piper longum L. and their stimulative effects on the melanin content and tyrosinase activity in B16 melanoma cells

Abstract

Piper longum L., known as long pepper, is an edible and medicinal plant used as spice and for the treatment of stomach disease and analgesia in traditional Chinese medicine. N-Alkylamides are the major secondary metabolites in this plant. Sixteen known N-alkylamides were isolated from P. longum. Their structures were established on the basis of spectroscopic data and comparison to reported literatures. Among them, five compounds were isolated from this plant for the first time. Ethanol extract, compounds 1, 2, 3, 7 and 11 exhibited potent ability to increase the melanin content and weak stimulative effect on the tyrosinase activity in a concentration-dependent manner. Moreover, compound 2 also presented strong capacity to increase the tyrosinase activity in a concentration-dependent manner. These results indicated that P. longum might be a good natural source of lead compound for skin disorder diseases.     

New insight into relaxation dynamics of an epoxy/hydroxy functionalized polybutadiene from dielectric and mechanical spectroscopy studies

Dielectric and mechanical spectroscopy methods have been employed to describe the temperature dependencies of the segmental and macromolecular relaxation rates in epoxy/hydroxy functionalized polybutadiene. Dielectric studies on the dynamics of segments of the polymer as well as the mobility of small ions trapped in the system have been carried out both as a function of temperature and pressure under isobaric and isothermal conditions, respectively.     

Mechanistic insights into the efficient intramolecular chemiexcitation of dioxetanones from TD-DFT and multireference calculations

Despite decades of research, it is still not clear what is the mechanism behind the efficient chemiexcitation of dioxetanones in chemiluminescent and bioluminescent reactions. In fact, long-standing theories (charge transfer-initiated luminescence and chemically induced electron-exchange luminescence) have been demonstrated to not be able to explain this phenomenon. Herein, a theoretical approach using reliable and up-to-date methodology was used to address this problem, by focusing on model dioxetanones. Time-dependent (TD)-Density functional theory (DFT) and multireference complete-active-space second-order perturbation theory (CASPT2) calculations provided evidence that points to efficient intramolecular chemiexcitation being the result of the reacting molecules having access to a long zone of the Potential energy surface (PES), within the biradicalar region, where S₀ and S₁ are degenerate. Molecules with inefficient chemiexcitation are unable to reach this zone of degeneracy. Our main finding is that access to the region of degeneracy appears to be given due to increased interaction between the keto and CO₂ moieties, as supported by the use of the activation strain model and Born-Oppenheimer molecular dynamics, which extends the biradical region by delaying the rupture of the peroxide ring. Increased interaction derives from attractive electrostatic interactions between the moieties of dioxetanone. Thus, we hypothesize that efficient chemiexcitation results not only from electron/charge transfer and subsequent charge annihilation but is instead based on the degree of interaction between the keto and CO₂ moieties, which controls the access to a region of degeneracy between the ground and excited states.     

Kinetics and thermodynamics of the electrodeposition of palladium, thallium, and tellurium from different baths

Some kinetic and activation thermodynamic functions for the electrodeposition of palladium, thallium, and tellurium from the best selected baths, viz. niclosamide bath [5-chloro-N-(2-chloro-4-nitrophenyl)-2-hydroxybenzamide] for Pd, alizarin red bath for Tl, and salicylaldehyde bath for Te, are determined. Reaction rate constant (k), half-lifetime (t _1/2), activation energy (E _a), and such activation thermodynamic parameters as entropy change (ΔS*), enthalpy change (ΔH*), and Gibbs free energy (ΔG*) are calculated by applying the rate theory of the first-order reaction and the Eyring theory of the reaction rate. The effect of temperature change in the range of 30–60°C on the above parameters is studied and thoroughly discussed. The effect of metal type on both the reaction rate and the activation energy is also investigated. Published in Russian in Elektrokhimiya, 2006, Vol. 42, No. 3, pp. 264–271. The text was submitted by the authors in English.     

Surface plasmon modes of gold nanospheres, nanorods, and nanoplates in an organic solvent: phase-transfer from aqueous to organic media

We present a process for the phase-transfer of gold nanoparticles from an aqueous to an organic medium with normal alkanethiols. This method can be applied not only to large nanospheres (d~100 nm) but also to anisotropic nanoparticles like nanorods and nanoplates. It allows the comparison of the nanoparticle optical properties when they are dispersed in both aqueous and organic media.     

Structure Determination of an AgI‐Mediated Cytosine–Cytosine Base Pair within DNA Duplex in Solution with 1H/15N/109Ag NMR Spectroscopy

The structure of an Ag^I‐mediated cytosine–cytosine base pair, C–Ag^I–C, was determined with NMR spectroscopy in solution. The observation of 1‐bond ¹⁵N‐¹⁰⁹Ag J‐coupling (¹J(¹⁵N,¹⁰⁹Ag): 83 and 84 Hz) recorded within the C–Ag^I–C base pair evidenced the N3–Ag^I–N3 linkage in C–Ag^I–C. The triplet resonances of the N4 atoms in C–Ag^I–C demonstrated that each exocyclic N4 atom exists as an amino group (?NH₂), and any isomerization and/or N4–Ag^I bonding can be excluded. The 3D structure of Ag^I–DNA complex determined with NOEs was classified as a B‐form conformation with a notable propeller twist of C–Ag^I–C (?18.3±3.0°). The ¹⁰⁹Ag NMR chemical shift of C‐Ag^I‐C was recorded for cytidine/Ag^I complex (δ(¹⁰⁹Ag): 442 ppm) to completed full NMR characterization of the metal linkage. The structural interpretation of NMR data with quantum mechanical calculations corroborated the structure of the C–Ag^I–C base pair.     

Aqueous organometallic chemistry. 3. Catalytic hydride transfer reactions with ketones and aldehydes using [Cp∗Rh(bpy)(H2O)](OTf)2 as the precatalyst and sodium formate as the hydride source: Kinetic and activation parameters, and the significance of steric and electronic effects

The reaction of a precatalyst, [Cp∗Rh(bpy)(H₂O)](OTf)₂ (1), with sodium formate provided the hydride complex, [Cp∗Rh(bpy)(H)]⁺ (2), in situ, at pH 7.0, which was then evaluated in an aqueous, catalytic hydride transfer process with water soluble substrates that encompass 2-pentanone (3), cyclohexanone (4), acetophenone (5), propionaldehyde (6), benzaldehyde (7), and p-methoxybenzaldehyde (8). The initial rates, r_i, of appearance of the reduction product alcohols at 23 °C provided a relative rate scale: 8 > 7 ≈ 6 > 5 > 4 > 3, while the effect of concentration of substrate, precatalyst, and sodium formate on r_i, using 7 as an example, implicates [Cp∗Rh(bpy)(H)]⁺ formation as the rate-limiting step. The experimental kinetic rate expression was found to be: d[alcohol]/dt = k_cat[1][HCO₂Na]; substrate being pseudo zero order in water. The steric effects were also analyzed and appeared to be of less importance intra both the ketone and aldehyde series, but an inter series comparison appeared to show that the aldehydes had less of a steric effect on the initial rate, i.e., 7 > 4 by a factor of 3.6, while the aldehyde series appeared to have some moderate electronic influence on rates, presumably via electron donation to increase binding to the Cp∗Rh metal ion center, in accordance with these proposed concerted binding/hydride transfer reactions. A proposed catalytic cycle will also be presented.     

Mechanistic insight into the preactivation of a modern palladium catalyst precursor in phosphine-free Heck reactions

Abstract  The use of well-defined trans-dichlorobis(diethanolamine-N)palladium(II) complex (trans-[PdCl₂(DEA)₂]) as a new, modern, and effective Heck precatalyst is reported. The mechanism of the key, initial steps of the reaction, i.e., the formation of the Pd(0) complex, is examined using density functional theory. Graphical abstract