Free radical-induced site-specific peptide cleavage in the gas phase: Low-energy collision-induced dissociation in ESI- and MALDI mass spectrometry

Protein identification is routinely accomplished by peptide sequencing using mass spectrometry (MS) after enzymatic digestion. Site-specific chemical modification may improve peptide ionization efficiency or sequence coverage in mass spectrometry. We report herein that amino group of lysine residue in peptides can be selectively modified by reaction with a peroxycarbonate and the resulting lysine peroxycarbamates undergo homolytic fragmentation under conditions of low-energy collision-induced dissociation (CID) in electrospray ionization (ESI) and matrix-assisted laser desorption and ionization (MALDI) MS. Selective modification of lysine residue in peptides by our strategy can induce specific peptide cleavage at or near the lysine site. Studies using deuterated analogues of modified lysine indicate that fragmentation of the modified peptides involves apparent free-radical processes that lead to peptide chain fragmentation and side-chain loss. The formation of a-, c-, or z-types of ions in MS is reminiscent of the proposed free-radical mechanisms in low-energy electron capture dissociation (ECD) processes that may have better sequence coverage than that of the conventional CID method. This site-specific cleavage of peptides by free radical- promoted processes is feasible and such strategies may aid the protein sequencing analysis and have potential applications in top-down proteomics.     

Regio‐ and Enantio‐selective Chemo‐enzymatic C−H‐Lactonization of Decanoic Acid to (S)‐δ‐Decalactone

The conversion of saturated fatty acids to high value chiral hydroxy‐acids and lactones poses a number of synthetic challenges: the activation of unreactive C?H bonds and the need for regio‐ and stereoselectivity. Here the first example of a wild‐type cytochrome P450 monooxygenase (CYP116B46 from Tepidiphilus thermophilus) capable of enantio‐ and regioselective C5 hydroxylation of decanoic acid 1 to (S)‐5‐hydroxydecanoic acid 2 is reported. Subsequent lactonization yields (S)‐δ‐decalactone 3 , a high value fragrance compound, with greater than 90 % ee. Docking studies provide a rationale for the high regio‐ and enantioselectivity of the reaction.     

Phosphine-stabilized arsenium salts: water-stable,labile, coordination complexes

A series of air- and water-stable tertiary phosphine-stabilized arsenium salts of the type R(3)P-->AsR(2)(+)PF(6)(-) has been isolated. In the crystal structures of two chiral triarylphosphine complexes of prochiral methylphenylarsenium hexafluorophosphate, the stereochemistry around arsenic is trigonal pyramidal with the phosphorus atom occupying the apical position, the As-P bond being orthogonal to the plane of the trigonal (lone-pair included) arsenium ion: Ph(3)P-->AsMePh(+) PF(6)(-), P2(1)/c, a = 10.7775(2) A, b = 17.7987(3) A, c = 13.3797(2) A, beta = 109.066(1) degrees, V = 2425.78(7) A(3), T = 200 K, Z = 4; Ph(2)(2-MeOC(6)H(4))P-->AsMePh(+) PF(6)(-), P1, a = 10.8077(2) A, b = 10.9741(2) A, c = 13.5648(2) A, alpha = 99.0162(9) degrees, beta = 105.2121(9) degrees, gamma = 116.4717(9) degrees, V = 1318.11(5) A(3), T = 200 K, Z = 2. The arsenium ion in each case appears to be further stabilized by conjugation of the lone pair with the phenyl group, with which the arsenic and methyl-carbon atoms are almost coplanar. In the crystal structure of the 2-(methoxymethylphenyl)diphenylphosphine adduct of methylphenylarsenium hexafluorophosphate, there operates a counteractive chelate effect in which anchimeric oxygen coordination to arsenic destabilizes the arsenic-phosphorus bond in the six-membered chelate ring. Although they are stable, phosphine-stabilized arsenium salts undergo rapid phosphine exchange and attack at arsenic by anionic carbon and oxygen nucleophiles to give tertiary arsines and arsinous acid esters, respectively, with liberation of the phosphine.     

A Branched Pore Model Analysis for the Adsorption of Acid Dyes on Activated Carbon

A new branched-pore adsorption model has been developed using an external mass transfer coefficient, K _f, an effective diffusivity, D _eff, a lumped micropore diffusion rate parameter, K _b, and the fraction of macropores, f, to describe sorption kinetic data from initial adsorbent-adsorbate contact to the long-term adsorption phase. This model has been applied to an environmental pollution problem—the removal of two dyes, Acid Blue 80 (AB80) and Acid Red 114 (AR114), by sorption on activated carbon. A computer program has been used to generate theoretical concentration-time curves and the four mass transfer kinetic parameters adjusted so that the model achieves a close fit to the experimental data. The best fit values of the parameters have been determined for different initial dye concentrations and carbon masses. Since the model is specifically applicable to fixed constant values of these four parameters, a further and key application of this project is to see if single constant values of these parameters can be used to describe all the experimental concentration-time decay curves for one dye-carbon system.The error analysis and best fit approach to modeling the decay curves for both dye systems show that the correlation between experimental and theoretical data is good for the fixed values of the four fitted parameters. A significantly better fit of the model predictions is obtained when K _f, K _b and f are maintained constant but D _eff is varied. This indicates that the surface diffusivity may vary as a function of surface coverage.     

Dicholorbenzyl alkyl ether homologs as retention index markers and internal standards for the analysis of environmental samples using capillary gas chromatography

A homologous series of 2,4-dichlorobenzyl alkyl ethers (DCBEs) have been synthesized and purified for use as retention index calibrants and internal standards. They are stable, sensitive to ECD and FID and ideal for GC-MS, with base peaks at m/z 159/161. The retention index calibration against the n-alkanes for a linear temperature program (LTP) series is given and recommendations made for the most suitable members of the DCBE series for use as internal standards in organochlorine (OC) residue analysis.     

Two new marine sediment standard reference materials (SRMs) for the determination of organic contaminants

Two new marine sediment standard reference materials (SRMs), SRM 1941b Organics in Marine Sediment and SRM 1944 New York/New Jersey Waterway Sediment, have been recently issued by the National Institute of Standards and Technology (NIST) for the determination of organic contaminants including polycyclic aromatic hydrocarbons (PAHs), polychlorinated biphenyl (PCB) congeners, and chlorinated pesticides. Both sediment SRMs were analyzed using multiple analytical methods including gas chromatography/mass spectrometry (GC/MS) on columns with different selectivity, reversed-phase liquid chromatography with fluorescence detection (for PAHs only), and GC with electron capture detection (for PCBs and pesticides only). SRM 1941b has certified concentrations for 24 PAHs, 29 PCB congeners, and 7 pesticides, and SRM 1944 has certified concentrations for 24 PAHs, 29 PCB congeners, and 4 pesticides. Reference concentrations are also provided for an additional 58 (SRM 1941b) and 39 (SRM 1944) PAHs, PCB congeners, and pesticides. SRM 1944, which was collected from multiple sites within New York/New Jersey coastal waterways, has contaminant concentrations that are generally a factor of 10–20 greater than SRM 1941b, which was collected in the Baltimore (Maryland) harbor. These two SRMs represent the most extensively characterized marine sediment certified reference materials available for the determination of organic contaminants.Electronic Supplementary Material Supplementary material is available in the online version of this article at . A link in the frame on the left on that page takes you directly to the supplementary material.     

The elimination of carbon monoxide from molecular ions of phenol and other [C6H6O]+˙ isomers

Phenol and five acyclic isomeric compounds have been investigated using electron impact and field ionization techniques, mass analysed ion kinetic energy spectrometry and collision induced dissociation mass analysed ion kinetic energy spectrometry. The kinetic energy release data corresponding to the elimination of carbon monoxide from the molecular ions show that at least two structures of the reactant ion are involved. The electron impact and field ionization collision induced dissociation mass analysed ion kinetic energy spectra indicate that under electron impact conditions, the phenol ion partially isomerizes to another ion structure. An isomerization of about 40% to the structure of cis-2-hexen-4-yn-1-al is in good accordance with the spectral data.