A novel salt bridge mechanism highlights the need for nonmobile proton conditions to promote disulfide bond cleavage in protonated peptides under low-energy collisional activation

The gas-phase fragmentation mechanisms of small models for peptides containing intermolecular disulfide links have been studied using a combination of tandem mass spectrometry experiments, isotopic labeling, structural labeling, accurate mass measurements of product ions, and theoretical calculations (at the MP2/6-311 + G(2d,p)//B3LYP/3-21G(d) level of theory). Cystine and its C-terminal derivatives were observed to fragment via a range of pathways, including loss of neutral molecules, amide bond cleavage, and S-S and C-S bond cleavages. Various mechanisms were considered to rationalize S-S and C-S bond cleavage processes, including charge directed neighboring group processes and nonmobile proton salt bridge mechanism. Three low-energy fragmentation pathways were identified from theoretical calculations on cystine N-methyl amide: (1) S-S bond cleavage dominated by a neighboring group process involving the C-terminal amide N to form either a protonated cysteine derivative or protonated sulfenyl amide product ion (44.3 kcal mol(-1)); (2) C-S bond cleavage via a salt bridge mechanism, involving abstraction of the alpha-hydrogen by the N-terminal amino group to form a protonated thiocysteine derivative (35.0 kcal mol(-1)); and (3) C-S bond cleavage via a Grob-like fragmentation process in which the nucleophilic N-terminal amino group forms a protonated dithiazolidine (57.9 kcal mol(-1)). Interestingly, C-S bond cleavage by neighboring group processes have high activation barriers (63.1 kcal mol(-1)) and are thus not expected to be accessible during low-energy CID experiments. In comparison to the energetics of simple amide bond cleavage, these S-S and C-S bond cleavage reactions are higher in energy, which helps rationalize why bond cleavage processes involving the disulfide bond are rarely observed for low-energy CID of peptides with mobile proton(s) containing intermolecular disulfide bonds. On the other hand, the absence of a mobile proton appears to "switch on" disulfide bond cleavage reactions, which can be rationalized by the salt bridge mechanism. This potentially has important ramifications in explaining the prevalence of disulfide bond cleavage in singly protonated peptides under MALDI conditions.     

Factors controlling photochemical cleavage of the energetically unfavorable Ph-Se bond of alkyl phenyl selenides

Primary photochemical paths of alkyl phenyl selenides (1) were investigated, and an origin of large deviations in the chemical yields of products obtained by carbon radical reactions induced by photolysis of phenyl selenides was clarified. KrF excimer laser photolyses of n-pentyl phenyl selenide (1a) yielded 1-pentene (2a), n-pentane (3a), n-decane (4a), dipentyl selenide (5a), benzene (6), dipentyl diselenide (7a), and diphenyl diselenide (7) as major photoproducts, with compounds 2a, 3a, 4a, 5a, and 7 formed by pentyl-Se bond cleavage, and 5a, 6, and 7a by Ph-Se bond cleavage. The selectivity of the photoproducts revealed the occurrence of an unexpected amount of Ph-Se bond cleavage (35% in n-hexane at 248 nm) during photolysis. Solvent viscosity, wavelength of light, and the structure of alkyl substituents were the major factors that controlled Ph-Se bond cleavage. The ratio of Ph-Se bond cleavage decreased with increasing solvent viscosity and laser wavelength. The effect of alkyl substituents on the ratio of bond cleavages, Ph-Se/total C-Se, was investigated for five alkyl phenyl selenides; the ratio decreased in the order pentyl > 2-methylallyl > allyl > 1-ethylpropyl > tert-butyl groups. The contribution of Ph-Se bond cleavage is most probably the origin of the large deviations in the yields of radical reactions induced by photolyses of 1, which can be minimized by selecting appropriate solvents and wavelength of light.     

Oxidative Bond Cleavage of the Silicon–Silicon Bond of a Pentacoordinated Disilicate

The Si Si bond of a pentacoordinated disilicate was readily cleaved by treatment with 2,3‐dichloro‐5,6‐dicyano‐p‐benzoquinone in the presence of sodium carbonate under mild conditions. The bond cleavage did not proceed under the same conditions after conversion of the disilicate into the corresponding monoanionic silylsilicate and neutral disilane by protonation. The difference in the charges of the Si Si bond compounds affects the reactivity toward an oxidant, resulting in the Si Si bond cleavage, considering that all of these compounds have a bond between pentacoordinated silicon atoms.     

Energetics and dynamics of the fragmentation reactions of protonated peptides containing methionine sulfoxide or aspartic acid via energy- and time-resolved surface induced dissociation

The surface-induced dissociation (SID) of six model peptides containing either methionine sulfoxide or aspartic acid (GAILM(O)GAILR, GAILM(O)GAILK, GAILM(O)GAILA, GAILDGAILR, GAILDGAILK, and GAILDGAILA) have been studied using a specially configured Fourier transform ion-cyclotron resonance mass spectrometer (FT-ICR MS). In particular, we have investigated the energetics and dynamics associated with (i) preferential cleavage of the methionine sulfoxide side chain via the loss of CH3SOH (64 Da), and (ii) preferential cleavage of the amide bond C-terminal to aspartic acid. The role of proton mobility in these selective bond cleavage reactions was examined by changing the C-terminal residue of the peptide from arginine (nonmobile proton conditions) to lysine (partially mobile proton conditions) to alanine (mobile proton conditions). Time- and energy-resolved fragmentation efficiency curves (TFECs) reveal that selective cleavages due to the methionine sulfoxide and aspartic acid residues are characterized by slow fragmentation kinetics. RRKM modeling of the experimental data suggests that the slow kinetics is associated with large negative entropy effects and these may be due to the presence of rearrangements prior to fragmentation. It was found that the Arrhenius pre-exponential factor (A) for peptide fragmentations occurring via selective bond cleavages are 1-2 orders of magnitude lower than nonselective peptide fragmentation reactions, while the dissociation threshold (E0) is relatively invariant. This means that selective bond cleavage is kinetically disfavored compared to nonselective amide bond cleavage. It was also found that the energetics and dynamics for the preferential loss of CH3SOH from peptide ions containing methionine sulfoxide are very similar to selective C-terminal amide bond cleavage at the aspartic acid residue. These results suggest that while preferential cleavage can compete with amide bond cleavage energetically, dynamically, these processes are much slower compared to amide bond cleavage, explaining why these selective bond cleavages are not observed if fragmentation is performed under mobile proton conditions. This study further affirms that fragmentation of peptide ions in the gas phase are predominantly governed by entropic effects.     

硫醚中碳硫键室温选择性断裂反应的研究

本文研究了在四氟硼酸银存在下, 硫醚与碘甲烷室温下发生碳硫键选择性断裂反应。研究结果表明: 只有当二苄基硫醚的苯环对位连有强的供电子基团甲氧基时, 方可发生碳硫键的断裂。提出了一个离子型反应机理且碳硫键的断裂分三步完成。首先, 硫醚与甲基化试剂反应生成甲基锍盐; 继而, 此锍离子离解成由苄基碳正离子和硫醚组成的离子-偶极集合物; 最后, 甲基化试剂再进攻集合物中的硫醚, 从而导致碳硫键的断裂。     

过渡金属配合物催化乙腈碳碳单键断裂的研究进展

有机化合物中的碳碳单键断裂反应是一类非常重要而且具有挑战性的反应,过去的几十年中,关于有机腈类化合物中碳碳单键的催化断裂反应研究受到了很多的关注。而乙腈作为常用的有机溶剂之一,其分子是有机腈类中的最小分子。本文结合最近几年国内外及本课题组关于乙腈分子的碳碳单键活化断裂的研究,综述了各类过渡金属配合物催化乙腈分子碳碳单键断裂的研究进展,分析了当前存在的问题,提出了对今后研究的展望。     

Trapping-mediated dissociative chemisorption of cycloalkanes on Ru(001) and Ir(111): influence of ring strain and molecular geometry on the activation of C-C and C-H bonds.

We have measured the initial probabilities of dissociative chemisorption of perhydrido and perdeutero cycloalkane isotopomers on the hexagonally close-packed Ru(001) and Ir(111) single-crystalline surfaces for surface temperatures between 250 and 1100 K. Kinetic parameters (activation barrier and preexponential factor) describing the initial, rate-limiting C-H or C-C bond cleavage reactions were quantified for each cycloalkane isotopomer on each surface. Determination of the dominant initial reaction mechanism as either initial C-C or C-H bond cleavage was judged by the presence or absence of a kinetic isotope effect between the activation barriers for each cycloalkane isotopomer pair, and also by comparison with other relevant alkane activation barriers. On the Ir(111) surface, the dissociative chemisorption of cyclobutane, cyclopentane, and cyclohexane occurs via two different reaction pathways: initial C-C bond cleavage dominates on Ir(111) at high temperature (T > approximately 600 K), while at low temperature (T < approximately 400 K), initial C-H bond cleavage dominates. On the Ru(001) surface, dissociative chemisorption of cyclopentane occurs via initial C-C bond cleavage over the entire temperature range studied, whereas dissociative chemisorption of both cyclohexane and cyclooctane occurs via initial C-H bond cleavage. Comparison of the cycloalkane C-C bond activation barriers measured here with those reported previously in the literature qualitatively suggests that the difference in ring-strain energies between the initial state and the transition state for ring-opening C-C bond cleavage effectively lowers or raises the activation barrier for dissociative chemisorption via C-C bond cleavage, depending on whether the transition state is less or more strained than the initial state. Moreover, steric arguments and metal-carbon bond strength arguments have been evoked to explain the observed trend of decreasing C-H bond activation barrier with decreasing cycloalkane ring size.     

O-酰基-α-酮肟光分解机理的研究

本文用红外光谱法对O-酰基-α-酮肟R^2C(O)ON=C(R^1)C(O)R^1的光分解机理进行了研究, 并通过对反应物消失和分解产物生成的动力学方程的拟合, 求得了表观动力学速率常数。结果表明, N-O键断裂和Norrish反应在光分解反应中同时存在, 不同的R^1、R^2取代基影响这两种断裂方式的比例。     

Rearrangement process occurring in the fragmentation of adefovir derivatives

The fragmentation of the antiviral drug adefovir dipivoxil and its two active metabolites, adefovir and monopivoxil adefovir, was investigated using both ion trap and triple-quadrupole mass spectrometers. Fragment ions due to loss of 30 Da were observed and attributed to an unanticipated rearrangement process by loss of formaldehyde. The proposed mechanism is supported with the aid of three newly synthesized adefovir derivatives and with accurate mass measurement. Other fragmentations by loss of a pivaloyl group, loss of water, C-P bond cleavage and C-O bond cleavage were also observed for adefovir derivatives. It was concluded that the compounds containing a >POO-CHR-OCO- group generally displayed a rearrangement reaction by loss of RCHO in collision-induced dissociation, and the process generally required an activation energy lower than for a direct bond cleavage.     

Factors influencing the C-O bond homolysis of alkoxyamines: effects of H-bonding and polar substituents

The synthesis of various new trialkylhydroxylamines is described. The rate constant of the C-O bond cleavage of these new alkoxyamines has been measured. For example, C-O bond homolysis rates in a series of para-substituted TEMPO-styryl compounds TEMPO-CH(CH3)C6H5X 1a (p-MeO), 1b (p-Me), 1d (p-H), 1e (p-Br), and 1f (p-MeO2C) are presented. Furthermore, rate constants for the C-O bond cleavage of alpha-heteroaryl-substituted secondary alkoxyamines are discussed. A correlation by which the rate constant for the C-O bond cleavage of TEMPO-derived alkoxyamines can be predicted from the C-H BDEs of the corresponding alkanes is presented. Solvent effects as well as the effect of camphorsulfonic acid on the rate of the C-O bond homolysis are discussed. Finally, EPR and kinetic evidence show that alkoxyamines derived from nitroxides which are capable of intramolecular H-bonding undergo C-O bond cleavage faster than the corresponding non-H-bond-forming analogues.     

Photochemistry of 2-(1-naphthyl)-2H-azirines in matrixes and in solutions: wavelength-dependent C-C and C-N bond cleavage of the azirine ring

The photochemistry of 3-methyl-2-(1-naphthyl)-2H-azirine (1a) was investigated by the direct observation of reactive intermediates in matrixes at 10 K and by the characterization of reaction products in solutions. As already reported, the photolysis of the azirine 1a with the short-wavelength light (>300 nm) caused the C-C bond cleavage of the 2H-azirine ring to produce the nitrile ylide 2. However, the products derived from the C-N bond cleavage were exclusively obtained in the irradiation of 1a with the long-wavelength light (366 nm) both in matrixes and in solutions. When 1a was irradiated in the presence of O(2) with the long-wavelength light, acetonitrile oxide (6) was produced through the capture of the biradical 4 generated by the C-N bond cleavage of 1a with O(2). An introduction of a nitro group into the naphthyl ring of 1a resulted in an acceleration of the decomposition in the long-wavelength irradiation and an extension of the wavelength region where the products derived from the C-N bond cleavage were selectively obtained. On the basis of molecular orbital calculations with the INDO/S method, the reason for the wavelength-dependent selective C-C and C-N bond cleavage of the azirine ring of 1a is discussed.     

Theoretical studies on the mechanism of C-P bond cleavage of a model alpha-aminophosphonate in acidic condition

Various reaction paths of the P-C bond cleavage of alpha-aminophosphonates in acidic media, resulting in the derivatives of phosphonic acid, has been investigated using density functional level of theories in the gas phase as well as in aqueous medium. Dimethyl (alpha-anilinobenzyl)phosphonate has been used as the model molecule and our investigation confirms a three steps process including protonation, P-C bond cleavage, and the transformation of the products from the final transition state (imine cation and H-phosphonate) through hydrolysis. The most favorable reaction path starts from the amino group protonation, followed by a proton transfer through N-H...O(P) hydrogen bond, and the P-C bond cleavage from the resulting protonated structure. Explicit inclusion of water molecules indicated that two waters are needed for the P-C bond cleavage, and the calculated mechanistic paths in this hydrated model are similar to those of the aqueous solvation model.     

过渡金属配合物催化乙腈碳碳单键断裂的研究进展

有机化合物中的碳碳单键断裂反应是一类非常重要而且具有挑战性的反应,过去的几十年中,关于有机腈类化合物中碳碳单键的催化断裂反应研究受到了很多的关注。而乙腈作为常用的有机溶剂之一,其分子是有机腈类中的最小分子。本文结合最近几年国内外及本课题组关于乙腈分子的碳碳单键活化断裂的研究,综述了各类过渡金属配合物催化乙腈分子碳碳单键断裂的研究进展,分析了当前存在的问题,提出了对今后研究的展望。     

Studies on the synthesis of heterocyclic compounds. XIV. Cleavage of 1,3-benzoxathioles by magnesium bromide-acetic anhydride

The cleavage reaction of some 1,3-benzoxathioles with magnesium bromide and acetic anhydride has been studied. In all the 1,3-benzoxathioles studied, the opening of the heterocyclic ring occurs first with cleavage of the C O bond and formation of bromides and their corresponding products of hydrolysis. Successively also the cleavage of the C S bond can occur. The competitive electrophilic substitution on the benzene ring becomes appreciable only in the 1,3-benzoxathioles-2,2-disubstituted with sterically demanding groups. The structure of newly prepared compounds has been determined by analytical and spectroscopic data and when possible by comparison with authentic samples.     

Understanding selectivity in the oxidative addition of the carbon-sulfur bonds of 2-cyanothiophene to Pt(0)

The reaction of 2-cyanothiophene with a zerovalent platinum bisalkylphosphine fragment yields two thiaplatinacycles derived from the cleavage of the substituted and unsubstituted C-S bonds. While cleavage away from the cyano group is preferred kinetically, cleavage adjacent to the cyano group is preferred thermodynamically. Density functional theory using B3LYP level of theory on a model of this system is consistent with experimental results in that the transition state energy leading to the formation of the kinetically favored C-S bond cleavage product is lower by 5.3 kcal mol(-1) than the barrier leading to the thermodynamically favored product. There is a 6.7 kcal mol(-1) difference between these two products. The cyano substituent at the 2- position of thiophene did not substantially change the mechanism involved in the C-S bond cleavage of thiophene previously reported.     

Bond-selective photodissociation of aliphatic disulfides

The photochemistry of aliphatic disulfides is presented. The photolysis products are photoionized with coherent vacuum ultraviolet radiation and analyzed by time-of-flight mass spectrometry. With 248-nm excitation, the predominant dissociation pathway is S—S bond cleavage. With 193-nm excitation, S—S bond cleavage, C—S bond cleavage, and molecular rearrangements are all observed as primary processes. The branching ratio for S—S bond cleavage relative to C—S bond cleavage is typically 1–2 orders of magnitude greater at 248 run than 193 run. This wavelength dependence cannot be explained readily by photodissociation from the ground electronic state. The ground state S—S bond energy, ～ 280 kJ/mol, is much larger than the C—S bond energy, ～ 235 kJ/mol. If dissociation occurred from the ground state, higher wavelength radiation would be expected to favor the lower energy process, but the opposite effect is observed. Thus, excited state photochemistry is indicated. These results are discussed with respect to the differences between low and high energy collision-induced dissociation of peptides that contain disulfide linkages and to the possibility of achieving bond-selective photodissociation of such ions.     

Questioning the paradigm of metal complex promoted phosphodiester hydrolysis: [Mo7O24](6-) polyoxometalate cluster as an unlikely catalyst for the hydrolysis of a DNA model substrate

The first example of a phosphodiester bond cleavage promoted by a highly negatively charged polyoxometalate cluster has been discovered: the hydrolysis of the phosphodiester bond in a DNA model substrate bis(p-nitrophenyl)phosphate (BNPP) is promoted by the heptamolybdate anion [Mo7O24](6-) with rates which represent an acceleration of nearly four orders of magnitude compared to the uncatalyzed cleavage.     

SN1-type mechanism for the carbon-carbon bond cleavage of tetrakis(4-methylphenyl)ethanone cation radical. A laser flash photolysis study

On the basis of measurements of rate constants for carbon-carbon bond cleavage of tetrakis(4-methylphenyl)ethanone cation radicals generated by pulsed laser excitation with sensitizers in solution, an S_N1-type mechanism for the bond cleavage is proposed.     

On the reduction of S-alkyl-thionocarbonates (xanthates) with phosphorus compounds

[reaction: see text] Reductive cleavage of the carbon-sulfur bond present in S-alkyl-thionocarbonates (xanthates) was achieved by high-yielding, tin-free radical reactions based on phosphorus reagents. The combination hypophosphorous acid/triethylamine/AIBN led to fast, efficient, and smooth formation of the alkane. Reduction with diethyl phosphite was sufficiently slow to permit sequential intermolecular addition of a 2-oxoalkyl xanthate onto an olefin followed by cleavage of the newly formed carbon-sulfur bond.     

Sequential N-O and N-N bond cleavage of N-heterocyclic carbene-activated nitrous oxide with a vanadium complex

Chemically induced bond cleavage of nitrous oxide typically proceeds by rupture of the N-O bond with concomitant O-atom transfer and liberation of dinitrogen. On a few occasions, N-N bond scission has been observed instead. We report a reaction sequence involving an N-heterocyclic carbene and a vanadium complex that results in cleavage of both the N-O bond and the N-N bond.