Biomedical subjects

Daniel A Singleton

Publications and source records attributed to Daniel A Singleton.

14 recordsLinked to original sources

PubMed2006

Dynamic effects on the periselectivity, rate, isotope effects, and mechanism of cycloadditions of ketenes with cyclopentadiene.

The cycloadditions of cyclopentadiene with diphenylketene and dichloroketene are studied by a combination of kinetic and product studies, kinetic isotope effects, standard theoretical calculations, and trajectory calculations. In contrast to recent reports, the reaction of cyclopentadiene with diphenylketene affords both [4 + 2] and [2 + 2] cycloadducts directly. This is surprising, since there is only one low-energy transition structure for adduct formation in mPW1K calculations, but quasiclassical trajectories started from this single transition structure afford both [4 + 2] and [2 + 2] products. The dichloroketene reaction is finely balanced between [4 + 2] and [2 + 2] cycloaddition modes in mPW1K calculations, as the minimum-energy path (MEP) leads to different products depending on the basis set. The MEP is misleading in predicting a single product, as trajectory studies for the dichloroketene reaction predict that both [4 + 2] and [2 + 2] products should be formed. The periselectivity does not reflect transition state orbital interactions. The (13)C isotope effects for the dichloroketene reaction are well-predicted from the mPW1K/6-31+G** transition structure. However, the isotope effects for the diphenylketene reaction are not predictable from the cycloaddition transition structure and transition state theory. The isotope effects also appear inconsistent with kinetic observations, but the trajectory studies evince that nonstatistical recrossing can reconcile the apparently contradictory observations. B3LYP calculations predict a shallow intermediate on the energy surface, but trajectory studies suggest that the differing B3LYP and mPW1K surfaces do not result in qualitatively differing mechanisms. Overall, an understanding of the products, rates, selectivities, isotope effects, and mechanism in these reactions requires the explicit consideration of dynamic trajectories.

Algorithms↗

PubMed2005

"Concerted" transition state, stepwise mechanism. Dynamics effects in C2-C6 enyne allene cyclizations.

The C2-C6 (Schmittel)/ene cyclization of enyne-allenes is studied by a combination of kinetic isotope effects, theoretical calculations, and dynamics trajectories. For the cyclization of allenol acetate 9, the isotope effect (k(CH3)/k(CD3) is approximately 1.43. The isotope effect is interpreted in terms of a highly asynchronous transition state near the concerted/stepwise boundary. This is supported by density functional theory calculations that locate a highly asynchronous transition structure for the concerted ene reaction. However, calculations of both the experimental system and a model reaction were unable to locate a transition structure for formation of the diradical intermediate of a stepwise mechanism. The stepwise mechanism and the asynchronous concerted mechanism start out geometrically similar, and the two pathways appear to have merged as far as the initial transition structure. For the model reaction, quasiclassical direct dynamics trajectories emanating from the initial transition structure afforded the diradical intermediate in 29 out of 101 trajectories. A large portion of the remaining trajectories completes hydrogen transfer before carbon-carbon bond formation, despite the advanced carbon-carbon bond formation in the asynchronous transition structure. Overall, the single minimum-energy path from starting material to product is inadequate to describe the reaction, and a consideration of dynamic effects is necessary to understand the mechanism. The implications of these observations toward questions of concert in other reactions are discussed.

Alkadienes↗

PubMed2005

Isotope effects and the nature of enantioselectivity in the shi epoxidation. The importance of asynchronicity.

The epoxidation of beta-methylstyrene catalyzed by the Shi fructose-derived ketone is studied using experimental kinetic isotope effects and DFT calculations. The observation of a large beta olefinic (13)C isotope effect and small alpha carbon isotope effect is indicative of an asynchronous transition state with more advanced formation of the C-O bond to the beta olefinic carbon. By varying the catalyst conformation and alkene orientation, diverse transition structure geometries were located calculationally, and the lowest-energy structure leads to an accurate prediction of the isotope effects. Given this support for the accuracy of the calculations employed, the nature of enantioselectivity in this and related epoxidations is considered. The lowest-energy transition structures are generally those in which the differential formation of the incipient C-O bonds, the "asynchronicity," resembles that of an unhindered model, and the imposition of greater or less asynchronicity leads to higher barriers. In reactions of cis-disubstituted and terminal alkenes using Shi's oxazolidinone catalyst, the asynchronicity of the epoxidation transition state leads to increased steric interaction with the oxazolidinone when a pi-conjugating substituent is distal to the oxazolidinone but decreased steric interaction when the pi-conjugating substituent is proximal to the oxazolidinone. Overall, the asynchronicity of the transition state must be considered carefully to understand the enantioselectivity.

Carbon Isotopes↗

PubMed2005

Mechanism and origin of enantioselectivity in the Rh2(OAc)(DPTI)3-catalyzed cyclopropenation of alkynes.

The mechanism of cyclopropenations of alkynes with ethyl diazoacetate catalyzed by Rh2(OAc)4 and Rh2(OAc)(DPTI)3 (1) is studied by a combination of kinetic isotope effects and theoretical calculations. With each catalyst, a significant normal 13C KIE was observed for the terminal acetylenic carbon, while a very small 13C KIE was observed at the internal acetylenic carbon. These isotope effects are predicted well from canonical variational transition structures for cyclopropenations with intact tetrabridged rhodium carbenoids. A viable mechanism based on the recently proposed importance of a [2 + 2] cycloaddition on a tribridged rhodium carbenoid could not be identified. An explanation for the enantioselectivity with DPTI ligands is described.

Alkynes↗

PubMed2005

The normal range for secondary Swain-Schaad exponents without tunneling or kinetic complexity.

An analysis is presented of the range of secondary Swain-Schaad exponents to be expected at 25 degrees C in the absence of tunneling or kinetic complexity. From 15 996 sets of exact harmonic semiclassical equilibrium isotope effects for simple C-H/D/T exchange reactions and 954 sets of exact harmonic semiclassical secondary H/D/T kinetic isotope effects for C-H positions in simple organic reactions, the distribution of Swain-Schaad exponents versus magnitude of the isotope effect is determined. This distribution defines when a secondary Swain-Schaad exponent may be considered to implicate nonsemiclassical behavior, revises the expected Swain-Schaad exponent for extrapolation of secondary isotope effects, and serves as a guide to the uncertainty in such extrapolations.

Hydrogen↗

PubMed2005

Isotope effects, dynamics, and the mechanism of solvolysis of aryldiazonium cations in water.

The mechanism of the heterolytic solvolysis of p-tolyldiazonium cation in water was studied by a combination of kinetic isotope effects, theoretical calculations, and dynamics trajectories. Significant (13)C kinetic isotope effects were observed at the ipso (k(12)C/k(13)C = 1.024), ortho (1.017), and meta (1.013) carbons, indicative of substantial weakening of the C(2)-C(3) and C(5)-C(6) bonds at the transition state. This is qualitatively consistent with a transition state forming an aryl cation, but on a quantitative basis, simple S(N)1 heterolysis does not account best for the isotope effects. Theoretical S(N)2Ar transition structures for concerted displacement of N(2) by a single water molecule lead to poor predictions of the experimental isotope effects. The best predictions of the (13)C isotope effects arose from transition structures for the heterolytic process solvated by clusters of water molecules. These structures, formally saddle points for concerted displacements on the potential energy surface, may be described as transition structures for solvent reorganization around the aryl cation. Quasiclassical dynamics trajectories starting from these transition structures afforded products very slowly, compared to a similar S(N)2 displacement, and the trajectories often afforded long-lived aryl cation intermediates. Critical prior evidence for aryl cation intermediates is reconsidered with the aid of DFT calculations. Overall, the nucleophilic displacement process for aryldiazonium ions in water is at the boundary between S(N)2Ar and S(N)1 mechanisms, and an accurate view of the reaction mechanism requires consideration of dynamic effects.

Carbon Isotopes↗

PubMed2004

Isotope effects and the nature of stereo- and regioselectivity in hydroaminations of vinylarenes catalyzed by palladium(ii)-diphosphine complexes.

[reaction: see text] The hydroamination of styrene with aniline catalyzed by phosphine-ligated palladium triflates exhibits a substantial (13)C isotope effect at the benzylic carbon. This supports rate-determining nucleophilic attack of amine on a eta(3)-phenethyl palladium complex. Deuterium exchange observations and predicted isotope effects based on DFT calculations support this mechanism. Selectivity in these reactions is determined by the facility of palladium displacement after reversible hydropalladation of the alkene.

Amines↗

PubMed2003

Isotope effects and the nature of selectivity in rhodium-catalyzed cyclopropanations.

The mechanism of the dirhodium tetracarboxylate catalyzed cyclopropanation of alkenes with both unsubstituted diazoacetates and vinyl- and phenyldiazoacetates was studied by a combination of (13)C kinetic isotope effects and density functional theory calculations. The cyclopropanation of styrene with methyl phenyldiazoacetate catalyzed by Rh(2)(octanoate)(4) exhibits a substantial (13)C isotope effect (1.024) at the terminal olefinic carbon and a smaller isotope effect (1.003-1.004) at the internal olefinic carbon. This is consistent with a highly asynchronous cyclopropanation process. Very similar isotope effects were observed in a bisrhodium tetrakis[(S)-N-(dodecylbenzenesulfonyl)prolinate] (Rh(2)(S-DOSP)(4) catalyzed reaction, suggesting that the chiral catalyst engages in a very similar cyclopropanation transition-state geometry. Cyclopropanation with ethyl diazoacetate was concluded to involve an earlier transition state, based on a smaller terminal olefinic isotope effect (1.012-1.015). Density functional theory calculations (B3LYP) predict a reaction pathway involving complexation of the diazoesters to rhodium, loss of N(2) to afford a rhodium carbenoid, and an asynchronous but concerted cyclopropanation transition state. The isotope effects predicted for reaction of a phenyl-substituted rhodium carbenoid with styrene match within the error of the experimental values, supporting the accuracy of the theoretical calculations and the rhodium carbenoid mechanism. The accuracy of the calculations is additionally supported by excellent predictions of reaction barriers, stereoselectivity, and reactivity trends. The nature of alkene selectivity and diastereoselectivity effects in these reactions is discussed, and a new model for enantioselectivity in Rh(2)(S-DOSP)(4)-catalyzed cyclopropanations is presented.

Alkenes↗

PubMed2003

Exo-selective Diels-Alder reactions of vinylazepines. Origin of divergent stereoselectivity in Diels-Alder reactions of vinylazepines, vinylpiperideines, and vinylcycloalkenes.

Diels-Alder reactions of vinylazepines with N-phenylmaleimide afforded exclusively the exo cycloadduct, while high endo stereoselectivity was observed, as previously reported, in analogous reactions of vinylpiperideines. This curious contrast was confirmed by X-ray analysis of cycloadducts not susceptible to epimerization. The stereoselectivity of Diels-Alder reactions of vinylazepines, vinylpiperideines, and vinylcycloalkenes exhibits surprising divergence depending on the detailed diene structure, and DFT calculations (Becke3LYP) were undertaken to shed light on these observations. The model calculations correctly predict the major stereoisomers in these reactions, though they tend to significantly underestimate the stereoselectivity. The results suggest some general considerations in predicting or controlling the stereochemistry of this class of Diels-Alder reactions.

Azepines↗

PubMed2003

A few molecules can control the enantiomeric outcome. Evidence supporting absolute asymmetric synthesis using the Soai asymmetric autocatalysis.

[reaction: see text] Experiments were carried out to investigate whether the Soai asymmetric autocatalysis can accomplish true absolute asymmetric synthesis. In 54 reactions, R and S enantiomeric products were obtained 27 times each. Of 25 pairs of side-by-side identical reactions, 12 afforded opposite enantiomers. In a test of the mechanistic viability of a random-chance process, it was found that a very few molecules (approximately 60 000) were sufficient to control the enantiomeric outcome of these reactions. These observations appear most consistent with asymmetric synthesis originating from the chance enantiomeric excess in a racemate.

Catalysis↗

PubMed2003

A new form of kinetic isotope effect. Dynamic effects on isotopic selectivity and regioselectivity.

The intramolecular H/D kinetic isotope effect in the ene reaction of singlet oxygen with tetramethylethylene is studied using quasiclassical direct dynamics calculations on a B3LYP/6-31G* potential energy surface. Starting from the area of the energy surface around a valley-ridge inflection point, random trajectories lead to predominantly H abstraction over D abstraction, despite the symmetry of the surface and the absence of a barrier to either reaction. This demonstrates a new form of kinetic isotope effect, unrelated to the usual effect of zero-point energies on barriers. Dynamics calculations on the reaction of cis-2-pentene predict the experimentally observed mixture of regioisomeric products, while the minimum-energy path leads to only one product. For energy surfaces containing two adjacent saddle points, dynamics effects are important for understanding both product and isotopic selectivity, and this should be considered in the interpretation of experimental results.

Alkenes↗

PubMed2003

Mechanism of ene reactions of singlet oxygen. A two-step no-intermediate mechanism.

The mechanism of the ene reaction of singlet ((1)delta(g)) oxygen with simple alkenes is investigated by a combination of experimental isotope effects and several levels of theoretical calculations. For the reaction of 2,4-dimethyl-3-isopropyl-2-pentene, the olefinic carbons exhibit small and nearly equal (13)C isotope effects of 1.005-1.007, while the reacting methyl groups exhibit (13)C isotope effects near unity. In a novel experiment, the (13)C composition of the product is analyzed to determine the intramolecular (13)C isotope effects in the ene reaction of tetramethylethylene. The new (13)C and literature (2)H isotope effects are then used to evaluate the accuracy of theoretical calculations. RHF, CASSCF(10e, 8o), and restricted and unrestricted B3LYP calculations are each applied to the ene reaction with tetramethylethylene. Each predicts a different mechanism, but none leads to reasonable predictions of the experimental isotope effects. It is concluded that none of these calculations accurately describe the reaction. A more successful approach was to use high-level, up to CCSD(T), single-point energy calculations on a grid of B3LYP geometries. The resulting energy surface is supported by its accurate predictions of the intermolecular (13)C and (2)H isotope effects and a very good prediction of the reaction barrier. This CCSD(T)//B3LYP surface features two adjacent transition states without an intervening intermediate. This is the first experimentally supported example of such a surface and the first example of a valley-ridge inflection with significant chemical consequences.

Alkenes↗

PubMed2002

Isotope effects and the mechanism of an electron-transfer-catalyzed Diels-Alder reaction.

The electron-transfer-catalyzed Diels-Alder reaction of indole and 1,3-cyclohexadiene was studied by a combination of experimental and theoretical methods. The (13)C kinetic isotope effects were determined at natural abundance by NMR methodology. B3LYP/6-31G* calculations allow for the first time a quantitatively accurate description of the different possible pathways and provide the basis for an analysis of the experimentally observed isotope effects. The computational results, in conjunction with experimental observations, show that the reaction has a stepwise mechanism that is initiated by attack of the diene into the 3-position of the indole. Numerical simulation of the experimentally observed isotope effects shows that the first step is rate-determining and that the electron exchange in the reactant contributes partially to the overall isotope effect. The combination of electronic structure theory, experimental isotope effects, and numerical simulation thus allows a detailed analysis of a complex reaction mechanism.

Carbon Isotopes↗

PubMed2002

Enantioselective synthesis without discrete optically active additives.

By an adaptation of the asymmetric autocatalysis reactions of Soai, it was found that small enantiomeric excesses may be amplified to an arbitrary extent. When this process was applied 48 times to reactions in the absence of discrete optically active additives, all ultimately afforded substantial optical activity in the product. However, observations strongly suggest that most (and likely all) of these reactions are not true examples of absolute asymmetric synthesis. Rather, the ultimate optical activity arises from optically active impurities. Trace amounts of optically active materials may dominate the outcome of reactions involving asymmetric autocatalysis, and in the presence of opposite chiral influences a single enantiomer tends to take over a reaction. The possible implications of these observations to the origin of biological homochirality are noted.

Aldehydes↗