Interconversion of (S)-glutamate and (2S,3S)-3-methylaspartate: a distinctive B(12)-dependent carbon-skeleton rearrangement

The interconversion of (S)-glutamate and (2S,3S)-3-methylaspartate catalyzed by B(12)-dependent glutamate mutase is discussed using results from high-level ab initio molecular orbital calculations. Evidence is presented regarding the possible role of coenzyme-B(12) in substrate activation and product formation via radical generation. Calculated electron paramagnetic resonance parameters support experimental evidence for the involvement of substrate-derived radicals and will hopefully aid the future detection of other important radical intermediates. The height of the rearrangement barrier for a fragmentation-recombination pathway, calculated with a model that includes neutral amino and carboxylic acid substituents in the migrating glycyl group, supports recent experimental evidence for the interconversion of (S)-glutamate and (2S,3S)-3-methylaspartate through such a pathway. Our calculations suggest that the enzyme may facilitate the rearrangement of (S)-glutamate through (partial) proton-transfer processes that control the protonation state of substituents in the migrating group.     

The carbon-skeleton rearrangement in tropane alkaloid biosynthesis

High-level quantum chemistry calculations have been performed to examine the carbon-skeleton rearrangement of the tropane alkaloid littorine to hyoscyamine. Two pathways involving radical and carbocation intermediates have been investigated in this regard, namely, stepwise (or fragmentation-recombination) and concerted. The fragmentation products are calculated to be of high energy for both the radical- and carbocation-based mechanisms (136.3 and 170.9 kJ mol(-1), respectively). Similarly, the rearrangement barrier for the radical-based concerted pathway is calculated to be quite high (135.6 kJ mol(-1)). In contrast, the carbocation-based concerted pathway is found to be associated with a relatively low barrier (47.4 kJ mol(-1)). The ionization energy of the substrate-derived radical 3a is calculated to be 7.01 eV, suggesting that its oxidation to generate the substrate-derived carbocation 3b ought to be facile. In an attempt to investigate how an enzyme might modulate the rearrangement barriers, the separate and combined influences of partially protonating the migrating group and partially deprotonating the spectator OH group of the substrate were investigated. Such interactions can lead to significant reductions in the rearrangement barrier for both the radical- and carbocation-based concerted pathways, although the carbocation pathway continues to have significantly lower energy requirements. Also, the relatively high (gas-phase) acidity of the OH group of the product-related carbocation 4b indicates that the direct formation of hyoscyamine aldehyde (6) is a highly exothermic process. Although we would not wish to rule out alternative possibilities, our calculations suggest that a concerted rearrangement mechanism involving carbocations constitutes a viable low-energy pathway for the carbon-skeleton rearrangement in tropane alkaloid biosynthesis.     

Computational study on the 1,2-rearrangement in beta-(nitroxy)vinyl and beta-(acetoxy)vinyl radicals

The 1,2-nitroxyl and 1,2-acetoxyl rearrangement in beta-(nitroxy)vinyl and beta-(acetoxy)vinyl radicals 13a and 13b, respectively, has been studied for the gas phase with various ab initio and density functional methods. The energetically most favorable pathway for 13a is calculated to proceed via reversible fragmentation/radical addition through transition state I-19a. In the case of 13b, rearrangement through a five-membered ring transition state III-16b and the fragmentation/radical addition pathway via transition state I-19b are competing processes. Mulliken and natural population analysis reveal a certain degree of charge separation in III-16a/b that may indicate a potential solvent effect on the rearrangement rate. A stepwise group migration through a cyclic radical intermediate V-18a/b or rearrangement through a three-membered ring transition state II-15a/b can be ruled out for both vinyl radicals. A comparison of the results of the calculations with experimental findings provides important insights into the kinetics of "self-terminating radical oxygenations". A significant method dependence on the outcome of the calculations was observed, which revealed the unsuitability of the UHF, MP2, B3LYP, and mPW1PW91 methods for computing these radical rearrangement processes. The results from BHandHLYP/cc-pVDZ calculations showed the best agreement with single-point energy calculations performed at the QCISD and CCSD(T) levels of theory.     

Suicide inactivation of dioldehydratase by glycolaldehyde and chloroacetaldehyde: an examination of the reaction mechanism

High-level ab initio calculations have been used to study the mechanism for the inactivation of diol dehydratase (DDH) by glycolaldehyde or 2-chloroacetaldehyde. As in the case of the catalytic substrates of DDH, e.g., ethane-1,2-diol, the 5'-deoxyadenosyl radical (Ado*) is able to abstract a hydrogen atom from both substrate analogues in the initial step on the reaction pathway, as evidenced by comparable energy barriers. However, in subsequent step(s), each substrate analogue produces the highly stable glycolaldehyde radical. The barrier for hydrogen atom reabstraction by the glycolaldehyde radical is calculated to be too high ( approximately 110 kJ mol-1) to allow Ado* to be regenerated and recombine with the cob(II)alamin radical, the latter therefore remaining tightly bound to DDH. As a consequence, the catalytic pathway is disrupted, and DDH becomes an impotent enzyme. Interconversion of equivalent structures of the glycolaldehyde radical via the symmetrical cis-ethanesemidione radical is calculated to require 38 kJ mol-1. EPR indications of a symmetrical cis-ethanesemidione structure are likely to be the result of formation of an equilibrium mixture of glycolaldehyde radical structures, this equilibration being facilitated by partial deprotonation of the glycolaldehyde radical by the carboxylate of an amino acid residue within the active site of DDH.     

The role of the active site glutamate in the rearrangement of glutamate to 3-methylaspartate catalyzed by adenosylcobalamin-dependent glutamate mutase

BACKGROUND: Adenosylcobalamin (coenzyme B(12))-dependent enzymes catalyze a variety of chemically difficult reactions that proceed through the generation of free radical intermediates. A long-standing question is how proteins stabilize what are normally regarded as highly reactive organic radicals and direct them towards productive reactions. In glutamate mutase the carboxylate of Glu171 hydrogen bonds with the amino group of the substrate. We have investigated the role of this residue in the enzyme mechanism. RESULTS: Several sterically and functionally conservative mutations were introduced at position 171. In the most impaired mutant, Glu171Gln, k(cat) is reduced 50-fold, although the K(m) for glutamate is little affected. In the wild-type enzyme activity was pH-dependent and the acidic limb of the activity curve titrated with an apparent pK(a) of 6.6 on V(max), whereas for the sluggish Glu171Gln mutant activity is independent of pH. The steady state deuterium kinetic isotope effect is reduced in the mutant enzyme, but the steady state concentration of free radical species on the enzyme (as measured by the steady state concentration of cob(II)alamin) is unaffected by the mutation. CONCLUSIONS: The properties of the mutant proteins are consistent with the hypothesis that Glu171 acts as a general base that serves to deprotonate the amino group of the substrate during catalysis. Deprotonation is expected to facilitate the formation of the glycyl radical intermediate formed during the inter-conversion of substrate and product radicals, but to have little effect on the stability of product or substrate radicals themselves.     

Three-state trajectory surface hopping studies of the photodissociation dynamics of formaldehyde on ab initio potential energy surfaces

Full-dimensional, three-state, surface hopping calculations of the photodissociation dynamics of formaldehyde are reported on ab initio potential energy surfaces (PESs) for electronic states S(1), T(1), and S(0). This is the first such study initiated on S(1) with ab initio-calculated spin-orbit couplings among the three states. We employ previous PESs for S(0) and T(1), and a new PES for S(1), which we describe here, as well as new spin-orbit couplings. The time-dependent electronic state populations and the branching ratio of radical products produced from S(0) and T(1) states and that of total radical products and molecular products at three total energies are calculated. Details of the surface hopping dynamics are described, and a novel pathway for isomerization on T(1) via S(0) is reported. Final translational energy distributions of H + HCO products from S(0) and T(1) are also reported as well as the translational energy distribution and final rovibrational distributions of H(2) products from the molecular channel. The present results are compared to previous trajectory calculations initiated from the global minimum of S(0). The roaming pathway leading to low rotational distribution of CO and high vibrational population of H(2) is observed in the present calculations.     

Quantum chemical study of low temperature oxidation mechanism of dibenzofuran

A density functional theory (DFT) study of the reaction of dibenzofuranyl radical with oxygen molecule has been made. The geometries, energies, and vibrational frequencies of the reactant, transition states, intermediates, and products have been calculated at the B3LYP/6-311+G(3df,2p)//B3LYP/6-31G(d) level of theory. The initial reaction of dibenzofuran (DBF) with molecular oxygen results in the formation of the 1-dibenzofuranylperoxy radical. The stability of this adduct toward decomposition at low to intermediate temperatures results in it undergoing several possible rearrangements. The lowest energy pathway with a barrier of 24.2 kcal/mol involves a rearrangement to the 1,1-dioxadibenzofuran radical. The next lowest energy pathway involves fission of the O-O linkage whose reaction energy was found to be 37.6 kcal/mol. Transition state theory (TST) calculations indicate that the lowest energy pathway should predominate at temperatures up to about 1200 K. Two other unimolecular reaction pathways with barriers of 45.5 and 91.1 kcal/mol have also been discovered. The latter pathway leads to the formation of a para-quinone (dibenzofuran quinone) which has been detected experimentally in the low-temperature oxidation of DBF [Marquaire, P. M.; Worner, R.; Rambaud, P.; Baronnet, F. Organohalogen Compd. 1999, 40, 519]. Our quantum calculations, however, do not support this latter pathway to quinone formation. Instead, the quinone is most probably formed as a consequence of recombination of the 1-dibenzofuranyloxy radical (produced by peroxy fission) with an O atom in the para position. Each of the unimolecular reaction pathways have been subjected to detailed quantum chemical investigation and transition states and intermediates leading to the final products (principally CO, CO2, and C2H2 with traces of benzofuran and benzene) have been identified. For certain stable intermediates, their possible reactions with molecular oxygen have been further investigated quantum chemically. The present work therefore presents a detailed quantum chemical investigation of the reaction pathways in the low-temperature oxidation mechanism of DBF. Since the dibenzofuran moiety is present in the polychlorinated DBFs, our conclusions should be generally applicable to this family of compounds.     

H-bonded network rearrangements in the S0, S1 and D0 states of neutral and cationic p-cresol(H2O)(NH3) complexes

The H-bonded network rearrangements in the S(0), S(1) and D(0) states of the neutral and cationic p-CreOH(H(2)O)(NH(3)) complexes were studied experimentally by means of (1 + 1)/(1 + 1') REMPI (Resonantly Enhanced MultiPhoton Ionization) and time resolved LIF (Laser Induced Fluorescence) spectroscopies combined with DFT (Density Functional Theory) calculations at the B3LYP/6-311G++(d,p) level. A comparison of the rearrangement process of the H-bonded network in the three states is given. Two cyclic H-bonded isomers were found on the S(0) potential energy surface and the results indicate that the rearrangement in this state is unlikely at the temperature of the supersonic expansion due to the presence of a high-energy barrier (7503 cm(-1)). On the other hand, the re-determination of the S(1) excited state lifetimes confirms that neither the H-bonded rearrangement nor the excited state hydrogen transfer (ESHT) reaction takes place in the S(1) state at the excitation energies of this work. Thus, it is concluded that the absorption of the second photon to reach the D(0) state takes place from the S(1) state of the cyclic-(OH-OH(2)-NH(3)) isomer. A preferential evaporation of H(2)O upon vertical ionization of the cyclic-(OH-OH(2)-NH(3)) isomer is observed which is consistent with a statistical redistribution of the internal energy. Nevertheless, our theoretical calculations suggest that initial excitation of the H-bonded network rearrangement modes may also play a role to leave the H(2)O molecule as a terminal moiety in a chain-(OH-NH(3)-OH(2))(+) isomer. The reaction pathway for the solvent rearrangement involves a double proton transfer process with a very low energy barrier (575 cm(-1)) that is overcome at the vertical ionization energy of the complex.     

A Mass Spectrometric Approach for Probing the Stability of Bioorganic Radicals

Glycyl radicals are important bioorganic radical species involved in enzymatic catalysis. Herein, we demonstrate that the stability of glycyl‐type radicals (X‐^.CH‐Y) can be tuned on a molecular level by varying the X and Y substituents and experimentally probed by mass spectrometry. This approach is based on the gas‐phase dissociation of cysteine sulfinyl radical (X‐Cys‐Y) ions through homolysis of a C_α? C_β bond. This fragmentation produces a glycyl‐type radical upon losing CH₂SO, and the degree of this loss is closely tied to the stability of the as‐formed radical. Theoretical calculations indicate that the energy of the C_α? C_β bond homolysis is predominantly affected by the stability of the glycyl radical product through the captodative effect, rather than that of the parent sulfinyl radical. This finding suggests a novel experimental method to probe the stability of bioorganic radicals, which can potentially broaden our understanding of these important reactive intermediates.     

Alkali‐Metal‐Ion‐Assisted Hydrogen Atom Transfer in the Homocysteine Radical

Intramolecular hydrogen atom transfer (HAT) was examined in homocysteine (Hcy) thiyl radical/alkali metal ion complexes in the gas phase by combination of experimental techniques (ion‐molecule reactions and infrared multiple photon dissociation spectroscopy) and theoretical calculations. The experimental results unequivocally show that metal ion complexation (as opposed to protonation) of the regiospecifically generated Hcy thiyl radical promotes its rapid isomerisation into an α‐carbon radical via HAT. Theoretical calculations were employed to calculate the most probable HAT pathway and found that in alkali metal ion complexes the activation barrier is significantly lower, in full agreement with the experimental data. This is, to our knowledge, the first example of a gas‐phase thiyl radical thermal rearrangement into an α‐carbon species within the same amino acid residue and is consistent with the solution phase behaviour of Hcy radical.     

The azulene-to-naphthalene rearrangement revisited: a DFT study of intramolecular and radical-promoted mechanisms

Intramolecular and radical-promoted mechanisms for the rearrangement of azulene to naphthalene are assessed with the aid of density functional calculations. All intramolecular mechanisms have very high activation energies (>/=350 kJ mol(-1) from azulene) and so can only be competitive at temperatures above 1000 degrees C. Two radical-promoted mechanisms, the methylene walk and spiran pathways, dominate the reaction below this temperature. The activation energy for an orbital symmetry-allowed mechanism via a bicyclobutane intermediate is 382 kJ mol(-1). The norcaradiene-vinylidene mechanism that has been proposed in order to explain the formation of small amounts of 1-phenyl-1-buten-3-ynes from flash thermolysis of azulene has an activation energy of 360 kJ mol(-1); subtle features of the B3LYP/6-31G(d) energy surface for this mechanism are discussed. All intermediates and transition states on the spiran and methylene walk radical-promoted pathways have been located at the B3LYP/6-31G(d) level. Interconversion of all n-H-azulyl radicals via hydrogen shifts was also examined, and hydrogen shifts around the five-membered ring are competitive with the mechanisms leading to rearrangement to naphthalene, but those around the seven-membered ring are not. Conversion of a tricyclic radical to the 9-H-naphthyl radical is the rate-limiting transition state on the spiran pathway, and lies 164.0 kJ mol(-1) above that of the 1-H-azulyl radical. The transition state for the degenerate hydrogen shift between the 9-H-azulyl and 10-H-azulyl radicals is 7.4 kJ mol(-1) lower. Partial equilibration of the intermediates in the spiran pathway via this shift may therefore occur, and this can account for the surprising formation of 1-methylnaphthalene from 2-methylazulene. The rate-limiting transition state for the methylene walk pathway involves the concerted transfer of a methylene group from one ring to the other and lies 182.3 kJ mol(-1) above that of the 1-H-azulyl radical. It is shown that rearrangement via a combination of 31% methylene walk and 69% spiran pathways can account semiquantitatively for all the products from 1-(13)C-azulene, 9-(13)C-azulene, and 4,7-(13)C(2)-azulene, in addition to accounting for the products from methylazulenes, and the formation of naphthalene-d(0) and -d(2) from azulene-4-d. It is also pointed out that a small extension to the spiran pathway could provide an alternative explanation for the formation of 1-phenyl-1-buten-3-ynes.     

Elucidation of the natural artemisinin decomposition route upon iron interaction: a fine electronic redistribution promotes reactivity

The conformational analysis of artemisinin by molecular dynamics and quantum chemistry calculations revealed the existence of seven energy minima with specific interconversion pathways. Among the seven conformers, only , and were able to undergo bond rearrangements upon Fe(2+) interaction. These rearrangements were due to a peculiar puckering of the trioxane ring that brings its three oxygen atoms in an ideal geometrical position for interacting with Fe(2+) ions, promoting an electronic redistribution in the molecule. A rapid molecule rearrangement led to a stable energy minimum structure with an additional ring that is similar to a plant metabolite. Our results suggest an alternative pathway for generating toxic radical chemical species for the malaria parasite, where artemisinin is not toxic by itself but rather is an intermediate for molecular partners that generate radical structures deleterious for the parasite proteins, after electron transfers from the Fe(2+)/artemisinin complex.     

Spectroscopic and computational studies on the rearrangement of ionized [1.1.1]propellane and some of its valence isomers: the key role of vibronic coupling

The [1.1.1]propellane radical cation 1(?+), generated by radiolytic oxidation of the parent compound in argon and Freon matrices at low temperatures, undergoes a spontaneous rearrangement to form the distonic 1,1-dimethyleneallene (or 2-vinylideneallyl) radical cation 3(?+) consisting of an allyl radical substituted at the 2-position by a vinyl cation. In similar matrix studies, it is found that the isomeric dimethylenecyclopropane radical cation 2(?+) also rearranges to 3(?+). The unusual molecular and electronic structure of 3(?+) has been established by the results of ESR, UV-vis, and IR spectroscopic measurements in conjunction with detailed theoretical calculations. Also of particular interest is an NIR photoinduced reaction by which 3(?+) is cleanly converted to the vinylidenecyclopropane radical cation 4(?+), a process that can be represented in terms of a single electron transfer from the allyl radical to the vinyl cation followed by allyl cation cyclization. The specificity of this photochemical reaction provides additional strong chemical evidence for the structure of 3(?+). Theoretical calculations reveal the decisive role of vibronic coupling in shaping the potential energy surfaces on which the observed ring-opening reactions take place. Thus vibronic interaction in 1(?+) mixes the (2)A(1)' ground state, characterized by its "non-bonding" 3a(1)' SOMO, with the (2)E' first excited state resulting in the destabilization of a lateral C-C bond and the initial formation of the methylenebicyclobutyl radical cation 5(?+). The further rearrangement of 5(?+) to 3(?+) occurs via 2(?+) and proceeds through two additional lateral C-C bond cleavages characterized by transition states of extremely low energy, thereby explaining the absence of identifiable intermediates along the reaction pathway. In these consecutive ring-opening rearrangements, the "non-bonding" bridgehead C-C bond in 1(?+) is conserved and ultimately transformed into a normal bond characterized by a shorter C-C bond length. This work provides strong support for the Heilbronner-Wiberg interpretation of the vibrational structure in the photoelectron spectrum of 1 in terms of vibronic coupling.     

Experimental and theoretical studies of charge transfer and deuterium ion transfer between D2O+ and C2H4

The charge transfer and deuterium ion transfer reactions between D(2)O(+) and C(2)H(4) have been studied using the crossed beam technique at relative collision energies below one electron volt and by density functional theory (DFT) calculations. Both direct and rearrangement charge transfer processes are observed, forming C(2)H(4) (+) and C(2)H(3)D(+), respectively. Independent of collision energy, deuterium ion transfer accounts for approximately 20% of the reactive collisions. Between 22 and 36 % of charge transfer collisions occur with rearrangement. In both charge transfer processes, comparison of the internal energy distributions of products with the photoelectron spectrum of C(2)H(4) shows that Franck-Condon factors determine energy disposal in these channels. DFT calculations provide evidence for transient intermediates that undergo H/D migration with rearrangement, but with minimal modification of the product energy distributions determined by long range electron transfer. The cross section for charge transfer with rearrangement is approximately 10(3) larger than predicted from the Rice-Ramsperger-Kassel-Marcus isomerization rate in transient complexes, suggesting a nonstatistical mechanism for H/D exchange. DFT calculations suggest that reactive trajectories for deuterium ion transfer follow a pathway in which a deuterium atom from D(2)O(+) approaches the pi-cloud of ethylene along the perpendicular bisector of the C-C bond. The product kinetic energy distributions exhibit structure consistent with vibrational motion of the D-atom in the bridged C(2)H(4)D(+) product perpendicular to the C-C bond. The reaction quantitatively transforms the reaction exothermicity into internal excitation of the products, consistent with mixed energy release in which the deuterium ion is transferred in a configuration in which both the breaking and the forming bonds are extended.     

Oxidative self-decomposition of the nickel(III) complex of glycylglycyl-L-histidylglycine

Self-decomposition of the nickel(III) doubly deprotonated peptide complex of Gly2HisGly occurs by base-assisted oxidation of the peptide. At < or =p[H+] 7.0, the major pathway is a four-electron oxidation (via 4 Ni(III) complexes) at the alpha carbon of the N-terminal glycyl residue. The product of this oxidation is oxamylglycylhistidylglycine, which hydrolyzes to yield ammonia and oxalylglycylhistidylglycine. Both of these peptide products decompose to give isocyanatoacetylhistidylglycine. A small amount (2%) of oxidative decarboxylation also is observed. In another major pathway above p[H+] 7.0, two Ni(III)-peptide complexes coordinate via an oxo bridge in the axial positions to form a reactive dimer species. This dimer generates two Ni(II)-peptide radical intermediates that cross-link at the alpha carbons of the N-terminal glycyl residues. In 0.13 mM Ni(III)-peptide at p[H+] 10.3, this pathway accounts for 60% of the reaction. The cross-linked peptide is subject to oxidation via atmospheric O2, where the 2,3-diaminobutanedioic acid is converted to a 2,3-diaminobutenedioic acid. The products observed at 相似文献   

Stability,metastability, and unstability of three-electron-bonded radical anions. A model ab initio theoretical study

The stability of O therefore O, N therefore N, S therefore S, P therefore P, and Si therefore Si three-electron bonds in anionic radicals isoelectronic to dihalogen radical anions is studied by means of ab initio calculations on model systems. The difficulty of generating the dissociation energy profiles of such anions and their rearrangement to neutral species is solved by a practical method which consists of calculating the neutral and anionic energy profiles separately and shifting the curves with respect to each other to match the experimental energy gap between the asymptotes. Here the neutral and anionic reaction profiles are calculated at the CASPT2 and MP2 levels, respectively. The calculations predict that the O therefore O bond is likely to be observed in anions of the type [RO therefore OR](*-), where R is any alkyl substituent or carbon chain. The anion Si(2)H(6)(*-) is found to be a metastable species, with a fair barrier to electron detachment. The barrier is much smaller for N(2)H(4)(*-) and P(2)H(4)(*-), thus precluding experimental observation. However, these species can be stabilized by electron-attractor substituents, the effect of which can be quantitatively estimated by means of the parent anion's diagrams and some fast complementary calculations. An example is given with the [CF(3)HN therefore NHCF(3)](*-) anionic complex.     

Mechanism of 1,3-migration in allylperoxyl radicals: computational evidence for the formation of a loosely bound radical-dioxygen complex

The three pathways postulated for 1,3-migration of the peroxyl group in the allylperoxyl radical (1a), a key reaction involved in the spontaneous autoxidation of unsaturated lipids of biological importance, have been investigated by means of quantum mechanical electronic structure calculations. According to the barrier heights calculated from RCCSD(T)/6-311+G(3df,2p) energies with optimized molecular geometries and harmonic vibrational frequencies determined at the UMP2/6-311+G(3df,2p) level, the allylperoxyl rearrangement proceeds by fragmentation of 1a through a transition structure (TS1) with a calculated DeltaH++(298 K) of 21.7 kcal/mol to give an allyl radical-triplet dioxygen loosely bound complex (CX). In a subsequent step, the triplet dioxygen moiety of CX recombines at either end of the allyl radical moiety to convert the complex to the rearranged peroxyl radical (1a') or to revert to the starting peroxyl radical 1a. CX shows an electron charge transfer of 0.026 e in the direction allyl --> O(2). The dominant attractive interactions holding in association the allyl radical-triplet dioxygen pair in CX are due chiefly to dispersion forces. The DeltaH(298 K) for dissociation of CX in its isolated partners, allyl radical and triplet dioxygen, is predicted to be at least 1 kcal/mol. The formation of CX prevents the diffusion of its partners and maintains the stereocontrol along the fragmentation-recombination processes. The concerted 1,3-migration in allylperoxyl radical is predicted to take place through a five-membered ring peroxide transition structure (TS2) showing two long C-O bonds. The DeltaH++(298 K) calculated for this pathway is less favorable than the fragmentation-recombination pathway by 1.9 kcal/mol. The cyclization of 1a to give a dioxolanyl radical intermediate (2a) is found to proceed through a five-membered ring transition structure (TS3) with a calculated DeltaH++(298 K) of 33.9 kcal/mol. Thus, the sequence of ring closure 1a --> 2a and ring opening 2a --> 1a' is unlikely to play any significant role in allylperoxyl rearrangement 1a --> 1a'. In the three pathways investigated, the energy of the transition structure is predicted to be somewhat lower in either heptane or aqueous solution than in the gas phase. Although the energy lowering calculated for TS1 is smaller than the calculated for TS2 and TS3, it is very unlikely that the solvent effects may reverse the predicted preference of the fragmentation-recombination pathway over the concerted and stepwise ring closure-ring opening mechanisms.     

Mechanistic aspects of the formation of aldehydes and nitriles in photosensitized reactions of aldoxime ethers

The photooxidation of a series of aldoxime ethers was studied by laser flash photolysis and steady-state (product studies) methods. Nanosecond laser flash photolysis studies have shown that chloranil (CA)-sensitized reactions of the O-methyl (1), O-ethyl (2), O-benzyl (3), and O-tert-butyl (4) benzaldehyde oximes result in the formation of the corresponding radical cations. In polar non-nucleophilic solvents such as acetonitrile, there are several follow-up pathways available depending on the structure of the aldoxime ether and the energetics of the reaction pathway. When the free energy of electron transfer (DeltaGET) becomes endothermic, syn-anti isomerization is the dominant pathway. This isomerization pathway is a result of triplet energy transfer from CA to the aldoxime ether. For substrates with alpha-protons (aldoxime ethers 1-3), the follow-up reactions involve deprotonation at the alpha-position followed by beta-scission to form the benziminyl radical (and an aldehyde). The benziminyl radical reacts to give benzaldehyde, the major product under these conditions. A small amount of benzonitrile is also observed. In the absence of alpha-hydrogens (aldoxime ether 4), the major product is benzonitrile, which is thought to occur via reaction of the excited (triplet) sensitizer with the aldoxime ether. Abstraction of the iminyl hydrogen yields an imidoyl radical, which undergoes a beta-scission to yield benzonitrile. An alternative pathway involving electron transfer followed by removal of the iminyl proton was not deemed viable based on charge densities obtained from DFT (B3LYP/6-31G*) calculations. Similarly, a rearrangement pathway involving an intramolecular hydrogen atom transfer process was ruled out through experiments with a deuterium-labeled benzaldehyde oxime ether. Studies involving nucleophilic solvents have shown that all aldoxime ethers reacted with MeOH by clean second-order kinetics with rate constants of 0.7 to 1.2 x 10(7) M(-1) s(-1), which suggests that there is only a small steric effect in these reactions. The steady-state experiments demonstrated that under these conditions no nitrile is formed. This is explained by a mechanistic scheme involving nucleophilic attack on the nitrogen of the aldoxime ether radical cation, followed by solvent-assisted [1,3]-proton transfer and elimination of an alcohol, similar to the results obtained for a series of acetophenone oxime ethers.     

The fragmentation-recombination mechanism of the enzyme glutamate mutase studied by QM/MM simulations

The radical mechanism of the conversion of glutamate to methylaspartate catalyzed by glutamate mutase is studied with quantum mechanical/molecular mechanical (QM/MM) simulations based on density functional theory (DFT/MM). The hydrogen transfer between the substrate and the cofactor is found to be rate limiting with a barrier of 101.1 kJ mol(-1). A careful comparison to the uncatalyzed reaction in water is performed. The protein influences the reaction predominantly electrostatically and to a lesser degree sterically. Our calculations shed light on the atomistic details of the reaction mechanism. The well-known arginine claw and Glu 171 ( Clostridium cochlearium notation) are found to have the strongest influence on the reaction. However, a catalytic role of Glu 214, Lys 322, Gln 147, Glu 330, Lys 326, and Met 294 is found as well. The arginine claw keeps the intermediates in place and is probably responsible for the enantioselectivity. Glu 171 temporarily accepts a proton from the glutamyl radical intermediate and donates it back at the end of the reaction. We relate our results to experimental data when available. Our simulations lead to further understanding of how glutamate mutase catalyzes the carbon skeleton rearrangement of glutamate.     

Epoxidation and 1,2-dihydroxylation of alkenes by a nonheme iron model system - DFT supports the mechanism proposed by experiment

The FeII complexes of two isomeric pentadentate bispidine ligands in the presence of H2O2 are catalytically active for the epoxidation and 1,2-dihydroxylation of cyclooctene (bispidine = 3,7-diazabicyclo[3.3.1]nonane; the two isomeric pentadentate bispidine ligands discussed here have two tertiary amine and three pyridine donors). The published spectroscopic and mechanistic data, which include an extensive set of 18O labeling experiments, suggest that the FeIV=O complex is the catalytically active species, which produces epoxide as well as cis- and trans-1,2-dihydroxylated products. Several observations from the published experimental study are addressed with hybrid density functional methods and, in general, the calculations support the proposed, for nonheme iron model systems novel mechanism, where the formation of a radical intermediate emerges from the reaction of the FeIV=O oxidant and cyclooctene. The calculations suggest that the S = 1 ground state of the FeIV=O complex reacts with cyclooctene in a stepwise reaction, leading to the formation of a carbon-based radical intermediate. This radical is captured by O2 from air to produce the majority of the epoxide products in an aerobic atmosphere. Under anaerobic conditions, the produced epoxide product is due to the cyclization of the radical intermediate. Several possible spin states (ST = 3, 2, 1, 0) of the radical intermediate are close in energy. As a result of the substantial energy barrier, calculated for the ST = 3 spin ground state, a spin-crossover during the cyclization step is assumed, and a possible two-state scenario is found, where the S = 2 state of the FeIV=O complex participates in the catalytic mechanism. The 1,2-dihydroxylation proceeds, as suggested by experiment, via an unprecedented pathway, where the radical intermediate is captured by a hydroxyl radical, the source of which is FeIII-OOH, and this reaction is barrierless. The calculations suggest that dihydroxylation can also occur by a direct oxidation pathway from FeIII-OOH. The strikingly different reactivities observed with the two isomeric bispidine FeII complexes are rationalized on the basis of structural and electronic differences.