Effects of Charge Location on the Absorptions and Lifetimes of Protonated Tyrosine Peptides in Vacuo

Nearby charges affect the electronic energy levels of chromophores, with the extent of the effect being determined by the magnitude of the charge and degree of charge-chromophore separation. The molecular configuration dictates the charge chromophore distance. Hence, in this study, we aim to assess how the location of the charge influences the absorption of a set of model protonated and diprotonated peptide ions, and whether spectral differences are large enough to be identified. The studied ions were the dipeptide YK, the tripeptide KYK (Y = tyrosine; K = lysine) and their complexes with 18-crown-6-ether (CE). The CE targets the ammonium group by forming internal ionic hydrogen bonds and limits the folding of the peptide. In the tripeptide, the distance between the chromophore and the backbone ammonium is enlarged relative to that in the dipeptide. Experiments were performed in an electrostatic ion storage ring using a tunable laser system, and action spectra based on lifetime measurements were obtained in the range from 210 to 310 nm. The spectra are all quite similar though there seems to be some changes in the absorption band between 210 and 250 nm, while in the lower energy band all ions had a maximum absorption at similar to 275 nm. Lifetimes after photoexcitation were found to shorten upon protonation and lengthen upon CE complexation, in accordance with the increased number of degrees of freedom and an increase in activation energies for dissociation as the mobile proton model is no longer operative.

Enhancement of positron annihilation on molecules due to vibrational Feshbach resonances

The zero-range potential model is used to investigate positron collisions and annihilation with molecules. The Kr dimer is considered as an example. It is shown that (i) although positrons do not bind to individual Kr atoms, they do form bound states with Kr. (ii) A sequence of vibrationally excited states of the positron-molecule complex extends into the positron continuum, where it manifests as vibrational Feshbach resonances. (iii) These resonances give a very large contribution to the positron annihilation rate. Even after averaging over the thermal positron energy distribution, the contribution of the lowest Feshbach resonance exceeds that of the non-resonant background by an order of magnitude. © 2002 Elsevier Science B.V. All rights reserved.

Progress, challenges and perspectives in positron physics:Report on the XIIth international positron workshop

A report is presented of the XIIth International Workshop on Positron and Positronium Physics (Sandbjerg, Denmark, 19-21 July 2003). This workshop covered positron and positronium interactions with atoms, molecules and condensed matter systems. One key development reported was the first creation in the laboratory of low-energy antihydrogen atoms. Facets of positron-electron many-body systems were also considered, including the positronium molecule and BEC gases of positronium atoms. Aspects of the future of the field were discussed, including the development of new theoretical and experimental capabilities.

Effect of positron-atom interactions on the annihilation gamma spectra of molecules

Calculations of ?-spectra for positron annihilation on a selection of molecules, including methane and its fluoro-substitutes, ethane, propane, butane and benzene are presented. The annihilation ?-spectra characterise the momentum distribution of the electron-positron pair at the instant of annihilation. The contribution to the ?-spectra from individual molecular orbitals is obtained from electron momentum densities calculated using modern computational quantum chemistry density functional theory tools. The calculation, in its simplest form, effectively treats the low-energy (thermalised, room-temperature) positron as a plane wave and gives annihilation ?-spectra that are about 40% broader than experiment, although the main chemical trends are reproduced. We show that this effective 'narrowing' of the experimental spectra is due to the action of the molecular potential on the positron, chiefly, due to the positron repulsion from the nuclei. It leads to a suppression of the contribution of small positron-nuclear separations where the electron momentum is large. To investigate the effect of the nuclear repulsion, as well as that of short-range electron-positron and positron-molecule correlations, a linear combination of atomic orbital description of the molecular orbitals is employed. It facilitates the incorporation of correction factors which can be calculated from atomic many-body theory and account for the repulsion and correlations. Their inclusion in the calculation gives -spectrum linewidths that are in much better agreement with experiment. Furthermore, it is shown that the effective distortion of the electron momentum density, when it is observed through positron annihilation -spectra, can be approximated by a relatively simple scaling factor. © IOP Publishing Ltd and Deutsche Physikalische Gesellschaft.

Measuring positron-atom binding energies through laser-assisted photorecombination

Described here is a proposed experiment to use laser-assisted photorecombination of positrons from a trap-based beam and metal atoms in the gas phase to measure positron-atom binding energies. Signal rates are estimated, based in part upon experience studying resonant annihilation spectra using a trapbased positron beam. © IOP Publishing Ltd and Deutsche Physikalische Gesellschaft.

Chemical structural effects on γ-ray spectra of positron annihilation in fluorobenzenes

Spectra of ?-ray Doppler shifts for positron annihilation in benzene and its fluoro-derivatives are simulated using low energy plane wave positron (LEPWP) approximation. The results are compared with available measurements. It is found that the Doppler shifts in these larger aromatic compounds are dominated by the contributions of the valence electrons and that the LEPWP model overestimates the measurements by approximately 30%, in agreement with previous findings in noble gases and small molecules. It is further revealed that the halogen atoms not only switch the sign of the charges on carbon atoms that they bond to, but that they also polarize other C-H bonds in the molecule leading to a redistribution of the molecular electrostatic potentials. As a result, it is likely that the halogen atoms contribute more significantly to the annihilation process. The present study also suggests that, while the Doppler shifts are sensitive to the number of valence electrons in the molecules, they are less sensitive to the chemical structures of isomers that have the same numbers and type of atoms and, hence, the same numbers of electrons. Further investigation of this effect is warranted. © EDP Sciences, Società Italiana di Fisica, Springer-Verlag 2012.

Ubiquitous Nature of Multimode Vibrational Resonances in Positron-Molecule Annihilation

Positron annihilation on many molecules occurs via positron capture into vibrational Feshbach resonances, with annihilation rates often further enhanced by energy transfer to vibrational excitations weakly coupled to the positron continuum. Data presented here uncover another scenario in which the positron couples directly to a quasicontinuum of multimode vibrational states. A model that assumes excitation and escape from a statistically complete ensemble of multimode vibrations is presented that reproduces key features of the data.

Calculation of gamma spectra for positron annihilation on molecules

Calculations of gamma spectra for positron annihilation for a selection of molecules, including methane and its fluoro-substitutes, ethane, propane, butane and benzene are presented. The contribution to the ?-spectra from individual molecular orbitals is obtained from electron momentum distributions calculated using the density functional theory (DFT) based B3LYP/TZVP model. For positrons thermalised to room temperature, the calculation, in its simplest form, effectively treats the positron as a plane wave and gives positron annihilation ?-spectra linewidths that are broader (30-40%) than experiment, although the main chemical trends are reproduced. The main physical reason for this is the neglect of positron repulsion from the nuclei. We show that this effect can be incorporated through momentum-dependent correction factors, determined from positron-atom calculations, e.g., many-body perturbation theory. Inclusion of these factors in the calculation gives linewidths that are in improved agreement with experiment.

Poincare Analysis of Non-linear Electromagnetic Modes in Electron-Positron Plasmas

We present an investigation of coupled nonlinear electromagnetic modes in an electron-positron plasma by using the well established technique of Poincaré surface of section plots. A variety of nonlinear solutions corresponding to interesting coupled electrostatic-electromagnetic modes sustainable in electron-positron plasmas is shown on the Poincaré section. A special class of localized solitary wave solution is identified along a separatrix curve and its importance in the context of electromagnetic wave propagation in an electron-positron plasma is discussed.

Nonlinear wavepackets in pair-ion and electron-positron-ion plasmas

The occurrence of amplitude-modulated electrostatic and electromagnetic
wavepackets in pair plasmas is investigated. A static additional charged background species is considered, accounting for dust defects or for heavy ion
presence in the background. Relying on a two-fluid description, a nonlinear
Schrodinger type evolution equation is obtained and analyzed, in terms of the
slow dynamics of the wave amplitude. Exact envelope excitations are obtained,
modelling envelope pulses or holes, and their characteristics are discussed.

Superluminal electromagnetic solitary waves in electron-positron plasmas

The propagation of an electromagnetic wave packet in an electron-positron plasma, in the form of coupled localized electromagnetic excitations, is investigated, from first principles. By means of the Poincare section method, a special class of superluminal localized nonlinear stationary solutions, existing along a separatrix curve, are proposed as intrinsic electromagnetic modes in a relativistic electron-positron plasma. The ratio of the envelope time scale to the carrier wave time scale of these envelope solitary waves critically depends on the carrier's phase velocity. In the strongly superluminal regime, v(ph)/c >> 1, the large difference between the envelope and carrier time scales enables us to carry out a multiscale perturbative analysis resulting in an analytical form of the solution envelope. The analytical prediction thus obtained is shown to be in agreement with the solution obtained via a direct numerical integration. Copyright (c) EPLA, 2012

Prefetching and Cache Management using Task Lifetimes

Task-based dataflow programming models and runtimes emerge as promising candidates for programming multicore and manycore architectures. These programming models analyze dynamically task dependencies at runtime and schedule independent tasks concurrently to the processing elements. In such models, cache locality, which is critical for performance, becomes more challenging in the presence of fine-grain tasks, and in architectures with many simple cores.

This paper presents a combined hardware-software approach to improve cache locality and offer better performance is terms of execution time and energy in the memory system. We propose the explicit bulk prefetcher (EBP) and epoch-based cache management (ECM) to help runtimes prefetch task data and guide the replacement decisions in caches. The runtimem software can use this hardware support to expose its internal knowledge about the tasks to the architecture and achieve more efficient task-based execution. Our combined scheme outperforms HW-only prefetchers and state-of-the-art replacement policies, improves performance by an average of 17%, generates on average 26% fewer L2 misses, and consumes on average 28% less energy in the components of the memory system.

Positron scattering and annihilation in hydrogenlike ions

Diagrammatic many-body theory is used to calculate the scattering phase shifts, normalized annihilation rates Zeff, and annihilation ? spectra for positron collisions with the hydrogenlike ions He+, Li2+, B4+, and F8+. Short-range electron-positron correlations and longer-range positron-ion correlations are accounted for by evaluating nonlocal corrections to the annihilation vertex and the exact positron self-energy. The numerical calculation of the many-body theory diagrams is performed using B-spline basis sets. To elucidate the role of the positron-ion repulsion, the annihilation rate is also estimated analytically in the Coulomb-Born approximation. It is found that the energy dependence and magnitude of Zeff are governed by the Gamow factor that characterizes the suppression of the positron wave function near the ion. For all of the H-like ions, the correlation enhancement of the annihilation rate is found to be predominantly due to corrections to the annihilation vertex, while the corrections to the positron wave function play only a minor role. Results of the calculations for s-, p-, and d-wave incident positrons of energies up to the positronium-formation threshold are presented. Where comparison is possible, our values are in excellent agreement with the results obtained using other, e.g., variational, methods. The annihilation-vertex enhancement factors obtained in the present calculations are found to scale approximately as 1+(1.6+0.46l)/Zi, where Zi is the net charge of the ion and l is the positron orbital angular momentum. Our results for positron annihilation in H-like ions provide insights into the problem of positron annihilation with core electrons in atoms and condensed matter systems, which have similar binding energies.

Semiclassical relativistic fluid theory for electrostatic envelope modes in dense electron-positron-ion plasmas:Modulational instability and rogue waves

A fluid model is used to describe the propagation of envelope structures in an ion plasma under the influence of the action of weakly relativistic electrons and positrons. A multiscale perturbative method is used to derive a nonlinear Schrödinger equation for the envelope amplitude. Criteria for modulational instability, which occurs for small values of the carrier wavenumber (long carrier wavelengths), are derived. The occurrence of rogue waves is briefly discussed. © Cambridge University Press 2013.