Fragmentation of tryptophan by low-energy electrons

Beekeeping breakthrough: unveiling hive health with a portable membrane inlet mass spectrometry detection method

Supporting bee populations is essential considering threats posed by human activities like pesticide usage and habitat destruction. However, the current methods for monitoring and analyzing beehives and their surrounding environments are invasive, complex, and time-consuming. These methods often rely heavily on laboratory analyses, making them difficult to implement independently in the field. This study explores the application of portable membrane inlet mass spectrometer (MIMS) for noninvasive hive analysis, demonstrating its ability to detect various compounds indicative of hive conditions and environmental stressors. In addition to the expected compounds found in beehives, such as α-bergamotene, hexadecanoic acid, heptadecane, hexadecanamide, α-bisabolol-, 9-octadecenamide, (Z) - , and benzaldehyde, unexpected compounds, pollutants, like indane (polycyclic aromatic hydrocarbon) and carbofuran (pesticide), were also detected. The MIMS detection method provides rapid, accurate, and real-time results, making it suitable for preventive measures against bee diseases and integral to environmental biomonitoring. This integration of technology represents a significant advancement in bee conservation efforts, offering hope for the future of both bees and ecosystems.

Numerical Studies of the Impact of Electromagnetic Field of Radiation on Valine

We present the results of numerical calculations of the effect of an electromagnetic field of radiation on valine, and compare them to experimental results available in the literature. We specifically focus on the effects of a magnetic field of radiation, by introducing modified basis sets, which incorporate correction coefficients to the s-, p- or only the p-orbitals, following the method of anisotropic Gaussian-type orbitals. By comparing the bond length, angle, dihedral angles, and condense-to-atom-all electrons, obtained without and with the inclusion of dipole electric and magnetic fields, we concluded that, while the charge redistribution occurs due to the electric field influence, the changes in the dipole momentum projection onto the y- and z- axes are caused by the magnetic field. At the same time, the values of the dihedral angles could vary by up to 4 degrees, due to the magnetic field effects. We further show that taking into account the magnetic field in the fragmentation processes provides better fitting of the experimentally obtained spectra: thus, numerical calculations which include magnetic field effects can serve as a tool for better predictions, as well as for analysis of the experimental outcomes.

Excitation of L-valine molecules by electrons and photons

Excitation of L-valine molecules was studied by optical spectroscopy. Optical emission spectra of the L-valine molecule and optical excitation functions of molecular bands and the Hβ spectral line were measured in the gas phase using electron impact. In the spectra of optical emission in the wavelength range of 250-500 nm, intense emission bands were found at energies of incident electrons of 30, 50 and 70 eV. Analysis of structural features of the valine molecule suggested a fragmentation scheme with the formation of excited particles in collisions with electrons. A notable feature of the presented optical excitation functions is a different growth dynamics with an increase in the energy of exciting electrons and the presence of a number of features and kinks, which are especially pronounced for λ = 305 nm and λ = 311 nm. The excitation thresholds were determined from the initial sections of the excitation functions of the most intense spectral lines by the least-squares method. The photoluminescence spectra of L-valine were measured for the first time on a Shimadzu RF-6000 spectrofluorophotometer in the spectral range of 400-800 nm for excitation wavelengths of 250, 275, 333, 351, and 380 nm.

Surface Enhanced Raman Scattering Selectivity in Proteins Arises from Electron Capture and Resonant Enhancement of Radical Species

Plasmon-enhanced Raman scattering is a powerful approach to detecting and characterizing proteins in live and dynamic biological systems. However, the selective detection/enhancement of specific residues as well as spectral diffusion and fluctuations have complicated the interpretation of enhanced Raman spectra and images of biological matter. In this work, we demonstrate that the amino acid tryptophan (Trp) can capture an electron from an excited plasmon, which generates a radical anion that is resonantly enhanced: a visible excited electronic state slides into resonance upon charging. This surface enhanced resonance Raman scattering (SERRS) mechanism explains the persistence of Trp signatures in the SERS and TERS spectra of proteins. Evidence for this picture includes the observation of visible resonances in the UV-Vis extinction spectrum, changes in the ground state vibrational spectrum, and plasmon-resonance dependent behavior. DFT calculations support the experimental observations. The behavior observed from the free Trp molecule is shown to explain the SERS spectrum of the Trp-cage protein. In effect, resonant Raman scattering from radicals formed through plasmonic excitation represents an under-investigated mechanism that may be exploited for chemical sensing applications.

Positive and negative ions of the amino acid histidine formed in low-energy electron collisions

Histidine is an aromatic amino acid crucial for the biological functioning of proteins and enzymes. When biological matter is exposed to ionising radiation, highly energetic particles interact with the surrounding tissue which leads to efficient formation of low-energy electrons. In the present study, the interaction of low-energy electrons with gas-phase histidine is studied at a molecular level in order to extend the knowledge of electron-induced reactions with amino acids. We report both on the formation of positive ions formed by electron ionisation and negative ions induced by electron attachment. The experimental data were complemented by quantum chemical calculations. Specifically, the free energies for possible fragmentation reactions were derived for the τ and the π tautomer of histidine to get insight into the structures of the formed ions and the corresponding neutrals. We report the experimental ionisation energy of (8.48 ± 0.03) eV for histidine which is in good agreement with the calculated vertical ionisation energy. In the case of negative ions, the dehydrogenated parent anion is the anion with the highest mass observed upon dissociative electron attachment. The comparison of experimental and computational results was also performed in view of a possible thermal decomposition of histidine during the experiments, since the sample was sublimated in the experiment by resistive heating of an oven. Overall, the present study demonstrates the effects of electrons as secondary particles in the chemical degradation of histidine. The reactions induced by those electrons differ when comparing positive and negative ion formation. While for negative ions, simple bond cleav ages prevail, the observed fragment cations exhibit partly restructuring of the molecule during the dissociation process.

Low-Energy Electron Interaction with Melatonin and Related Compounds

The electron attaching properties and fragmentation of temporary negative ions of melatonin and its biosynthetic precursor tryptophan are studied in vacuo using dissociative electron attachment (DEA) spectroscopy. The experimental findings are interpreted in silico with the support of Hartree-Fock and density functional theory calculations of empty orbital energies and symmetries, and evaluation of the electron affinities of the indolic molecules under investigation. The only fragment anions formed by DEA to melatonin at incident electron energies below 2 eV are associated with the elimination of a hydrogen atom (energetically favored from the NH site of the pyrrole ring, leaving the ring intact) or a CH₃^· radical from the temporary molecular negative ion. Opening of the pyrrole ring of melatonin is not detected over the whole electron energy range of 0-14 eV. The DEA spectra of l- and d-tryptophan are almost identical under the present experimental conditions. The adiabatic electron affinity of melatonin is predicted to be -0.49 eV at the B3LYP/6-31+G(d) level, indicating that the DEA mechanism in melatonin is likely to be present in most life forms given the availability of low energy electrons in living systems in both plant and animal kingdoms. In particular, H atom donation usually associated with free-radical scavenging activity can be stimulated by electron attachment and N-H bond cleavage at electron energies around 1 eV.

Resonant electron capture by aspartame and aspartic acid molecules

RATIONALE

The processes for dissociative electron capture are the key mechanisms for decomposition of biomolecules, proteins in particular, under interaction with low-energy electrons. Molecules of aspartic acid and aspartame, i.e. modified dipeptides, were studied herein to define the impact of the side functional groups on peptide chain decomposition in resonant electron-molecular reactions.

METHODS

The processes of formation and decomposition of negative ions of both aspartame and aspartic acid were studied by mass spectrometry of negative ions under resonant electron capture. The obtained mass spectra were interpreted under thermochemical analysis by quantum chemical calculations.

RESULTS

Main channels of negative molecular ions fragmentation were found and characteristic fragment ions were identified.

CONCLUSIONS

The СООН fragment of the side chain in aspartic acid is shown to play a key role like the carboxyl group in amino acids and aliphatic oligopeptides. Copyright © 2016 John Wiley & Sons, Ltd.

Gas-phase fragmentation of deprotonated tryptophan and its clusters [Trpn -H]- induced by different activation methods

RATIONALE

Non-covalent amino acid clusters are the subject of intense research in diverse areas including peptide bond formation studies or the determination of proton affinities or methylating abilities of amino acids. However, most of the research has focused on positive ions and little is known about anionic clusters.

METHODS

Fragmentation reactions of deprotonated tryptophan (Trp), [Trp-H](-) and Trp singly deprotonated non-covalently bound clusters [Trp(n) -H](-), n = 2, 3, 4, were investigated using low-energy collision-induced dissociation (CID) with He atoms, high-energy CID with Na atoms, and electron-induced dissociation (EID) with 20-35 eV electrons. Fragmentation of the monomeric Trp anion, where all labile hydrogens were exchanged for deuterium [d(4) -Trp-D](-), was investigated using low-energy CID and EID, in order to shed light on the dissociation mechanisms.

RESULTS

The main fragmentation channel for Trp cluster anions, [Trp(n) -H](-), n >1, is the loss of the neutral monomer. The fragmentation of the deprotonated Trp monomer induced by electrons resembles the fragmentation induced by high-energy collisions through electronic excitation of the parent. However, the excitation must precede in a different way, shown through only monomer loss from larger clusters, n >1, in case of EID, but intracluster chemistry in the case of high-energy CID.

CONCLUSIONS

The anion of the indole ring C(8)H(6) N(-) has been identified in the product ion spectra of [Trp(n) -H](-) using all activation methods, thus providing a diagnostic marker ion. No evidence was found for formation of peptide bonds as a route to prebiotic peptides in the fragmentation reactions of these singly deprotonated Trp cluster ions.

Damage to amino acid-nucleotide pairs induced by 1 eV electrons

We have investigated the role of two selected amino acids, glycine and arginine, on damage induced to a short chain of single stranded DNA, the tetramer GCAT, during 1 eV electron exposure. At this energy, DNA has a high cross section for DNA damage via exclusively dissociative electron attachment. Surprisingly, at low ratios of glycine:GCAT, an increase in the total fragmentation yield is observed, whilst at higher ratios, glycine and arginine appear to protect DNA from the direct action of electrons. In addition, binding energies were calculated by molecular modelling of the interactions between these amino acids and either nucleobases or nucleotides. These binding energies appear to be related to the ability of amino acids to protect DNA against low energy electron damage.

Reactions in Fluorinated Acetic Acid Esters Triggered by Slow Electrons: Bond Cleavages, Hydrogen Transfer Reactions and Loss of Halocarbons

Low energy electron induced reactions in the four fluorinated acetic acid esters CF3COOCH3, CF3COOC2H5, CF3COOCH2CF3 and CH3COOCH2CF3 are studied by means of a crossed electron-molecular beam experiment and mass spectrometric detection of the anions. All target molecules exhibit a prominent resonance located near 1 eV which is subjected to a variety of unimolecular reactions. The observation of the carboxylate anion CF3COO–/CH3COO– indicates rupture of the O−R ester bond, which in turn demonstrates that the prominent cleavage of the O−H bond recently observed in trifluoroacetic acid and acetic acid is not blocked when O−H is replaced by O−R (R=−CH3, −C2H5, −CH2CF3). In CF3COOCH3 and CF3COOC2H5 an ion of the form CF2COO– is generated which is identified to arise from a complex reaction involving multiple bond cleavages and substantial rearrangement in the transitory negative ion ultimately generating CH3F and C2H5F, respectively, as neutral counterpart. A fragment ion of the type (M-H)– (M: target molecule), i.e. loss of a neutral hydrogen atom, is only observed in CH3COOCH2CF3 which directly demonstrates that dehydrogenation selectively occurs at the CH3 site.

Resonant electron capture by some amino acids esters

Resonant electron capture by Gly, Ala and Phe esters have shown that the most efficient negative ion (NI) fragmentations are associated with the C-termini. A new mechanism for the negative ion-forming processes at energies lower than those associated with the pi*(OO) shape resonance involves coupling between dipole-bound and valence negative ion states of the same symmetry for amino acid conformers with high permanent dipoles. The interaction avoids crossing of the NI states and instead leads to formation of two adiabatic potential energy surfaces. Underivatized amino acids most effectively fragment from the bottom adiabatic surface via generation of [M-H](-) carboxylate anions by hydrogen-atom tunneling through the barrier; fragmentation of the their esters with formation of analogues [M-X](-) NIs occurs through the upper adiabatic state without penetration of the barrier in which the energy of the valence sigma*OX resonance exceeds the bond dissociation energy of the neutral molecule. Low and high temperature resonant electron capture experiments point to the importance of conformational preferences of the amino acids for optimum dissociation of the parent NIs in the gas phase.

Total dissociative electron attachment cross sections of selected amino acids

Total dissociative electron attachment cross sections are presented for the amino acids, glycine, alanine, proline, phenylalanine, and tryptophan, at energies below the first ionization energy. Cross section magnitudes were determined by observation of positive ion production and normalization to ionization cross sections calculated using the binary-encounter-Bethe method. The prominent 1.2 eV feature in the cross sections of the amino acids and the closely related HCOOH molecule is widely attributed to the attachment into the -COOH pi* orbital. The authors discuss evidence that direct attachment to the lowest sigma* orbital may instead be responsible. A close correlation between the energies of the core-excited anion states of glycine, alanine, and proline and the ionization energies of the neutral molecules is found. A prominent feature in the total dissociative electron attachment cross section of these compounds is absent in previous studies using mass analysis, suggesting that the missing fragment is energetic H-.