Intramolecular Isotope Research Articles

Measurement of intramolecular carbon isotope distributions in biosynthetic products and its implications for organic geochemistry

Measurement of intramolecular carbon isotope distributions in biosynthetic products and its implications for organic geochemistry

Insights into the intramolecular 13C isotope distribution of long chain n-alkanes studied by isotopic 13C NMR.

Insights into the intramolecular 13C isotope distribution of long chain n-alkanes studied by isotopic 13C NMR.

Cationic intermediates in Friedel–Crafts acylation: structural information from theory and experiment

Experimentally-determined intramolecular and intermolecular deuterium kinetic isotope effects and computational studies imply three possible kinetic scenarios for the Friedel-Crafts acylation of xylene. The influence of the structural and energetic properties of the π-complexes and σ-complex upon the observed isotope effects is explored.

Classical Versus Nonstatistical Behavior in the C²-C6/Ene Cyclization of Enyne-Allenes: Intramolecular Kinetic Isotope Effects and Radical Clock Reactions

The effects of aryl groups on the mechanism of the C²-C6/ene cyclization of enyne-allenes were studied by means of radical clock openings and intramolecular kinetic isotope effects. Upon attachment of a single aryl group at either the alkyne or the allene terminus, the thermal reaction proceeds by a stepwise mechanism that shows significant nonstatistical dynamic effects. Despite this, we were able to intercept the intermediate diradical intramolecularly by using the ultrafast diphenylcyclopropyl radical clock reaction. When aryl groups were present at both the alkyne and allene termini, the intramolecular kinetic isotope effects were consistent with a classical stepwise mechanism. The present study thus demonstrates the shift in reaction mechanism from a nonstatistical stepwise mechanism to a classical stepwise behavior, depending on the substituents.

Measurement of the Intramolecular Isotope Effect on Aliphatic Hydroxylation by Chromobacterium violaceum Phenylalanine Hydroxylase

The non-heme iron enzyme phenylalanine hydroxylase from Chromobacterium violaceum has previously been shown to catalyze the hydroxylation of benzylic and aliphatic carbons in addition to the normal aromatic hydroxylation reaction. The intrinsic isotope effect for hydroxylation of 3-cyclochexylalanine by the enzyme was determined in order to gain insight into the reactivity of the iron center. With 3-[(2)H(11)-cyclohexyl]alanine as the substrate, the isotope effect on the k(cat) value was 1, consistent with an additional step in the overall reaction being significantly slower than hydroxylation. Consequently, the isotope effect was determined as an intramolecular effect by measuring the amount of deuterium lost in the hydroxylation of 3-[1,2,3,4,5,6-(2)H(6)-cyclohexyl]alanine. The ratio of 4-HO-cyclohexylalanine that retained deuterium to that which lost one deuterium atom was 2.8. This gave a calculated value of 12.6 for the ratio of the primary deuterium kinetic isotope effect to the secondary isotope effect. This value is consistent with hydrogen atom abstraction by an electrophilic Fe(O) center and a contribution of quantum-mechanical tunneling to the reaction.

Mechanistic analysis of oxidative C–H cleavages using inter- and intramolecular kinetic isotope effects

A series of monodeuterated benzylic and allylic ethers were subjected to oxidative carbon–hydrogen bond cleavage to determine the impact of structural variation on intramolecular kinetic isotope effects in DDQ-mediated cyclization reactions. These values are compared to the corresponding intermolecular kinetic isotope effects that were accessed through subjecting mixtures of non-deuterated and dideuterated substrates to the reaction conditions. The results indicate that carbon–hydrogen bond cleavage is rate determining and that a radical cation is most likely a key intermediate in the reaction mechanism.

Mechanism of N-Fluorobenzenesulfonimide Promoted Diamination and Carboamination Reactions: Divergent Reactivity of a Pd(IV) Species

The mechanism of the Pd-catalyzed diamination and carboamination of alkenes promoted by N-fluorobenzenesulfonimide (NFBS) was investigated. Stereochemical labeling experiments established that the diamination reaction proceeds via overall syn addition of the two nitrogen groups, whereas carboamination is the result of an anti addition of arene and nitrogen to the alkene. The intermediate Pd-alkyl complex arising from aminopalladation was observed, and an X-ray crystal structure of its 2,2'-bipyridine (bipy) complex was obtained, revealing strong chelation of the amide protecting group to palladium. Aminopalladation was shown to be an anti-selective process in both the presence and the absence of added ligands, proceeding via external attack of the nitrogen on a Pd-coordinated alkene. The intermediate Pd-alkyl complex was converted to diamination product upon exposure to NFBS with inversion of configuration via oxidative addition followed by dissociation of the benzenesulfonimide anion and S(N)2 displacement of the Pd-C bond. Conversely, arylation of the Pd-alkyl complex proceeds via retention of stereochemistry, consistent with C-H activation of the arene at the Pd(IV) center. A small intermolecular isotope effect (k(H)/k(D) = 1.1) and a large intramolecular isotope effect (k(H)/k(D) = 4) were measured for this process, indicating that C-H activation occurs via a poorly selective product-determining coordination of the arene followed by a highly selective C-H activation. Competition between arenes reveals an unusual reactivity order of toluene > benzene > bromobenzene > anisole.

Quasi-classical Trajectory Study of the Intramolecular Isotope Effect in the Reaction O(3P)+H2/HD

Theoretical studies of the dynamics of the reactions O(3P)+H2/HD(v = 0, j = 0)OH+H have been performed with quasi-classical trajectory method (QCT) on an ab initio potential surface for the lowest triplet electronic state of H2O(3A). The QCT-calculated integral cross sections are in good agreement with the earlier time-dependent quantum mechanics results. The state-resolved rotational distributions reveal that the product OH rotational distributions for O+HD have a preference for populating highly internally excited states compared with the O+H2 reaction. Distributions of differential cross sections show that directions of scattering are strongly dependent on the choice of quantum state. The polarization dependent generalized differential cross-sections and the distributions were calculated and a pronounced isotopic effect is revealed. The calculated results indicate that the product polarization is very sensitive to the mass factor.

Synthesis of Planar Chiral Phosphapalladacycles by N-Acyl Amino Acid Mediated Enantioselective Palladation

Reaction of 2-(dicyclohexylphosphino)phenylferrocene with sodium tetrachloropalladate in the presence of 1 equiv of (R)-N-acetylphenylalanine in MeOH/H2O/CH2Cl2 at pH 8 resulted in the formation of bis(μ-chloro)bis[2-(2-(dicyclohexylphosphino)phenyl)ferrocene-C1,P]dipalladium(II) with a 59% enantiomeric excess of the pS planar chiral palladacycle. Similarly, (dimethylaminomethyl)ferrocene gave (pS)-bis(μ-chloro)bis[2-(dimethylaminomethyl)ferrocene-C1,P]dipalladium(II) in 96% ee. An intramolecular isotope effect of 2.3 was observed for the palladation of 2-(diphenylphosphino)phenylferrocene under these conditions.

Development of an advanced on‐line position‐specific stable carbon isotope system and application to methyl tert‐butyl ether

We present an advanced system for on-line position-specific carbon isotope analysis. The main limitation of on-line intramolecular isotope ratio measurements has been that optimal pyrolytic fragments are obtained mostly at temperatures where the analyte has not completely reacted. As a result of undetermined isotopic fractionation, the isotopic signatures of the pyrolysis products are not strictly equal to these of the equivalent moieties in the parent molecule. We designed a pyrolytic unit in which both temperature and reaction time are variable parameters, enabling determination of the enrichment factor of the pyrolysis at optimal temperature by construction of a Rayleigh plot. In the case of methyl tert-butyl ether (MTBE) presented here, a 'pre-pyrolysis' fractionation of MTBE leading to a depletion of 0.9 per thousand was discovered and the enrichment factor of the optimal pyrolysis reaction was determined at -1.7 per thousand. Absolute delta(13)C values of two functional groups of MTBE - the methoxy group and the 2-methylpropane group - could be determined with 95% confidence intervals of 0.4 per thousand and 0.5 per thousand, respectively.

The Photochemical C2−C6Cyclization of Enyne−Allenes: Interception of the Fulvene Diradical with a Radical Clock Ring Opening

The mechanism of the photochemical C(2)-C(6) cyclization of enyne-allenes has been studied through radical clock, intramolecular kinetic isotope effect, and laser flash photolysis (LFP) experiments as well as density functional theory (DFT) and ab initio computations. While the photochemical cyclization of enyne-allenes 1 and 2 furnished ene and Diels-Alder products without any cyclopropyl ring opening, that of 3 carrying the ultrafast diphenylcyclopropylcarbinyl radical clock afforded products derived from cyclopropyl ring opening. Laser flash photolysis (LFP) studies on enyne-allene 3 point to an allene triplet excited state (transient A) as a primarily formed short-lived (tau = 430 ns) intermediate. In addition, we have obtained evidence for the formation of a diphenylmethyl-type diradical (transient C, tau = 1.0 micros) resulting from ring opening of a diphenylcyclopropane ring. C subsequently undergoes a surprisingly slow (tau = 1.0 micros) 1,6-hydrogen shift leading to the stable 1,3-diene 6.

Examination of the mechanism of Rh(2)(II)-catalyzed carbazole formation using intramolecular competition experiments.

The use of a rhodium(II) carboxylate catalyst enables the mild and stereoselective formation of carbazoles from biaryl azides. Intramolecular competition experiments of triaryl azides suggested the source of the selectivity. A primary intramolecular kinetic isotope effect was not observed, and correlation of the product ratios with Hammett sigma(+) values produced a plot with two intersecting lines with opposite rho values. These data suggest that electronic donation by the biaryl pi-system accelerates the formation of rhodium nitrenoid and that C-N bond formation occurs through a 4pi-electron-5-atom electrocyclization.

Branching ratios in reactive collisions: Theory versus experiment

Recent experimental and theoretical studies of branching ratios in elementary bimolecular reactions are reviewed. Examples include both direct- and complex-mode reactions of neutral reagents yielding alternative sets of products (neutral or ionic as the case may be). The information-theoretic approach to branching ratios (and intramolecular isotope effects) for direct, exoergic reactions is illustrated. Recent molecular beam experiments on the energy dependence of the branching ratio for the decay of alkali halide-alkali collision complexes are discussed.

Heterocycle Formation via Palladium-Catalyzed Intramolecular Oxidative C−H Bond Functionalization: An Efficient Strategy for the Synthesis of 2-Aminobenzothiazoles

N-arylthioureas are converted to 2-aminobenzothiazoles via intramolecular C-S bond formation/C-H functionalization utilizing an unusual cocatalytic Pd(PPh(3))(4)/MnO(2) system under an oxygen atmosphere at 80 degrees C. This method eliminates the need for an ortho-halo substituted precursor, instead achieving direct functionalization of the ortho-aryl C-H bond. Mechanistic observations, including a large intramolecular primary kinetic isotope effect of 5.9, reveal a reaction pathway inconsistent with an electrophilic palladation mechanism.

Gas-phase activation of methane by ligated transition-metal cations.

Motivated by the search for ways of a more efficient usage of the large, unexploited resources of methane, recent progress in the gas-phase activation of methane by ligated transition-metal ions is discussed. Mass spectrometric experiments demonstrate that the ligands can crucially influence both reactivity and selectivity of transition-metal cations in bond-activation processes, and the most reactive species derive from combinations of transition metals with the electronegative elements fluorine, oxygen, and chlorine. Furthermore, the collected knowledge about intramolecular kinetic isotope effects associated with the activation of C-H(D) bonds of methane can be used to distinguish the nature of the bond activation as a mere hydrogen-abstraction, a metal-assisted mechanism or more complex reactions such as formation of insertion intermediates or sigma-bond metathesis.

Solvent‐Dependent Changes in the Triazolinedione–Alkene Ene Reaction Mechanism

The influence of the solvent on the triazolinedione-alkene ene reaction mechanism has been investigated. Both inter- and intramolecular kinetic isotope effects with tetramethylethylenes and 2,2,2-(trideuterio)methyl-7-methyl-2,6-octadiene-[D3]-1,1,1 provide, for the first time, strong evidence for changes in the mechanism of the reaction on going from non-protic to polar protic solvents. In non-protic polar or apolar solvents, an aziridinium imide that equilibrates to an insignificant extent with an open intermediate (a dipolar or a polarized biradical) is formed irreversibly in the first, rate-determining step of the reaction, which is followed by fast hydrogen abstraction. On the contrary, in polar protic solvents, hydrogen abstraction is rate limiting, allowing the main dipolar intermediate to equilibrate with its open intermediate(s) as well as with the starting reagents.

Single Mutations Change CYP2F3 From a Dehydrogenase of 3-Methylindole to an Oxygenase

Pulmonary cytochrome P450 2F3 (CYP2F3) catalyzes the dehydrogenation of the pneumotoxin 3-methylindole (3MI) to an electrophilic intermediate, 3-methyleneindolenine, which is responsible for the toxicity of the parent compound. Members of the CYP2F subfamily are the only enzymes known to exclusively dehydrogenate 3MI, without detectable formation of oxygenation products. Thus, CYP2F3 is an attractive model to study dehydrogenation mechanisms. The purpose of this study was to identify specific residues that could facilitate 3MI dehydrogenation. Both single and double mutations were constructed to study the molecular mechanisms that direct dehydrogenation. Double mutations in substrate recognition sites (SRS) 1 produced an inactive enzyme, while double mutants in SRS 4 did not alter 3MI metabolism. However, double mutations in SRS 5 and SRS 6 successfully introduced oxygenase activity to CYP2F3. Single mutations in SRS 5, SRS 6 and near SRS 2 also introduced 3MI oxygenase activity. Mutants S474H and D361T oxygenated 3MI but also increased dehydrogenation rates, while G214L, E215Q and S475I catalyzed 3MI oxygenation exclusively. A homology model of CYP2F3 was precisely consistent with specific dehydrogenation of 3MI via initial hydrogen atom abstraction from the methyl group. In addition, intramolecular kinetic deuterium isotope studies demonstrated an isotope effect ( K H/ K D) of 6.8. This relatively high intramolecular deuterium isotope effect confirmed the initial hydrogen abstraction step; a mutant (D361T) that retained the dehydrogenation reaction exhibited the same deuterium isotope effect. The results showed that a single alteration, such as a serine to isoleucine change at residue 475, dramatically switched catalytic preference from dehydrogenation to oxygenation.

The NO+O3 reaction: A triple oxygen isotope perspective on the reaction dynamics and atmospheric implications for the transfer of the ozone isotope anomaly

Atmospheric nitrate shows a large oxygen isotope anomaly (Delta 17 O), characterized by an excess enrichment of 17 O over 18 O, similar to the ozone molecule. Modeling and observations assign this specific isotopic composition mainly to the photochemical steady state that exists in the atmosphere between ozone and nitrate precursors, namely, the nitrogen oxides (NOx=NO+NO2). However, this transfer is poorly quantified and is built on unverified assumptions about which oxygen atoms of ozone are transferred to NO(x), greatly weakening any interpretation of the nitrate oxygen isotopic composition in terms of chemical reaction pathways and the oxidation state of the atmosphere. With the aim to improve our understanding and quantify how nitrate inherits this unusual isotopic composition, we have carried out a triple isotope study of the reaction NO+O3. Using ozone intramolecular isotope distributions available in the literature, we have found that the central atom of the ozone is abstracted by NO with a probability of (8+/-5)%(+/-2 sigma) at room temperature. This result is at least qualitatively supported by dynamical reaction experiments, the non-Arrhenius behavior of the kinetic rate of this reaction, and the kinetic isotope fractionation factor. Finally, we have established the transfer function of the isotope anomaly of O3 to NO2, which is described by the linear relationship Delta 17 O(NO2)=A x Delta 17 O(O3)+B, with A=1.18+/-0.07(+/-1 sigma) and B=(6.6+/-1.5)[per thousand](+/-1 sigma). Such a relationship can be easily incorporated into models dealing with the propagation of the ozone isotope anomaly among oxygen-bearing species in the atmosphere and should help to better interpret the oxygen isotope anomaly of atmospheric nitrate in terms of its formation reaction pathways.

A Kinetic Study of the Reaction of N,N-Dimethylanilines with 2,2-Diphenyl-1-picrylhydrazyl Radical: A Concerted Proton−Electron Transfer?

The reactivity of the 2,2-diphenyl-1-picrylhydrazyl radical (dpph*) toward the N-methyl C-H bond of a number of 4-X-substituted- N, N-dimethylanilines (X = OMe, OPh, CH 3, H) has been investigated in MeCN, in the absence and in the presence of Mg(ClO 4) 2, by product, and kinetic analysis. The reaction was found to lead to the N-demethylation of the N, N-dimethylaniline with a rate quite sensitive to the electron donating power of the substituent (rho (+) = -2.03). With appropriately deuterated N, N-dimethylanilines, the intermolecular and intramolecular deuterium kinetic isotope effects (DKIEs) were measured with the following results. Intramolecular DKIE [( k H/ k D) intra] was found to always be similar to intermolecular DKIE [( k H/ k D) inter]. These results suggest a single-step hydrogen transfer mechanism from the N-C-H bond to dpph* which might take the form of a concerted proton-electron transfer (CPET). An electron transfer (ET) step from the aniline to dpph* leading to an anilinium radical cation, followed by a proton transfer step that produces an alpha-amino carbon radical, appears very unlikely. Accordingly, a rate-determining ET step would require no DKIE or at least different inter and intramolecular isotope effects. On the other hand, an equilibrium-controlled ET is not compatible with the small slope value (-0.22 kcal (-1) K (-1)) of the log k H/Delta G degrees plot. Furthermore, the reactivity increases by changing the solvent to the less polar toluene whereas the reverse would be expected for an ET mechanism. In the presence of Mg (2+), a strong rate acceleration was observed, but the pattern of the results remained substantially unchanged: inter and intramolecular DKIEs were again very similar as well as the substituent effects. This suggests that the same mechanism (CPET) is operating in the presence and in the absence of Mg (2+). The significant rate accelerating effect by Mg (2+) is likely due to a favorable interaction of the Mg (2+) ion with the partial negatively charged alpha-methyl carbon in the polar transition state for the hydrogen transfer process.

Exclusive 5-exo-dig Hydroarylation of o-Alkynyl Biaryls Proceeding via C−H Activation Pathway

The first example of the palladium-catalyzed exclusive 5-exo-dig hydroarylation of o-alkynyl biaryls has been demonstrated. In contrast to the reported earlier carbocyclizations proceeding via the Friedel-Crafts mechanism, this hydroarylation efficiently proceeds with electron-neutral and electron-deficient arenes, producing fluorene frameworks with defined stereochemistry of the double bond. On the basis of the high reactivity of electron-deficient arenes toward cyclization, high values of inter- and intramolecular kinetic isotope effects, and the exclusive cis-selectivity of cyclization, a mechanism involving a C-H activation motif has been proposed for this transformation.