Kinetic preference for the 3'-5'-linked dimer in the reaction of guanosine 5'-phosphorylmorpholinamide with deoxyguanosine 5'-phosphoryl-2-methylimidazolide as a function of poly(C) concentration.

The formation of the internucleotide bond in diguanylate synthesis was studied in aqueous solution at pH 8 and 0.2 M Mg2+ in the presence and absence of polycytidylate, poly(C). The investigation was simplified by using guanosine 5'-phosphorylmorpholinamide, mor-pG, which can act only as a nucleophile, and deoxyguanosine 5'-phosphoryl-2-methylimidazolide, 2-MeImpdG, which can act only as an electrophile. The time-dependent product distribution was monitored by high-performance liquid chromatography (HPLC) and liquid chromatography mass spectrometry (LC/MS). In the absence of poly(C) the reaction between mor-pG and 2-MeImpdG yielded small amounts of the dimer mor-pGpdG with a regioselectivity of 2'-5':3'-5' = 3.5. In the presence of poly(C) dimer yields increased and a reversal in regioselectivity occurred; both effects were in proportion to the concentration of the polymer. The results can be quantitatively explained with the proposition that poly(C), acting as the template, catalyzes the reaction between template-bound monomers by about a factor of 4-5 over the reaction in solution and yields dimers with a regioselectivity of 2'-5':3'-5' approximately 0.33. These findings illustrate the intrinsic preference of guanosine monomers to correctly self-assemble on the appropriate template.     

Kinetic dissection of individual steps in the poly(C)-directed oligoguanylate synthesis from guanosine 5'-monophosphate 2-methylimidazolide

A kinetic study of oligoguanylate synthesis on a polycytidylate template, poly(C), as a function of the concentration of the activated monomer, guanosine 5'-monophosphate 2-methylimidazolide, 2-MeImpG, is reported. Reactions were run with 0.005-0.045 M 2-MeImpG in the presence of 0.05 M poly(C) at 23 degrees C. The kinetic results are consistent with a reaction scheme (eq 1) that consists of a series of consecutive steps, each step representing the addition of one molecule of 2-MeImpG to the growing oligomer. This scheme allows the calculation of second-order rate constants for every step by analyzing the time-dependent growth of each oligomer. Computer simulations of the course of reaction based on the determined rate constants and eq 1 are in excellent agreement with the product distributions seen in the HPLC profiles. In accord with an earlier study (Fakhrai, H.; Inoue, T.; Orgel, L. E. Tetrahedron 1984, 40, 39), rate constants, ki, for the formation of the tetramer and longer oligomers up to the 16-mer were found to be independent of length and somewhat higher than k3 (formation of trimer), which in turn is much higher than k2 (formation of dimer). The ki (i > or = 4), k3, and k2 values are not true second-order rate constants but vary with monomer concentration. Mechanistic models for the dimerization (Scheme I) and elongation reactions (Scheme II) are proposed that are consistent with our results. These models take into account that the monomer associates with the template in a cooperative manner. Our kinetic analysis allowed the determination of rate constants for the elementary processes of covalent bond formation between two monomers (dimerization) and between an oligomer and a monomer (elongation) on the template. A major conclusion from our study is that bond formation between two monomer units or between a primer and a monomer is assisted by the presence of additional next-neighbor monomer units. This is consistent with recent findings with hairpin oligonucleotides (Wu, T.; Orgel, L. E. J. Am. Chem. Soc. 1992, 114, 317). Our study is the first of its kind that shows the feasibility of a thorough kinetic analysis of a template-directed oligomerization and provides a detailed mechanistic model of these reactions.     

Kinetic studies of the oxidation ofN-(2-hydroxycyclohexyl)-ethylenediaminetriacetatochromate(III) by periodate

The kinetics of the oxidation of [Cr^III(H₂O)(XOH)], (XOH=N-(2-hydroxycyclohexyl)ethylenediaminetriacetate) to Cr^VI by periodate have been investigated in aqueous solution at various pH values (6.00–7.20) and temperatures (15.0–35.0°C). The reaction follows the rate law:

The reduction of tris-dithiolene complexes of molybdenum(VI) and tungsten(VI) by hydroxide ion: kinetics and mechanism

The kinetic study of the spontaneous reduction of some neutral tris-dithiolene complexes [ML3] of molybdenum(VI) and tungsten(VI), (L = S2C6H4(2-), S2C6H3CH3(2-) and S2C2(CH3)2(2-); M = Mo or W) by tetrabutylammonium hydroxide in tetrahydrofuran-water solutions demonstrates that OH- is an effective reductant. Their reduction is fast, clean and quantitative. Depending upon both the molar ratio in which the reagents are mixed and the amount of water present, one- or two-electron reductions of these tris-dithiolene complexes were observed. If Bu4NOH is present in low concentration or/and at high concentrations of water, the total transformation of the neutral M(VI) complex into the monoanionic M(V) complex is the only observed process. Stopped-flow kinetic data for this reaction are consistent with the rate law: -d[ML3]/dt = d[ML3-]/dt = k[ML3][Bu4NOH]. The proposed mechanism involves nucleophilic attack of OH- to form a mono-anionic seven-coordinate intermediate [ML3OH]-, which interacts with another molecule of [ML3] to generate the monoanionic complex [ML3]- transfering the oxygen from coordinated OH- to water. Hydrogen peroxide was identified as the reaction product. The molybdenum complexes are more difficult to reduce than their corresponding tungsten complexes, and the values of k obtained for the molybdenum and tungsten series of complexes increase as the ene-1,2-dithiolate ligand becomes more electron-withdrawing (S2C6H4(2-) > S2C6H3CH3(2-) > S2C2(CH3)2(2-)). This investigation constitutes the only well-established interaction between hydroxide ion and a tris(dithiolene) complex, and supports a highly covalent bonding interaction between the metal and the hydroxide ion that modulates electron transfer reactions within these complexes.     

Vergleichende Untersuchung der Bromaddition an symmetrisch substituierte Stilben- und Tolan-Derivate

The addition of bromine to multiple bond systems is generally maintained to be an electrophilic reaction. Assuming an electrophilic mechanism however leads to difficulties with reactions on the CC triple bond system. In addition, the few existing investigations show a strong influence of trace contaminations. Through the principle of preliminary reactions, proven in polymer reactions, it was possible to obtain pure bromobenzene solutions of stilbene, tolane, p,p′-dimethyl-stilbene and-tolane, m,m′-dimethyl-stilbene and-tolane, p,p′-dibrom-stilbene and-tolane, m,m′-dinitro-stilbene and-tolane, p,p′-dinitro-stilbene and-tolane, as well as of bromine. With such solutions, for all cases of brominations, the rate law obtained ([c] = concentration of unsaturated compound) was

$$d[Br_2 ]/dt = d[c]/dt = k[Br_2 ]^2 [c]$$     

Oxidations of hypophosphorus and arsenious acids by 12-tungstocobaltate(III) anion in aqueous solution

Summary The kinetics of oxidation of hypophosphorus and arsenious acids by 12-tungstocobaltate(III) anion have been studied in aqueous hydrochloric acid at constant ionic strength (I=2.0 M NaCl). The reactions obey the second-order rate law d[oxidant]/dt=2k [oxidant] [reductant]. Variation of [H⁺] in the range 0.10–1.50 M has no effect on the rates. Possible mechanistic interpretations of these observations are suggested.     

Unsaturated polyesters—IV. Kinetics of polyesterification of cinnamylsuccinic acid with 1,4-tetramethylene glycol

The polyesterifications of cinnamylsuccinic acid with 1,4-tetramethylene glycol in both equimolar and non-equimolar ratios were investigated over the range of 130–180°C in the absence and the presence of p-toluenesulphonic acid as catalyst. The kinetic equations were: d[COOH]/dt = k₁[COOH][OH]² and d[COOH]/dt = k₂[COOH]² for uncatalyzed and acid-catalyzed polyesterifications, respectively. The apparent rate constants for uncatalyzed and acid-catalyzed reactions were evaluated by using the method of least squares for various values of initial molar ratios between [OH] and [COOH]. The activation parameters were also calculated.     

Synthesis and nucleic acid-binding properties of water-soluble porphyrins appending platinum(II) complexes.

We synthesized two water-soluble porphyrins appending platinum(II) complexes [alpha,beta-(4a) and alpha,alpha-(4b) 5,15-bis(2-trans-[PtCl(NH3)2]N-2-aminoethylaminocarbonylphenyl) 2,3,7,8,12,13,17,18-octamethylporphyrin] and studied their reactions with a variety of nucleic acids [disodium adenosine-5'-monophosphate (AMP), disodium guanosine-5'-monophosphate (GMP), disodium thymidine-5'-monophosphate (TMP), disodium cytidine-5'-monophosphate (CMP), synthetic polymer poly(dG)-poly(dC), poly(dA)-poly(dT)] by 1H-NMR, UV-vis and FAB-MS spectroscopies. Based on the denaturation experiments of synthetic nucleic acid polymers, we conclude that the presence of the porphyrins (5.6 microM) does not cause significant changes in the melting temperature of poly(dA)-poly(dT) (28 microM) (deltaT=1 degrees C) and shows reannealing. On the other hand, gradual melting of poly(dG)-poly(dC) (28 microM) occurs at a low temperature (deltaT= -27 degrees C) in the presence of the porphyrins (5.6 microM), and the solutions do not show reannealing phenomena. The results of UV-vis and 1H-NMR experiments revealed that the porphyrins bind to guanine bases and that the porphyrins bind to GMP more strongly than to the other nucleotides. The binding modes between the porphyrins and synthetic nucleic acids are affected more by the coordination of the nucleobase [poly(dG)-poly(dC)] to the Pt(II) in the porphyrins than by Coulomb and hydrophobic interactions.     

钒-铝催化丁二烯、丙烯交替共聚合的动力学研究(Ⅰ)——交替共聚合速度方程

本文研究了VO[OCH₂C(CH₃)₃]₂Cl-Ali-Bu₃催化丁二烯、丙烯交替共聚合的动力学特征,测定了单体和催化剂的反应级数,建立了聚合速度方程,并求得了-80℃-20℃温度范围内的一级速率常数K和总活化能E_T.     

Synthesis of epoxyquinol A and related molecules: probing chemical reactivity of epoxyquinol dimers and 2H-pyran precursors

Total syntheses of the epoxyquinoid dimers, epoxyquinols A, B, and epoxytwinol A (RKB-3564 D), have been accomplished employing [4 + 2] and [4 + 4] dimerization of 2H-pyran epoxyquinol monomers. Modifications of 2H-pyran precursors have been explored, including alteration of epoxy alcohol and diene stereochemistry. A stable 2H-pyran prepared by alteration of the epoxyquinol 2H-pyran nucleus was evaluated as a diene in Diels-Alder cycloaddition with reactive dienophiles. Extensive studies for improving the [4 + 4] dimerization of selectively protected 2H-pyran monomers to afford the novel epoxyquinoid dimer epoxytwinol A were carried out, and valuable insight regarding competitive [4 + 2] and [4 + 4] dimerization processes has been obtained. In addition, chemical reactivities and structural modifications of epoxyquinol dimers have been evaluated, including [2 + 2] photocycloaddition and [3,3] sigmatropic rearrangement, indicating the possibility for production of novel structural diversity from dimeric epoxyquinoid natural product frameworks.     

Synthesis of the epoxyquinol dimer RKB-3564 D: utilization of an alkoxysilanol to promote [4 + 4] dimerization

The synthesis of the epoxyquinol dimer RKB-3564 D (3) is reported, employing an alkoxysilanol protecting group to redirect the inherently favored [4 + 2] dimerization of 2H-pyran monomers to a [4 + 4] manifold. Preliminary mechanistic studies indicate that the [4 + 4] dimerization may occur through a stepwise, ionic process.     

Ab initio and experimental studies on the hetero-Diels-Alder and cheletropic additions of sulfur dioxide to (E)-1-methoxybutadiene: a mechanism involving three molecules of SO(2)

Kinetics on the cheletropic addition of sulfur dioxide to (E)-1-methoxybutadiene (1) to give the corresponding sulfolene 2 (2-methoxy-2,5-dihydrothiophene-1,1-dioxide) gave the rate law d[2]/dt = k[1][SO(2)](x)() with x = 2.6 +/- 0.2 at 198 K. Under these conditions, no sultine 3 [(2RS,6RS)-6-methoxy-3,6-dihydro-1,2-oxathiin-2-oxide] resulting from a hetero-Diels-Alder addition was observed, and the cheletropic elimination 2 --> 1 + SO(2) did not occur. Ab initio and DFT quantum calculations confirmed that the cheletropic addition 1 + SO(2) --> 2 follows two parallel mechanisms, one involving two molecules of SO(2) and the transition structure with DeltaG(++) = 18.2 +/- 0.2 kcal/mol at 198 K (exptl); 22.5-22.7 kcal/mol [B3LYP/6-31G(d,p)], the other one involving three molecules of SO(2) with DeltaG(++) = 18.9 +/- 0.1 kcal/mol at 198 K (exptl); 19.7 kcal/mol [B3LYP/6-31G(d,p)]. The mechanism involving only one molecule of SO(2) in the transition structure requires a higher activation energy, DeltaG(++) = 25.2 kcal/mol [B3LYP/6-31G(d,p)]. Comparison of the geometries and energetics of the structures involved into the 1 + SO(2) --> 2, 3 and 1 + 2SO(2) --> 2, 3 + SO(2) reactions obtained by ab initio and DFT methods suggest that the latter calculation techniques can be used to study the cycloadditions of sulfur dioxide. The calculations predict that the hetero-Diels-Alder addition 1 + SO(2) --> 3 also prefers a mechanism in which three molecules of SO(2) are involved in the cycloaddition transition structure. At 198 K and in SO(2) solutions, the entropy cost (TDeltaS(++)) is overcompensated by the specific solvation by SO(2) in the transition structures of both the cheletropic and hetero-Diels-Alder reactions of (E)-1-methoxybutadiene with SO(2).     

Reversible color changes in lamella hybrids of poly(diacetylenecarboxylates) incorporated in layered double hydroxide nanosheets

The present study is an investigation of a reversible thermal color change induced in lamella hybrids of poly(diacetylenecarboxylates) incorporated in layered double hydroxide (LDH) nanosheets. These poly-[m,n]/LDH hybrids prepared by the photo- or gamma-ray-induced polymerization of diacetylenecarboxylates, i.e., CH(3)(CH(2))(m)()(-)(1)CC-CC(CH(2))(n)()(-)(1)CO(2)(-) (mono-[m,n]), and intercalated in LDH lamella sheets, were observed to develop colors ranging from yellow to blue. The change in color was found to depend greatly on the alkyl carbon numbers of the mono-[m,n] (m,n = 10,11; 5,11; 10,5; 16,1) values. Moreover, the conformational alignment of the mono-[m,n] within the LDH was observed to be a crucial factor in color development, which was greatly affected by the intercalation degrees and extent of poly(ene-yne) linkage elongation of the polymers. For the poly-[m,n]/LDH hybrids investigated, a reversible color change was found to occur repeatedly and remarkably for the poly-[10,11]/LDH hybrid. This color change occurred at temperatures between ca. 20 and 80 degrees C back and forth from purple red to bright orange, in stark contrast to the irreversible color change for poly-[10,11] without LDH. Moreover, DSC and Raman spectroscopic studies of the LDH hybrids showed that the thermochromic temperature corresponded to the phase transition temperature of 80 degrees C. XRD analysis also indicated that the poly-[m,n]/LDH hybrid could retain its lamella structure during such thermochromic color changes, enabling conformational recovery in the polymer chains by a cooling down of the hybrids to temperatures lower than the transition temperature, while the nonhybrid poly-[10,11] powders exhibited an irreversible color change at 60 degrees C, above which the polymer powder turned amorphous.     

Two-electron oxidation of deoxyguanosine by a Ru(III) complex without involving oxygen molecules through disproportionation

Among the many mechanisms for the oxidation of guanine derivatives (G) assisted by transition metals, Ru(III) and Pt(IV) metal ions share basically the same principle. Both Ru(III)- and Pt(IV)-bound G have highly positively polarized C8-H's that are susceptible to deprotonation by OH(-), and both undergo two-electron redox reactions. The main difference is that, unlike Pt(IV), Ru(III) is thought to require O(2) to undergo such a reaction. In this study, however, we report that [Ru(III)(NH(3))(5)(dGuo)] (dGuo = deoxyguanosine) yields cyclic-5'-O-C8-dGuo (a two-electron G oxidized product, cyclic-dGuo) without O(2). In the presence of O(2), 8-oxo-dGuo and cyclic-dGuo were observed. Both [Ru(II)(NH(3))(5)(dGuo)] and cyclic-dGuo were produced from [Ru(III)(NH(3))(5)(dGuo)] accelerated by [OH(-)]. We propose that [Ru(III)(NH(3))(5)(dGuo)] disproportionates to [Ru(II)(NH(3))(5)(dGuo)] and [Ru(IV)(NH(3))(4)(NH(2)(-))(dGuo)], followed by a 5'-OH attack on C8 in [Ru(IV)(NH(3))(4)(NH(2)(-))(dGuo)] to initiate an intramolecular two-electron transfer from dGuo to Ru(IV), generating cyclic-dGuo and Ru(II) without involving O(2).     

The effect of environment on local dynamics of macromolecules

The role of local environment on mobility of chain molecules is illustrated by considering the case of a miscible mixture of two polymers. The historical background, observed dynamic responses to mixing, and theoretical explanations for these responses are outlined. Two miscible blend systems: poly(isoprene) [PI]/poly(vinyl ethylene) [PVE] and poly(ethylene oxide) [PEO]/poly(methyl methacrylate) [PMMA] are reviewed in detail, with available data consolidated in a set of figures. Unusual features of the PEO/PMMA blend are discussed.     

Kinetics of substitution of aquo ligands fromcis-diaquo-bis-(biguanide) cobalt(III) and chromium(III) ions by aspartic acid in ethanol—water mixtures

The kinetics of substitution of aqua ligands fromcis-diaqua-bis(biguanide)cobalt(III) and chromium(III) ions by aspartic acid in EtOH–H₂O media have been studied spectrophotometrically in the 30 to 45°C range. We propose the following rate law for the anation

基于双发射免标记核酸探针的比率型荧光传感器用于银的检测

构建了一种新型免标记的双发射荧光比率核酸探针(GelRed/[G40]/Tb^3+)并用于Ag+的检测。对于GelRed/[G40]/Tb^3+探针,GelRed作为一种核酸染料嵌入到单链DNA-[G40]中,形成的GelRed/[G40]作为稳定的内置参照标准,在激发波长290 nm处,发射荧光强度固定不变的红色荧光(发射波长为635 nm),而[G40]/Tb^3+作为敏感的响应信号,随着Ag^+浓度的增加,产生的绿色荧光逐渐增强(发射波长为545 nm),[G40]/Tb3+与GelRed/[G40]发射的荧光强度比值也发生相应的改变,从而实现对Ag^+的定量检测。在优化的实验条件下,[G40]/Tb^3+与GelRed/[G40]荧光强度比值和Ag^+浓度在0~7.5μmol/L的范围内具有较好的线性关系,Ag^+检出限为0.156μmol/L。本传感器在10 min内就可完成对Ag^+的分析。方法已用于自来水样中Ag^+的检测,与ICP-MS法检测结果一致。     

Novel Kinetic Method for Expressing the Ability of Antioxidant to Scavenge Radicals

A method was developed to treat the result from an antioxidant trapping radicals including 2,2'-azinobis (3-ethylbenzothiazoline-6-sulfonate) cationic radical(ABTS^+·), 2,2'-diphenyl-1-picrylhydrazyl radical(DPPH), and galvinoxyl radical. In the presence of a certain concentration of an antioxidant, the decrease of the concentration of a kind of radicals follows the second order exponential function with the increase of the reaction time(t), viz.,[radical]=Ae^-t/a+Be^-t/b+C, the derivation operation of which obtains the differential style, -d[radical]/dt= (A/a)e^-t/a+(B/b)e^-t/b, revealing the relationship between the reaction rate(r=-d[radical]/dt) and the reaction time(t). Thus, the reaction rate at the beginning of the reaction(r₀) can be calculated by assigning t=0 in the equation of -d[radical]/dt-t. Based on the concept of the reaction rate, r=k[radical][antioxidant], the rate constant(k) can be calculated based on r₀ and the initial concentrations of radical and antioxidant, k=r₀/([radical]₀[antioxidant]₀). The k means the rate of a fresh antioxidant molecule to trap a fresh radical. This method was used to treat the interactions of ABTS^+·, DPPH, and galvinoxyl radicals with three homoisoflavonoids, four pyrazoles, and three ferrocenyl Schiff bases. It was found that ferrocenyl group is beneficial for antioxidants to reduce ABTS^+·, and ortho-hydroxyl group is beneficial for antioxidants to donate hydrogen atom in phenolic hydroxyl group to DPPH and galvinoxyl radicals.     

Interaction of methyl beta-D-xylopyranoside with metal ions: density functional theory study of cationic and neutral bridging and pendant complexes

Density functional theory calculations on complexes of 4C1, 1C4 and 2SO ring conformations of methyl beta-D-xylopyranoside 1 with divalent metal cations, M = Mg2+, Ca2+, Zn2+, and Cd2+, are presented. Bridging and pendant cationic, [M(H2O)41]2+ and [M(H2O)(5)1]2+, as well as neutral complexes, [M(OH)2(H2O)(2)1] and [M(OH)2(H2O)(3)1], and neutral complexes involving a doubly deprotonated sugar, [M(H2O)(4)1(2-)], are considered. In aqueous and chloroform solution the stability of cationic and pendant neutral complexes is greatly diminished compared with gas-phase results. In contrast, bridging neutral complexes [M(OH)2(H2O)(2)1] and those of type [M(H2O)(4)1(2-)], are stabilized with increasing solvent polarity. Solvation also profoundly influences the preferred binding position and ring conformation. Compared with complexes of bare metal cations, additional ligands, e.g., H2O or OH-, significantly reduce the stability of 1C4 ring complexes. Irrespective of the cation, the most stable structure of bridging complexes [M(H2O)(4)1]2+ results from coordination of the metal to O3 and O4 of methyl beta-D-xylopyranoside in its 4C1 ring conformation.     

Magnesium ion catalyzed P-N bond hydrolysis in imidazolide-activated nucleotides. Relevance to template-directed synthesis of polynucleotides

Magnesium, an ion necessary in enzymatic as well as in nonenzymatic template-directed polynucleotide-synthesizing reactions, has been found to catalyze the hydroxide ion attack on the P-N bond of selected 5'-monophosphate imidazolide derivatives of nucleotides, such as guanosine 5'-monophosphate 2-methylimidazolide (2-MeImpG), guanosine 5'-monophosphate imidazolide (ImpG), and adenosine 5-monophosphate 2-methylimidazolide (2-MeImpA). Calcium ion behaves similarly, but quantitatively the effects are smaller. Pseudo-first-order rate constants of 2-MeImpG and ImpG hydrolysis as a function of Mg2+ concentration have been obtained in the range 6 < or = pH < or = 10 at 37 degrees C. Mg2+ catalysis is particularly effective around pH 10 where a 0.02 M concentration leads to 15-fold acceleration and a 0.2 M concentration to a 115-fold acceleration of the rate. At other pH values Mg2+ catalysis is less dramatic, mainly because the noncatalyzed reaction is faster. Mg2+ catalysis is attributed to the reaction of the zwitterionic form of the substrate (SH+/-, imidazolide moiety protonated) with OH- rather than reaction of the anionic form (S-, imidazolide moiety deprotonated) with water. This conclusion is based on a study of the N-methylated substrates N-MeImpG and 1,2-diMeImpg, respectively, which were generated in situ by the equilibrium reaction of ImpG with N-methylimidazole and 2-MeImpG with 1,2-dimethylimidazole, respectively. In contrast, the absence of Mg2+ the reaction of S- with water competes with the reaction of SH+/- with OH-. The present study bears on the mechanism of the Mg2(+)-catalyzed template-directed synthesis of oligo-and polynucleotides derived from 2-MeImpG and on the competition between oligonucleotide synthesis and hydrolysis of 2-MeImpG.