Gas-phase reactions of charged phenyl radicals with neutral biomolecules evaporated by laser-induced acoustic desorption

A generally applicable method for the study of phenyl radicals' reactions with neutral biomolecules in the gas phase is demonstrated. Neutral biomolecules were evaporated into a Fourier-transform ion cyclotron resonance mass spectrometer (FT-ICR) by means of laser-induced acoustic desorption (LIAD) and subsequently reacted with trapped charged phenyl radicals. The structural integrity of the evaporated alanylalanine molecules was verified by reaction with dichlorophosphenium ions. Examination of the reactions of charged phenyl radicals with alanylalanine and thymidine evaporated via LIAD revealed hydrogen atom abstraction for both alanylalanine and thymidine as well as an addition/elimination product for the reaction with thymidine. These reactions are consistent with the results obtained by others in solution. Further, a previously unstudied reaction of the nucleotide of thymine (T1) with charged phenyl radical was found to yield analogous products as the reaction with thymidine.     

Radicals produced by gamma-irradiation of hyperquenched glassy water containing 2'-deoxyguanosine-5'-monophosphate

Hyperquenched glassy water (HGW) has been suggested as the best model for liquid water, to be used in low-temperature studies of indirect radiation effects on dissolved biomolecules (Bednarek et al. J. Am. Chem. Soc. 1996, 118, 9387). In the present work, these effects are examined by X-band electron spin resonance spectroscopy (ESR) in gamma-irradiated HGW matrix containing 2'-deoxyguanosine-5'-monophosphate. Analysis of the complex ESR spectra indicates that, in addition to OH(*) and HO2(*) radicals generated by water radiolysis, three species are trapped at 77 K:(i) G(C8)H(*) radical, the H-adduct to the double bond at C8; (ii) G(- *) radical anion, the product of electron scavenging by the aromatic ring of the base; and (iii) dR(-H)(*) radicals formed by H abstraction from the sugar moiety, predominantly at the C'5 position. We discuss the yields of the radicals, their thermal stability and transformations, as well as the effect of photobleaching. This study confirms our earlier suggestion that in HGW the H atom addition/abstraction products are created at 77 K in competition with HO2(*) radicals, in a concerted process following ionization of water molecule at L-type defect sites of the H-bonded matrix. The lack of OH(*) reactivity toward the solute suggests that the H-bonded structure in HGW is much more effective in recombining OH(*) radicals than that of aqueous glasses obtained from highly concentrated electrolyte solutions. Furthermore, complementary experiments for the neat matrix have provided evidence that HO2(*) radicals are not the product of H atom reaction with molecular oxygen, possibly generated by ultrasounds used in the process of sample preparation.     

Reactions of charged phenyl radicals with aliphatic amino acids in the gas phase

Gas-phase reactivity of five differently substituted positively charged phenyl radicals was examined toward six amino acids by using Fourier transform ion cyclotron resonance mass spectrometry (FT-ICR). The reactivity of the radicals studied was determined by the electrophilicity of the radical, which can be characterized by the radical's electron affinity (EA). The larger the electron affinity of the radical, the higher the overall reaction rate. In addition to the expected H-atom abstraction, several unprecedented reaction pathways were observed, including NH2 abstraction, SH abstraction, and SCH3 abstraction. These reaction pathways dominate for the most electrophilic radicals, and they may not follow radical but rather nucleophilic addition-elimination mechanisms. Hydrogen abstraction from glycine was also investigated theoretically. The results indicate that hydrogen abstraction from alphaC of glycine is both kinetically and thermodynamically favored over the NH2 group. The ordering of transition state energies for hydrogen abstraction from the alphaC and NH2 groups was found to reflect the radicals' EA ordering.     

Reactions of superoxo and oxo metal complexes with aldehydes. Radical-specific pathways for cross-disproportionation of superoxometal ions and acylperoxyl radicals

The aquachromyl(IV) ion, Cr(aq)O(2+), reacts with acetaldehyde and pivaldehyde by hydrogen atom abstraction and, in the presence of O(2), produces acylperoxyl radicals, RC(O)OO(*). In the next step, the radicals react with Cr(aq)OO(2+), a species accompanying Cr(aq)O(2+) in our preparations. The rate constant for the Cr(aq)OO(2+)/CH(3)C(O)OO(*) cross reaction, k(Cr) = 1.5 x 10(8) M(-1) s(-1), was determined by laser flash photolysis. The evidence points to radical coupling at the remote oxygen of Cr(aq)OO(2+), followed by elimination of O(2) and formation of CH(3)COOH and Cr(V)(aq)O(3+). The latter disproportionates and ultimately yields Cr(aq)(3+) and HCrO(4)(-). No CO(2) was detected. The Cr(aq)OO(2+)/C(CH(3))(3)C(O)OO(*) reaction yielded isobutene, CO(2), and Cr(aq)(3+), in addition to chromate. In the suggested mechanism, the transient Cr(aq)OOOO(O)CC(CH(3))(3)(2+) branches into two sets of products. The path leading to chromate resembles the CH(3)C(O)OO(*) reaction. The other products arise from an unprecedented intramolecular hydrogen transfer from the tert-butyl group to the CrO entity and elimination of CO(2) and O(2). A portion of C(CH(3))(3)C(O)OO(*) was captured by (CH(3))(3)COO(*), which was in turn generated by decarbonylation of acyl radicals and oxygenation of tert-butyl radicals so formed.     

Mild generation of 5-(2'-deoxyuridinyl)methyl radical from a phenyl selenide precursor

[reaction: see text] 5-(2'-Deoxyuridinyl)methyl radical (1) resulting from formal hydrogen atom abstraction from the methyl group of thymidine is produced from the respective phenyl selenide precursor (2) via 350 nm photolysis or mild thermolysis (37 degrees C in the presence of glutathione) under aerobic or anaerobic conditions. The mild thermal generation of a nucleoside radical provides an alternative to previously reported photochemical methods, which are not always compatible with nucleic acids.     

The selectivity of charged phenyl radicals in hydrogen atom abstraction reactions with isopropanol

The vertical electron affinity is demonstrated to be a key factor in controlling the selectivity of charged phenyl radicals in hydrogen atom abstraction from isopropanol in the gas phase. The measurement of the total reaction efficiencies (hydrogen and/or deuterium atom abstraction) for unlabeled and partially deuterium-labeled isopropanol, and the branching ratios of hydrogen and deuterium atom abstraction, by using a Fourier transform ion cyclotron resonance (FT-ICR) mass spectrometer, allowed the determination of the selectivity for each site in the unlabeled isopropanol. Examination of hydrogen atom abstraction from isopropanol by eight structurally different radicals revealed that the preferred site is the CH group. The selectivity of the charged phenyl radicals correlates with the radical's vertical electron affinity and the reaction efficiency. The smaller the vertical electron affinity of a radical, the lower its reactivity, and the greater the preference for the thermodynamically favored CH group over the CH3 group or the OH group. As the vertical electron affinity increases from 4.87 to 6.28 eV, the primary kinetic isotope effects decrease from 2.9 to 1.3 for the CD group, and the mixture of primary and alpha-secondary kinetic isotopes decreases from 6.0 to 2.4 for the CD3 group.     

Hydrogen-atom abstraction from the adenine-uracil base pair

The hydrogen-abstracted radicals from the adenine-uracil (AU) base pair have been studied at the B3LYP/DZP++ level of theory. The A(N9)-U and A-U(N1) radicals, which correspond to hydrogen-atom abstraction at the adenine N9 and uracil N1 atoms, respectively, were predicted to be the two lowest-lying among the nine (AU-H) radicals studied in this study. The removal of the amino hydrogen of the adenine moiety that forms a hydrogen bond with the uracil O4 atom in the AU pair resulted in radical A(N6a)-U, which has the smallest base-pair dissociation energy, 5.9 kcal mol(-1). This radical is more likely to dissociate into the two isolated bases than to recover the hydrogen bond with the O4 atom through N6-H bond rotation along the C6-N6 bond. In general, the radicals generated by C-H bond breaking were higher in energy than those arising from N-H bond cleavage, because the unpaired electrons in the carbon-centered radicals were mainly localized on the carbon atom from which the hydrogen atom was removed. However, the highest-lying radical was found to arise from removal of the N3 hydrogen of uracil. The most remarkable structural feature of this radical is a very short C-H...O distance of 2.094 A, consistent with a substantial hydrogen bond. Although this radical lost the N1...H-N3 hydrogen bond between the two bases, its dissociation energy was predicted to be 12.9 kcal mol(-1), similar to that of the intact AU base pair. This is due to the transfer of electron density from the adenine N1 atom to the uracil N3 atom.     

Reaction of phenyl radical with propylene as a possible source of indene and other polycyclic aromatic hydrocarbons: an ab initio/RRKM-ME study

Ab initio G3(MP2,CC)//B3LYP/6-311G** calculations have been performed to investigate the potential energy surface (PES) and mechanism of the reaction of phenyl radical with propylene followed by kinetic RRKM-ME calculations of rate constants and product branching ratios at various temperatures and pressures. The reaction can proceed either by direct hydrogen abstraction producing benzene and three C(3)H(5) radicals [1-propenyl (CH(3)CHCH), 2-propenyl (CH(3)CCH(2)), and allyl (CH(2)CHCH(2))] or by addition of phenyl to the CH or CH(2) units of propylene followed by rearrangements on the C(9)H(11) PES producing nine different products after H or CH(3) losses. The H abstraction channels are found to be kinetically preferable at temperatures relevant to combustion and to contribute 55-75% to the total product yield in the 1000-2000 K temperature range, with the allyl radical being the major product (~45%). The relative contributions of phenyl addition channels are calculated to be ~35% at 1000 K, decreasing to ~15% at 2000 K, with styrene + CH(3) and 3-phenylpropene + H being the major products. Collisional stabilization of C(6)H(5) + C(3)H(6) addition complexes is computed to be significant only at temperatures up to 1000-1200 K, depending on the pressure, and maximizes at low temperatures of 300-700 K reaching up to 90% of the total product yield. At T > 1200 K collisional stabilization becomes negligible, whereas the dissociation products, styrene plus methyl and 3-phenylpropene + H, account for up to 45% of the total product yield. The production of bicyclic aromatic species including indane C(9)H(10) is found to be negligible at all studied conditions indicating that the phenyl addition to propylene cannot be a source of polycyclic aromatic hydrocarbons (PAH) on the C(9)H(11) PES. Alternatively, the formation of a PAH molecule, indene C(9)H(8), can be accomplished through secondary reactions after activation of a major product of the C(6)H(5) + C(3)H(6) addition reaction, 3-phenylpropene, by direct hydrogen abstraction by small radicals, such as H, OH, CH(3), etc. It is shown that at typical combustion temperatures 77-90% of C(9)H(9) radicals formed by H-abstraction from 3-phenylpropene undergo a closure of a cyclopentene ring via low barriers and then lose a hydrogen atom producing indene. This results in 7.0-14.5% yield of indene relative to the initial C(6)H(5) + C(3)H(6) reactants within the 1000-2000 K temperature range.     

Reactivity and selectivity of charged phenyl radicals toward amino acids in a Fourier transform ion cyclotron resonance mass spectrometer

The reactivity of 10 charged phenyl radicals toward several amino acids was examined in the gas phase in a dual-cell Fourier transform ion cyclotron resonance mass spectrometer. All radicals abstract a hydrogen atom from the amino acids, as expected. The most electrophilic radicals (with the greatest calculated vertical electron affinities (EA) at the radical site) also react with these amino acids via NH(2) abstraction (a nonradical nucleophilic addition-elimination reaction). Both the radical (hydrogen atom abstraction) and nonradical (NH(2) abstraction) reaction efficiencies were found to increase with the electrophilicity (EA) of the radical. However, NH(2) abstraction is more strongly influenced by EA. In contrast to an earlier report, the ionization energies of the amino acids do not appear to play a general reactivity-controlling role. Studies using several partially deuterium-labeled amino acids revealed that abstraction of a hydrogen atom from the α-carbon is only preferred for glycine; for the other amino acids, a hydrogen atom is preferentially abstracted from the side chain. The electrophilicity of the radicals does not appear to have a major influence on the site from which the hydrogen atom is abstracted. Hence, the regioselectivity of hydrogen atom abstraction appears to be independent of the structure of the radical but dependent on the structure of the amino acid. Surprisingly, abstraction of two hydrogen atoms was observed for the N-(3-nitro-5-dehydrophenyl)pyridinium radical, indicating that substituents on the radical not only influence the EA of the radical but also can be involved in the reaction. In disagreement with an earlier report, proline was found to display several unprecedented reaction pathways that likely do not proceed via a radical mechanism but rather by a nucleophilic addition-elimination mechanism. Both NH(2) and (15)NH(2) groups were abstracted from lysine labeled with (15)N on the side chain, indicating that NH(2) abstraction occurs both from the amino terminus and from the side chain. Quantum chemical calculations were employed to obtain insights into some of the reaction mechanisms.     

Gas‐phase radical–radical recombination reactions of nitroxides with substituted phenyl radicals

Fourier‐transform ion cyclotron resonance mass spectrometry has been used to examine gas‐phase reactions of four different nitroxide free radicals with eight positively charged pyridyl and phenyl radicals (some containing a Cl, F, or CF₃ substituent). All the radicals reacted rapidly (near collision rate) with nitroxides by radical–radical recombination. However, some of the radicals were also able to abstract a hydrogen atom from the nitroxide. The results establish that the efficiency (k_reaction/k_collision) of hydrogen atom abstraction varies with the electrophilicity of the radical, and hence is attributable to polar effects (a lowering of the transition‐state energy by an increase in its polar character). The efficiency of the recombination reaction is not sensitive to substituents, presumably due to a very low reaction barrier. Even so, after radical–radical recombination has occurred, the nitroxide adduct was found to fragment in different ways depending on the structure of the radical. For example, a cationic fragment was eliminated from the adducts of the more electrophilic radicals via oxygen anion abstraction by the radical (i.e., the nitroxide adduct cleaves heterolytically), whereas adducts of the less electrophilic radicals predominantly fragmented via homolytic cleavage (oxygen atom abstraction). Therefore, differences in the product branching ratios were found to be attributable to polar factors. © 2004 Wiley Periodicals, Inc. Int J Chem Kinet 36: 216–229 2004     

Theoretical and experimental investigations on the reactions of positively charged phenyl radicals with aromatic amino acids

The chemical behavior of positively charged phenyl radicals 3-dehydro-N-phenylpyridinium (a), N-(3-dehydro-5-chlorophenyl)pyridinium (b), and N-(3-dehydrophenyl)pyridinium (c) toward L-tyrosine, phenylalanine, and tryptophan was investigated in the gas phase both theoretically by performing molecular orbital calculations and experimentally by using FT/ICR mass spectrometry. All radicals react with phenylalanine and tryptophan nearly at the collision rate. The overall reactivity of the radicals toward tyrosine follows the order a > b > c, which is consistent with the electron affinity (EA) ordering of the radicals. The higher the electrophilicity (or EA) of the radical, the greater the reactivity. As expected, all radicals abstract a hydrogen atom from all of the amino acids. However, the most electrophilic radical a was also found to react with these amino acids via NH2 abstraction. A new reaction observed between radicals a-c and aromatic amino acids is the addition of the radical to the aromatic ring of the amino acid followed by Calpha-Cbeta bond cleavage, which leads to side-chain abstraction by the radical.     

Quinone sensitized electron transfer photooxidation of nucleic acids: chemistry of thymine and thymidine radical cations in aqueous solution

The 2-methyl-1,4-naphthoquinone (MQ) sensitized photooxidation of nucleic acid derivatives has been studied by laser flash photolysis and steady state methods. Thymine and thymidine, as well as other DNA model compounds, quench triplet MQ by electron transfer to give MQ radical anions and pyrimidine or purine radical cations. Although the pyrimidine radical cations cannot be directly observed by flash photolysis, the addition of N,N,N',N'-tetramethyl-1,4-phenylenediamine (TMPD) results in the formation of the TMPD radical cation via scavenging of the pyrimidine radical cation. The photooxidation products for thymine and thymidine are shown to result from subsequent chemical reactions of the radical cations in oxygenated aqueous solution. The quantum yield for substrate loss at limiting substrate concentrations is 0.38 for thymine and 0.66 for thymidine. The chemistry of the radical cations involves hydration by water leading to C(6)-OH adduct radicals of the pyrimidine and deprotonation from the N(1) position in thymine and the C(5) methyl group for thymidine. Superoxide ions produced via quenching of the quinone radical anion with oxygen appear to be involved in the formation of thymine and thymidine hydroperoxides and in the reaction with N(1)-thyminyl radicals to regenerate thymine. The effects of pH were examined in the range pH 5-8 in both the presence and absence of superoxide dismutase. Initial C(6)-OH thymine adducts are suggested to dehydrate to give N(1)-thyminyl radicals.     

Hydrogen-abstracted adenine-thymine radicals with interesting transferable properties

The formation of radicals on DNA bases through various pathways can lead to harmful structural alterations. Such processes are of interest for preventing alteration of healthy DNA and, conversely, to develop more refined methods for inhibiting the replication of unwanted mutagenic DNA. In the present work, we explore theoretically the energetic and structural properties of the nine possible neutral radicals formed via hydrogen abstraction from the adenine-thymine base pair. The lowest energy radical is formed by loss of a hydrogen atom from the methyl group of thymine. The next lowest energy radicals, lying 8 and 9 kcal mol-1 higher than the global minimum, are those in which hydrogens are removed from the two nitrogens that would join the base pair to 2-deoxyribose in double-stranded DNA. The other six radicals lie between 16 and 32 kcal mol-1 higher in energy. Unlike the guanine-cytosine base pair, adenine-thymine (A-T) exhibits only minor structural changes upon hydrogen abstraction, with all A-T derived radicals maintaining planarity. Moreover, the energetic ordering for the radicals of the two isolated bases (adenine and thymine) is preserved upon formation of the base pair, though with a wider spread of energies. Even more significantly, the energetic interleaving of the (A-H)*-T and A-(T-H)* radicals is correctly predicted from the X-H bond dissociation energies of the isolated adenine and thymine. This suggests that the addition of the hydrogen-bonded complement base only marginally affects the bond energies.     

Reaction dynamics of phenyl radicals (C6H5) with propylene (CH3CHCH2) and its deuterated isotopologues

The reactions between phenyl radicals (C6H5) and propylene (CH3CHCH2) together with its D6- and two D3-isotopologues were studied under single collision conditions using the crossed molecular beams technique. The chemical dynamics inferred from the center-of-mass translational and angular distributions suggests that the reactions are indirect and initiated by an addition of the phenyl radical to the alpha-carbon atom (C1 carbon atom) of the propylene molecule at the =CH2 unit to form a radical intermediate (CH3CHCH2C6H5) on the doublet surface. Investigations with D6-propylene specified that only a deuterium atom was emitted; the phenyl group was found to stay intact. Studies with 1,1,2-D3- and 3,3,3-D3-propylene indicated that the initial collision complexes CH3CDCD2C6H5 (from 1,1,2-D3-propylene) and CD3CHCH2C6H5 (from 3,3,3-D3-propylene) eject both a hydrogen atom via rather loose exit transition states to form the D3-isotopomers of cis/trans-1-phenylpropene (CH3CHCHC6H5) (80-90%) and 3-phenylpropene (H2CCHCH2C6H5) (10-20%), respectively. Implications of these findings for the formation of polycyclic aromatic hydrocarbons (PAHs) and their precursors in combustion flames are discussed.     

15N CIDNP study of formation and decay of peroxynitric acid: evidence for formation of hydroxyl radicals

The reaction of nitrous acid with hydrogen peroxide leads to nitric acid as the only stable product. In the course of this reaction, peroxynitrous acid (ONOOH) and, in the presence of CO(2), a peroxynitrite-CO(2) adduct (ONOOCO(2)(-)) are intermediately formed. Both intermediates decompose to yield highly oxidizing radicals, which subsequently react with excess hydrogen peroxide to yield peroxynitric acid (O(2)NOOH) as a further intermediate. During these reactions, (15)N chemically induced dynamic nuclear polarization (CIDNP) effects are observed, the analysis of the pH dependency of which allows the elucidation of mechanistic details. The formation and decay of peroxynitric acid via free radicals NO(2)(*) and HOO(*) is demonstrated by the appearance of (15)N CIDNP leading to emission (E) in the (15)N NMR signal of O(2)NOOH during its formation and to enhanced absorption (A) during its decay reaction. Additionally, the (15)N NMR signal of the nitrate ion (NO(3)(-)) appears in emission at pH approximately 4.5. These observations are explained by proposing the intermediate formation of short-lived radical anions O(2)NOOH(*)(-) probably generated by electron transfer between peroxynitric acid and peroxynitrate anion, followed by decomposition of O(2)NOOH(*)(-) into NO(3)(-) and HO(*) and NO(2)(-) and HOO(*) radicals, respectively. The feasibility of such reactions is supported by quantum-chemical calculations at the CBS-Q level of theory including PCM solvation model corrections for aqueous solution. The release of free HO(*) radicals during decomposition of O(2)NOOH is supported by (13)C and (1)H NMR product studies of the reaction of preformed peroxynitric acid with [(13)C(2)]DMSO (to yield the typical "HO(*) products" methanesulfonic acid, methanol, and nitromethane) and by ESR spectroscopic detection of the HO(*) and CH(3)(*) radical adducts to the spin trap compound POBN in the absence and presence of isotopically labeled DMSO, respectively.     

Evidence for HOOO radicals in the formation of alkyl hydrotrioxides (ROOOH) and hydrogen trioxide (HOOOH) in the ozonation of C-H bonds in hydrocarbons.

Low-temperature ozonation of cumene (1a) in acetone, methyl acetate, and tert-butyl methyl ether at -70 degrees C produced the corresponding hydrotrioxide, C(6)H(5)C(CH(3))(2)OOOH (2a), along with hydrogen trioxide, HOOOH. Ozonation of triphenylmethane (1b), however, produced only triphenylmethyl hydrotrioxide, (C(6)H(5))(3)COOOH (2b). These observations, together with the previously reported experimental evidence, seem to support the "radical" mechanism for the first step of the ozonation of the C-H bonds in hydrocarbons, i.e., the formation of the caged radical pair (R(**)OOOH), which allows both (a) collapse of the radical pair to ROOOH and (b) the abstraction of the hydrogen atom from alkyl radical R(*) by HOOO(*) to form HOOOH. The B3LYP/6-311++G(d,p) (ZPE) calculations revealed that HOOO radicals are considerably stabilized by forming intermolecularly hydrogen-bonded complexes with acetone (BE = 8.55 kcal/mol) and dimethyl ether (7.04 kcal/mol). This type of interaction appears to be crucial for the relatively fast reactions (and the formation of the polyoxides in relatively high yields) in these solvents, as compared to the ozonations run in nonbasic solvents. However, HOOO radicals appear to be not stable enough to abstract hydrogen atoms outside the solvent cage, as indicated by the absence of HOOOH among the products in the ozonolysis of triphenylmethane. The decomposition of alkyl hydrotrioxides 2a and 2b involves a homolytic cleavage of the RO-OOH bond with subsequent "in cage" reactions of the corresponding radicals, while the decomposition of HOOOH is most likely predominantly a "pericyclic" process involving one or more molecules of water acting as a bifunctional catalyst to produce water and singlet oxygen (Delta(1)O(2)).     

Polarity of the transition state controls the reactivity of related charged phenyl radicals toward atom and group donors

Polar effects are demonstrated to be a key factor in controlling the reactivities of related charged phenyl radicals in different exothermic atom and group abstraction reactions in the gas phase. The effects of various meta substituents on the phenyl radicals' reactivity were probed via the measurement of bimolecular reaction rate constants by using Fourier transform ion cyclotron resonance mass spectrometry. This approach requires an additional, charged substituent to be present in the phenyl radical to allow mass spectrometric manipulation. The m-pyridinium group was chosen for this purpose. The substrates studied were allyl iodide, dimethyl disulfide, and tert-butyl isocyanide. Two of the reactions of interest, *I and *SCH(3) transfer, are thought to occur by concerted bimolecular homolytic substitution (S(H)2), and the third one, *CN transfer, by an addition/elimination mechanism. For all three substrates, the reaction rate was found to increase in the following order for the differently substituted phenyl radicals: CH(3) approximately H < Br approximately Cl approximately COOH < NO(2) approximately CN. This trend does not arise from differences in reaction exothermicities or bond dissociation energies but via lowering the reaction barrier by electronic effects. The stabilization of the transition state is attributed to its increased polar character. A semiquantitative measure of the barrier lowering effect for each substituent is obtained from its influence on the electron affinity of the charged radical, as the calculated (B3LYP/6-31+G(d)) adiabatic electron affinities of the radical model systems (ammonium instead of pyridinium charge site) follow the same trend as the reactivities.     

Hydrogen atom abstraction reactions of charged polyaromatic sigma-radicals related to the active intermediates of the enediyne antitumor drugs

Polar effects are demonstrated to play an important role in controlling the reactivity of polyaromatic sigma-radicals that are structurally related to the active intermediates of the enediyne anticancer type antibiotics. This was accomplished by measuring the rate constants of hydrogen atom abstraction for novel, charged dehydroquinolines, dehydroisoquinolines, dehydrobenzenes, and dehydronaphthalenes in the gas phase by using Fourier-transform ion cyclotron resonance mass spectrometry. The reactivity trends observed for these radicals upon hydrogen atom abstraction from tetrahydrofuran and 2-methyltetrahydrofuran, simple models of deoxyribose, do not reflect differences in reaction exothermicities, radical sizes, exact location of the radical site in the ring system, or heteroatom-radical site distances. However, the reactivity trends match the trend in the calculated electron affinities of the radicals. The radicals' different electrophilicities result in variations in the reaction barrier due to different extents of polarization of the transition state. Generally, the reaction efficiencies are the greatest when the formally charged heteroatom is contained within the same ring system as the radical site. In this case, polar effects have the greatest influence on radical reactivity. Hence, insertion of a basic heteroatom (which gets protonated in biological systems) into specific locations in the polyaromatic ring system of the sigma-biradicals, which ultimately cause cleavage of DNA exposed to the enediyne antitumor drugs, should allow tuning of the reactivity of these radicals.     

Model Calculations of Radiation-Induced Damage in 1-Methyluracil:9-Ethyladenine

Detailed EPR and ENDOR experiments on the cocrystalline complex of 1-methyluracil:9-Ethyladenine (MUEA) have revealed that the major radiation-induced products observed at 10 K on MU are: MUEA1, a radical formed by net hydrogen abstraction from the N1-CH₃ methyl group, MUEA2, the MU radical anion, and MUEA3, the C5 H-addition radical. The following four products were observed on the adenine moiety at 10 K, MUEA4, the N3 protonated adenine anion, MUEA5, the native adenine cation, MUEA6, the amino deprotonated adenine cation, and MUEA7, the C8 H-addition radical formed by net H-addition to C8 of the adenine base. The geometries, energetics, and hyperfine properties of all possible radicals of MU and EA, the native anions and cations, as well as radicals formed via net hydrogen atom abstraction (deprotonated cations) or addition (protonated anions) were investigated theoretically. All systems were optimized using the hybrid Hartree–Fock–density functional theory functional B3LYP, in conjunction with the 6-31G(d,p) basis set of Pople and co-workers. Calculations of the anisotropic hyperfine couplings for all the radicals observed in MUEA are presented and are shown to compare favorably with the experimentally measured hyperfine couplings. The calculated ionizations potentials indicate that EA would be the preferred oxidation site. In MUEA, both the adenine cation and its N4-deprotonated derivative were observed. The calculated electron affinities indicate that MU would be the preferred reduction site. In MUEA radical, MUEA2 is a uracil reduction product, however the protonation state of this radical could not be determined experimentally. Calculations suggest that MUEA2 is actually the C4=O protonated anion.     

The OH* + CH3SH reaction: support for an addition-elimination mechanism from ab initio calculations

Several intermediates for the CH(3)SH + OH(*) --> CH(3)S(*) + H(2)O reaction were identified using MP2(full) 6-311+g(2df,p) ab initio calculations. An adduct, CH(3)S(H)OH(*), I, with electronic energy 13.63 kJ mol(-1) lower than the reactants, and a transition state, II(double dagger), located 5.14 kJ mol(-1) above I, are identified as the entrance channel for an addition-elimination reaction mechanism. After adding zero-point and thermal energies, DeltaH(r,298) ( degrees )(reactants --> I) = -4.85 kJ mol(-1) and DeltaH(298) (double dagger)(I --> II(double dagger)) = +0.10 kJ mol(-1), which indicates that the potential energy surface is broad and flat near the transition state. The calculated imaginary vibrational frequency of the transition state, 62i cm(-1), is also consistent with an addition-elimination mechanism. These calculations are consistent with experimental observations of the OH(*) + CH(3)SH reaction that favored an addition-elimination mechanism rather than direct hydrogen atom abstraction. An alternative reaction, CH(3)SH + OH(*) --> CH(3)SOH + H(*), with DeltaH(r,298) ( degrees ) = +56.94 kJ mol(-1) was also studied, leading to a determination of DeltaH(f,298) ( degrees )(CH(3)SOH) = -149.8 kJ mol(-1).