Gas-phase proton-transport self-catalysed isomerisation of glutamine radical cation: The important role of the side-chain

Intermolecular hydrogen bonding behavior of amino acid radical cations

Amino acid and peptide radicals are of broad interest due to their roles in biochemical oxidative damage, pathogenesis and protein radical catalysis, among others. Using density functional theory (DFT) calculations at the ωB97X-D/def2-QZVPPD//ωB97X-D/def2-TZVPP level of theory, we systematically investigated the hydrogen bonding between water and fourteen α-amino acids (Ala, Asn, Cys, Gln, Gly, His, Met, Phe, Pro, Sel, Ser, Thr, Trp, and Tyr) in both neutral and radical cation forms. For all amino acids surveyed, stronger hydrogen-bonding interactions with water were observed upon single-electron oxidation, with the greatest increases in hydrogen-bonding strength occurring in Gly, Ala and His. We demonstrate that the side chain has a significant impact on the most favorable hydrogen-bonding modes experienced by amino acid radical cations. Our computations also explored the fragmentation of amino acid radical cations through the loss of a COOH radical facilitated by hydrogen bonding. The most favorable pathways provided stabilization of the resulting cationic fragments through hydrogen bonding, resulting in more favorable thermodynamics for the fragmentation process. These results indicate that non-covalent interactions with the environment have a profound impact on the structure and chemical fate of oxidized amino acids.

Photocatalytic degradation of acetaminophen and caffeine using magnetite-hematite combined nanoparticles: kinetics and mechanisms

The increased use of pharmaceutical and personal care products (PPCPs) has contributed to the contamination of water systems and put pressure on the development of new techniques to deal with this problem. Acetaminophen (paracetamol), a common analgesic and antipyretic drug, and caffeine, a known central nervous system stimulant, are being used frequently by many people and found in large amounts in wastewater systems. In this work, their removal, by photocatalytic degradation, was promoted using magnetic nanoparticles (NPs) based on iron oxides. Besides being obtained from cheap and plentiful source, the magnetic properties of these NPs provide an easy way to separate them from the solution when the reaction is complete. Three types of hematite-based NPs, one pure (1) and two of them composed by a magnetite core partially (2) or completely (3) covered by a hematite shell, were synthesized and characterized. Sample 2 was the best photocatalyst for both pollutants' photo-assisted degradation. Under UV-vis irradiation and using a 0.13 g catalyst/L solution, the total acetaminophen and caffeine degradation (20 ppm/150 mL) was achieved in 45 min and 60 min, respectively. The identification of some of the intermediate products was carried out by liquid chromatography in combination with electrospray ionization mass spectrometry. A complementary Density Functional Theory (DFT) study revealed the relative stability of several species formed during the acetaminophen and caffeine degradation processes and gave some insight about the most favorable degradation pathways.

Unravelling the dissociation pathways of acetic acid upon electron transfer in potassium collisions: experimental and theoretical studies

Electron transfer in alkali-molecule collisions with gas phase acetic acid and its deuterated analogues resulting in OH^- formation requires considerable internal rearrangement in the temporary negative ion. At a collision energy well above the threshold of negative ion formation, electron transfer from potassium to CH₃COOH/CH₃COOD and CD₃COOH results not only in H transfer from CH₃ to COOH/COOD, but also in H release from COOH and subsequent rearrangement to eliminate OH^-. These processes are also investigated by theoretical post-Hartree-Fock and DFT calculations. The combination of both studies reveals that the most favourable intermediate mechanism occurs via diol formation. Such intramolecular H transfer is reported here for the first time in the context of electron transfer induced dissociation experiments in alkali-molecule collisions. A comprehensive fragmentation study is presented and dissociation mechanisms are suggested.

Influence of the Side Chain in the Structure and Fragmentation of Amino Acids Radical Cations

The conformational properties of ionized amino acids (Gly, Ala, Ser, Cys, Asp, Gln, Phe, Tyr, and His) have been theoretically analyzed using the hybrid B3LYP and the hybrid-meta MPWB1K functionals as well as with the post-Hartree Fock CCSD(T) level of theory. As a general trend, ionization is mainly localized at the -NH2 group, which becomes more planar and acidic, the intramolecular hydrogen bond in which -NH2 acts as proton donor being strengthened upon ionization. For this reason, the so-called conformer IV(+) becomes the most stable for nonaromatic amino acid radical cations. Aromatic amino acids do not follow this trend because ionization takes place mainly at the side chain. For these amino acids for which ionization of the side chain prevails over the -NH2 group, structures III(+) and II(+) become competitive. The Cα-X fragmentations of the ionized systems have also been studied. Among the different decompositions considered, the one that leads to the loss of COOH(•) is the most favorable one. Nevertheless, for aromatic amino acids fragmentations leading to R(•) or R(+) start being competitive. In fact, for His and Tyr, results indicate that the fragmentation leading to R(+) is the most favorable process.

Influence of ionization on the conformational preferences of peptide models. Ramachandran surfaces of N-formyl-glycine amide and N-formyl-alanine amide radical cations

Ramachandran maps of neutral and ionized HCO-Gly-NH2 and HCO-Ala-NH2 peptide models have been built at the B3LYP/6-31++G(d,p) level of calculation. Direct optimizations using B3LYP and the recently developed MPWB1K functional have also been carried out, as well as single-point calculations at the CCSD(T) level of theory with the 6-311++G(2df,2p) basis set. Results indicate that for both peptide models ionization can cause drastic changes in the shape of the PES in such a way that highly disallowed regions in neutral PES become low-energy regions in the radical cation surface. The structures localized in such regions, epsilonL+* and epsilonD+* are highly stabilized due to the formation of 2-centre-3-electron interactions between the two carbonyl oxygens. Inclusion of solvent effects by the conductor-like polarizable continuum model (CPCM) shows that the solute-solvent interaction energy plays an important role in determining the stability order.