Effect of side chains on competing pathways for beta-scission reactions of peptide-backbone alkoxyl radicals

High-level quantum chemistry calculations have been carried out to investigate beta-scission reactions of alkoxyl radicals located at the alpha-carbon of a peptide backbone. This type of alkoxyl radical may undergo three possible beta-scission reactions, namely C-C beta-scission of the backbone, C-N beta-scission of the backbone, and C-R beta-scission of the side chain. We find that the rates for the C-C beta-scission reactions are all very fast, with rate constants of the order 10(12) s(-1) that are essentially independent of the side chain. The C-N beta-scission reactions are all slow, with rate constants that range from 10(-0.7) to 10(-4.5) s(-1). The rates of the C-R beta-scission reactions depend on the side chain and range from moderately fast (10(7) s(-1)) to very fast (10(12) s(-1)). The rates of the C-R beta-scission reactions correlate well with the relative stabilities of the resultant side-chain product radicals (*R), as reflected in calculated radical stabilization energies (RSEs). The order of stabilities for the side-chain fragment radicals for the natural amino acids is found to be Ala < Glu < Gln approximately Leu approximately Met approximately Lys approximately Arg < Asp approximately Ile approximately Asn approximately Val < Ser approximately Thr approximately Cys < Phe approximately Tyr approximately His approximately Trp. We predict that for side-chain C-R beta-scission reactions to effectively compete with the backbone C-C beta-scission reactions, the side-chain fragment radicals would generally need an RSE greater than approximately 30 kJ mol(-1). Thus, the residues that may lead to competitive side-chain beta-scission reactions are Ser, Thr, Cys, Phe, Tyr, His, and Trp.     

Thermal decomposition mechanisms of tert-alkyl peroxypivalates studied by the nitroxide radical trapping technique

The thermolysis of a series of tert-alkyl peroxypivalates 1 in cumene has been investigated by using the nitroxide radical-trapping technique. tert-Alkoxyl radicals generated from the thermolysis underwent the unimolecular reactions, beta-scission, and 1,5-H shift, competing with hydrogen abstraction from cumene. The absolute rate constants for beta-scission of tert-alkoxyl radicals, which vary over 4 orders of magnitude, indicate the vastly different behavior of alkoxyl radicals. However, the radical generation efficiencies of 1 varied only slightly, from 53 (R = Me) to 63% (R = Bu(t)()), supporting a mechanism involving concerted two-bond scission within the solvent cage to generate the tert-butyl radical, CO(2), and an alkoxyl radical. The thermolysis rate constants of tert-alkyl peroxypivalates 1 were influenced by both inductive and steric effects [Taft-Ingold equation, log(rel k(d)) = (0.97 +/- 0. 14)Sigmasigma - (0.31 +/- 0.04)SigmaE(s)(c), was obtained].     

Laser flash photolysis studies of alkoxyl radical kinetics using 4-nitrobenzenesulfenate esters as radical precursors

4-Nitrobenzenesulfenate esters were used as precursors for the generation of alkoxyl radicals under laser flash photolysis conditions. The esters were efficiently cleaved using the Nd:YAG third harmonic (355 nm) to produce alkoxyl radicals and the 4-nitrobenzenethiyl radical. Rate constants for beta-scission and 1, 5-hydrogen abstraction reactions of alkoxyl radicals were measured.     

On the mechanism and kinetics of radical reactions of epoxyketones and epoxynitriles induced by titanocene chloride

The reactions of a series of epoxynitriles and epoxyketones induced by titanocene chloride have been studied. The kinetics of the decyanogenation of beta,gamma-epoxynitriles with Ti(III) corresponds to a radical reaction (k25 approximately 106 s-1), as demonstrated by competition experiments with H-transfer from 1,4-cyclohexadiene (1,4-CHD) or PhSH or conjugate addition to acrylonitrile. The 5-exo cyclization onto nitrile induced by Ti(III) is a radical reaction (k25 approximately 107 s-1) as seen in competition experiments with H-transfer from PhSH or the titanocene-water complex. The iminyl or alkoxyl radicals generated by 5-exo cyclization onto nitriles or ketones only undergo a reduction with Ti(III). This reaction overwhelms any alternative process, such as tandem cyclization onto alkenes or beta-scission. Iminyl radicals generated by 4-exo cyclizations onto nitriles undergo reduction with Ti(III) and beta-scission reaction in a ratio of 96:4 when the alpha-substituent is CN. Alkoxyl radicals from 4-exo cyclizations onto ketone carbonyls undergo reduction with Ti(III) and beta-scission in a ratio of 60:40 when the alpha-substituent is COOR. In nearly all the reactions studied, the role of Ti(III) is triple: a radical initiator (homolytic cleavage of oxirane), a Lewis acid (coordination to CN or C=O), and a terminator (reduction of iminyl or alkoxyl radicals).     

Studies on the total synthesis of (-)-CP-263,114

Alkoxyl radicals have a wide range of applications in organic synthesis due to their remarkable chemical properties in molecular transformation. The present study shows two types of alkoxyl radicals (primary vs tertiary) to selectively undergo dehydrogenation and beta-scission to give rise to key structural elements of (-)-CP-263,114 (1). By alkoxyl radical transformation followed by installation of the C19-C25 (CP numbering) side chain and the bridged bisacetal unit, the functionalized CP precursor 2 was obtained.     

Spectral properties and absolute rate constants for beta-scission of ring-substituted cumyloxyl radicals. A laser flash photolysis study

A laser flash photolysis study of the spectral properties and beta-scission reactions of a series of ring-substituted cumyloxyl radicals has been carried out. All cumyloxyl radicals display a broad absorption band in the visible region of the spectrum, which decays on the microsecond time scale, leading to a strong increase in absorption in the UV region of the spectrum, which is attributed to the corresponding acetophenone formed after beta-scission of the cumyloxyl radicals. The position of the visible absorption band is red-shifted by the presence of electron-donating ring substituents, while a blue-shift is observed in the presence of electron-withdrawing ring substituents, suggesting that + R ring substituents promote charge separation in the excited cumyloxyl radical through stabilization of the partial positive charge on the aromatic ring of an incipient radical zwitterion. Along this line, an excellent Hammett-type correlation between the experimentally measured energies at the visible absorption maxima of the cumyloxyl radicals and sigma(+) substituent constants is obtained. A red-shift is also observed on going from MeCN to MeCN/H(2)O for all cumyloxyl radicals, pointing toward a specific effect of water. The ring substitution does not influence to a significant extent the rate constants for beta-scission of the cumyloxyl radicals, which varies between 7.1 x 10(5) and 1.1 x 10(6) s(-1), a result that suggests that cumyloxyl radical beta-scission is not governed by the stability of the resulting acetophenone. Finally, k(beta) increases on going from MeCN to the more polar MeCN/H(2)O 1:1 for all cumyloxyl radicals, an observation that reflects the increased stabilization of the transition state for beta-scission through increased solvation of the incipient acetophenone product.     

EPR spin-trapping evidence for the direct,one-electron reduction of tert-butylhydroperoxide to the tert-butoxyl radical by copper(II): paradigm for a previously overlooked reaction in the initiation of lipid peroxidation

Lipid peroxidation is often initiated using Cu(II) ions. It is widely assumed that Cu(II) oxidizes preformed lipid hydroperoxides to peroxyl radicals, which propagate oxidation of the parent fatty acid via hydrogen atom abstraction. However, the oxidation of alkyl hydroperoxides by Cu(II) is thermodynamically unfavorable. An alternative means by which Cu(II) ions could initiate lipid peroxidation is by their one-electron reduction of lipid hydroperoxides to alkoxyl radicals, which would be accompanied by the generation of Cu(III). We have investigated by EPR spectroscopy, in conjunction with the spin trap 5,5-dimethyl-1-pyrroline N-oxide, the reactions of various Cu(II) chelates with tert-butylhydroperoxide. Spectra contained signals from the tert-butoxyl, methyl, and methoxyl radical adducts. In many previous studies, the signal from the methoxyl adduct has been assigned incorrectly to the tert-butylperoxyl adduct, which is now known to be unstable, releasing the tert-butoxyl radical upon decomposition. This either is trapped by 5,5-dimethyl-1-pyrroline N-oxide or undergoes beta-scission to the methyl radical, which either is trapped or reacts with molecular oxygen to give, ultimately, the methoxyl radical adduct. By using metal chelates that are known to be specific in either their oxidation or reduction of tert-butylhydroperoxide (the Cu(II) complex of bathocuproine disulfonic acid and the Fe(II) complex of diethylenetriaminepentaacetic acid, respectively) for comparison, we have been able to deduce, from the relative concentrations of the three radical adducts, that the Cu(II) complexes tested each reduce tert-butylhydroperoxide directly to the tert-butoxyl radical. These findings suggest that a previously overlooked reaction, namely the direct reduction of preformed lipid hydroperoxides to alkoxyl radicals by Cu(II), may be responsible for the initiation of lipid peroxidation by Cu(II) ions.     

Intramolecular reactions of free radicals formed from artemisinin

Two cyclic alkoxyl radicals are formed as a result of peroxide bridge scission in artemisinin. Intramolecular reactions of these radicals induce the cascade of reactions of isomerization, decyclization, and decomposition of formed free radicals. It includes 14 reactions of intramolecular free radical hydrogen transfer, 17 reactions of decyclization of alkoxyl and alkyl radicals, and 4 reactions of decomposition of alkoxyl, acyl, and carboxyl radicals. The enthalpies of these 35 reactions are calculated. Using intersection parabolas method, activation energies and rate constants of all these reactions are calculated. The most rapid reactions are selected for every intermediate free radical. © 2005 Wiley Periodicals, Inc. Int J Chem Kinet 37: 554–565, 2005     

Cumene oxidation by cis-[RuIV(bpy)2(py)(O)]2+, revisited

cis-[RuIV(bpy)2(py)(O)]2+ oxidizes cumene (2-phenylpropane) in acetonitrile solution primarily to cumyl alcohol (2-phenyl-2-propanol), alpha-methylstyrene, and acetophenone. Contrary to a prior report, the rate of the reaction is not accelerated by added nucleophiles. There is thus no evidence for the hydride transfer mechanism originally proposed. Instead, the results are consistent with a mechanism of initial hydrogen atom transfer from cumene to the ruthenium oxo group. This is indicated by the correlation of rate with C-H bond strength and by the various products observed. The formation of acetophenone, with one carbon less than cumene, is suggested to occur via a multistep pathway involving decarbonylation of the acyl radical from 2-phenylpropanal. An alternative mechanism involving beta-scission of cumyloxyl radical is deemed unlikely because of the difficulty of generating alkoxyl radicals under anaerobic conditions and the lack of rearranged products in the oxidation of triphenylmethane by cis-[RuIV(bpy)2(py)(O)]2+.     

4-Terf-Butylperoxymethyl-9-Methoxypsoralen as Intercalating Photochemical Alkoxyl-Radical Source for Oxidative DNA Damage

We describe the synthesis of a novel psoralen peroxide 1 that generates on irradiation (350 nml alkoxyl radicals, namely tert-butoxyl radicals, as confirmed by electron spin resonance studies with the spin trap 5,5-dimethyl-pyrroline-N-oxide. The radical source intercalates into the DNA, which has been demonstrated by linear-flow-dichroism measurements. Thus, the alkoxyl radicals are formed advantageously directly in the DNA matrix. In supercoiled pBR322 DNA, the generation of strand breaks by the photochemically or metal-catalyzed generated alkoxyl radicals is demonstrated. Photosensitization by the psoralen chromophore was excluded because similar substances that do not release radicals caused no DNA damage, nor were the photoproducts of the peroxide 1 active. With calf thymus DNA, 8-oxoGua and small amounts of guanidine-releasing products, e.g. oxazolone, were observed. However, in these reactions the photoproduct also displayed some DNA-oxidizing capacity.     

Mechanism of action of sensors for reactive oxygen species based on fluorescein-phenol coupling: the case of 2-[6-(4'-hydroxy)phenoxy-3H-xanthen-3-on-9-yl]benzoic acid

We demonstrate the ability of a sensor containing a tethered fluorescein-phenol structure to react with peroxyl radicals and with an oxidizing agent such as potassium ferricyanide. This latter reaction yields the corresponding peroxyl radical as observed by EPR analysis. We propose that the reaction of the sensor with peroxyl and alkoxyl radicals is also initiated by the formation of the phenoxyl radicals, which is followed by radical-radical reactions and product hydrolysis responsible for the release of fluorescein. The proposed mechanism is based on results obtained by laser flash photolysis, HPLC and EPR studies of the reaction of peroxyl and alkoxyl radicals with 4-phenoxylphenol, a molecule used to mimic the behavior of the sensor.     

Flash vacuum pyrolysis of methoxy-substituted lignin model compounds

The flash vacuum pyrolysis (FVP) of methoxy-substituted beta-O-4 lignin model compounds has been studied at 500 degrees C to provide mechanistic insight into the primary reaction pathways that occur under conditions of fast pyrolysis. FVP of PhCH(2)CH(2)OPh (PPE), a model of the dominant beta-O-4 linkage in lignin, proceeds by C-O and C-C cleavage, in a 37:1 ratio, to produce styrene plus phenol as the dominant products and minor amounts of toluene, bibenzyl, and benzaldehyde. From the deuterium isotope effect in the FVP of PhCD(2)CH(2)OPh, it was shown that C-O cleavage occurs by homolysis and by 1,2-elimination in a ratio of 1.4:1, respectively. Methoxy substituents enhance the homolysis of the beta-O-4 linkage, relative to PPE, in o-CH(3)O-C(6)H(4)OCH(2)CH(2)Ph (o-CH(3)O-PPE) and (o-CH(3)O)(2)-C(6)H(3)OCH(2)CH(2)Ph ((o-CH(3)O)(2)-PPE) by a factor of 7.4 and 21, respectively. The methoxy-substituted phenoxy radicals undergo a complex series of reactions, which are dominated by 1,5-, 1,6-, and 1,4-intramolecular hydrogen abstraction, rearrangement, and beta-scission reactions. In the FVP of o-CH(3)O-PPE, the dominant product, salicylaldehyde, forms from the methoxyphenoxy radical by a 1,5-hydrogen shift to form 2-hydroxyphenoxymethyl radical, 1,2-phenyl shift, and beta-scission of a hydrogen atom. The 2-hydroxyphenoxymethyl radical can also cleave to form formaldehyde and phenol in which the ratio of 1, 2-phenyl shift to beta-scission is ca. 4:1. In the FVP of o-CH(3)O-PPE and (o-CH(3)O)(2)-PPE, products (ca. 20 mol %) are also formed by C-O homolysis of the methoxy group. The resulting phenoxy radicals undergo 1,5- and 1,6-hydrogen shifts in a ratio of ca. 2:1 to the aliphatic or benzylic carbon, respectively, of the phenethyl chain. In the FVP of (o-CH(3)O)(2)-PPE, o-cresol was the dominant product. It was formed by decomposition of 2-hydroxy-3-hydroxymethylbenzaldehyde and 2-hydroxybenzyl alcohol, which are formed from a complex series of reactions from the 2, 6-dimethoxyphenoxy radical. The key step in this reaction sequence was the rapid 1,5-hydrogen shift from 2-hydroxy-3-methoxybenzyloxy radical to 2-hydroxymethyl-6-methoxyphenoxy radical before beta-scission of a hydrogen atom to give the substituted benzaldehyde. The 2-hydroxybenzyl alcohols rapidly decompose under the reaction conditions to o-benzoquinone methide and pick up hydrogen from the reactor walls to form o-cresol.     

Competition between mono-and bimolecular reactions of artemisinin alkoxyl radicals

The competition between intramolecular and bimolecular reactions of alkoxyl radicals formed from artemisinin was theoretically analyzed. The enthalpies of these reactions were calculated. The activation energies and rate constants of reactions of intramolecular hydrogen atom transfer, decyclization, and decomposition of alkoxyl radicals of artemisinin and several its derivatives, as well as the activation energies and rate constants of reactions of these radicals with the C-H, S-H, and O-H bonds in biological substrates and their analogs were calculated by the intersecting parabolas method The fastest reactions of artemisinin alkoxyl radicals were identified. The full kinetic scheme of transformation of these radicals was proposed. Artemisinin radicals with the free valence on the carbon atom are predominantly formed due to the transformation of the artemisininoxyl radicals. Published in Russian in Izvestiya Akademii Nauk. Seriya Khimicheskaya, No. 9, pp. 1502–1510, September, 2006.     

beta-Fragmentation of primary alkoxyl radicals versus hydrogen abstraction: synthesis of polyols and alpha,omega-differently substituted cyclic ethers from carbohydrates

The beta-fragmentation of primary alkoxyl radicals, described in many cases as low-yielding and plagued by side reactions, can proceed in satisfactory yields using carbohydrate substrates. The only reaction that can compete significantly with the beta-scission is the intramolecular hydrogen abstraction. The ratio of beta-fragmentation to hydrogen abstraction can be varied according to the reaction conditions, the stereochemistry of the substituents (e.g., alpha- or beta-anomeric substituents), and the protecting groups chosen. The carbohydrate substrates are easily prepared, and the mild reaction conditions are compatible with most functional groups. The beta-scission reaction provides an expedient way toward shorter and less common sugar series and also toward alpha,omega-differently substituted cyclic ethers. These units are useful building blocks and are present in many natural products with interesting biological activity.     

Characterization, via ESR spectroscopy, of radical intermediates in the photooxidation of arylcarbinols by ceric ammonium nitrate

The photooxidation by ceric ammonium nitrate (CAN) of several aryl and naphthylcarbinols has been studied by means of ESR spectroscopy. For all the investigated arylcarbinols, but not for the naphthyl derivatives, it has been possible to detect radical intermediates deriving from the parent alkoxyl radicals. In particular, in the photooxidation of 1,1-diphenylethanol, a bridged-radical intermediate has been detected. The assignment has been validated through experiments with two different labeled compounds: the 1,1-[2', 3', 4', 5', 6', 2", 3", 4", 5", 6"-2H10]diphenylethanol and the 1,1-diphenyl[2, 2, 2-2H3]ethanol. A similar bridged radical has been found to be formed in the photooxidation of triphenylmethanol, while, for the 1,1-diphenylpropanol, the only detectable species has been the ethyl radical deriving from a competitive beta-scission process. Finally, for the 2-phenylpropan-2-ol (cumyl alcohol), two radical species have been identified: the methyl, deriving from the beta-scission process, and the cyanomethylene, deriving from H-abstraction of the cumyloxyl radical from the solvent. A kinetic study on the competition of the two processes has also been conducted and the parameters of the Arrhenius equation for the latter process have been estimated.     

Relevance of backbiting and beta-scission reactions in the free radical polymerization of Acrylonitrile

Summary: In this work, backbiting and beta-scission reactions are investigated through Quantum Chemistry methods by adopting the Becke 3 parameters and Lee Yang Parr functional (B3LYP) and 6-31G(d,p) basis set. Namely, the 1:3, 1:5 and 1:7 backbiting reactions are studied for acrylonitrile polymerization. It was found that the backbiting 1:5 is the most favorited because this kinetic event leads to the formation of a 6 membered transition state, while the backbiting 1:3 requires high activation energy due to the formation of a highly strained 4 membered ring. 7:3 backbiting reaction was also examined, since it is an alternative pathway that can explain the formation of defects generated by radicals in the third position. Simulations showed that this kinetic step is characterized by high rate constant because of its low activation energy. The right and left beta-scission reactions from the mid chain radicals formed by the considered backbiting reactions are also studied. Computational analysis demonstrated that all beta-scission reactions are endothermic and both the right and left beta-scission reactions have the same activation energy, which seems to be more influenced by the position of the mid chain radical.     

On the radical brook rearrangement. Reactivity of alpha-silyl alcohols, alpha-silyl alcohol nitrite esters, and beta-haloacylsilanes under radical-forming conditions

Two alkoxyl radical generation methods, lead tetraacetate treatment of alcohols and photolysis of nitrites, were applied to alpha-silyl alcohols 21 and to the corresponding nitrites 25 with a view to forming alpha-silyl alkoxyl radicals 23 and studying their possible radical Brook rearrangement to alpha-silyloxy carbon radicals 24. LTA treatment of 21 led to their quick and efficient conversion into mixed acetyl-silyl acetals 33 under very mild conditions. Photolysis of alpha-alkylmonosubstituted alpha-silyl nitrites 25 to the corresponding aldehydes is considered to proceed through alpha-silyl alkoxyl radical intermediates 23. A concerted process is, however, proposed for the case of the benzyl nitrites analogues. On the basis of these results, it is postulated that resonance stabilization can have a major influence on the evolution of alpha-silyl alkoxyl radicals: should this stabilization be possible, they quickly evolve by alpha-silyl fragmentation; otherwise, they tend to undergo radical Brook rearrangement. It was also found that the radical Brook rearrangement of alpha-silyl cyclopropyloxyl radicals generated from beta-bromoacylsilanes under standard tin-radical conditions is too slow to compete with beta-fragmentation.     

Magnetic Field Effects on the Dynamics of Radical Pairs: The Partition Effect in Vesicles

A combination of product studies and laser flash photolysis (LFP) was used to study the recombination of radical pairs derived from dibenzyl ketone (DBK) and its methyl derivative. Two sizes of vesicles consisting of dioctade-cyldimethylammonium chloride (DODAC) were generated. In the product studies, irradiation of the ketone led to a substantial overall cage effect both above and below the phase-transition temperature. However, LFP results demonstrate that no geminate reactions, that correspond to the reactions of radicals generated from the same precursor molecule are occurring even at room temperature. The results are discussed in terms of the partition effect where the cage effect is determined by the differences in the solubility of the radical inside the vesicle bilayer and in the aqueous phase. In small (30 nm diameter) vesicles, most of the random recombination occurs after re-entry of the radicals into the bilayer, whereas in large (?150 nm) liposomes, a significant proportion of the recombination reactions takes place in the bulk water. This work demonstrates that magnetic fields can efficiently alter the reactivity of radicals involved in nongeminate pathways and further supports the use of the radical pair mechanism to explain possible effects of magnetic fields in biological systems.     

Revisiting the reaction of hydroxyl radicals with vicinal diols in water

The carbonyl products of the reactions of hydroxyl radicals with three vicinal diols (ethane-1,2-diol, propane-1,2-diol and butane-2,3-diol) have been identified and quantified. Hydroxyl radicals were produced by γ-radiolysis of N(2)O-saturated aqueous solutions. The reactions result in the formation of alkoxyl radicals (~15%) followed by β-fragmentation, and α-hydroxyl alkyl radicals that undergo H(2)O elimination. The latter process is part of a radical chain reaction at higher diol concentrations.     

Model dialkyl peroxides of the fenton mechanistic probe 2-methyl-1-phenyl-2-propyl hydroperoxide (MPPH): kinetic probes for dissociative electron transfer

Two dialkyl peroxides, devised as kinetic probes for the heterogeneous electron transfer (ET), are studied using heterogeneous and homogeneous electrochemical techniques. The peroxides react by concerted dissociative ET reduction of the O-O bond. Under heterogeneous conditions, the only products isolated are the corresponding alcohols from a two-electron reduction as has been observed with other dialkyl peroxides studied to date. However, under homogeneous conditions, a generated alkoxyl radical undergoes a rapid beta-scission fragmentation in competition with the second ET resulting in formation of acetone and a benzyl radical. With knowledge of the rate constant for fragmentation and accounting for the diffuse double layer at the electrode interface, the heterogeneous ET rate constant to the alkoxyl radicals is estimated to be 1500 cm s(-1). The heterogeneous and homogeneous ET kinetics of the O-O bond cleavage have also been measured and examined as a function of the driving force for ET, deltaG(ET), using dissociative electron transfer theory. From both sets of kinetics, besides the evaluation of thermochemical parameters, it is demonstrated that the heterogeneous and homogeneous reduction of the O-O bond appears to be non-adiabatic.