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  • 1
    Language: English
    In: Journal of the American Chemical Society, 27 February 2013, Vol.135(8), pp.2887-90
    Description: The prokaryotic ubiquitin-like protein (Pup)-based proteasomal system in the pathogen Mycobacterium tuberculosis (Mtb) is essential for its survival in a mammalian host. The Pup ligase enzyme, PafA, conjugates Pup to a suite of proteins targeted for proteasomal degradation and is necessary for persistent infection by Mtb. We report the design and application of fluorescent probes for use in elucidating the mechanisms of Pup and substrate recognition by PafA. Our studies revealed that the C-terminal 26 amino acid sequence of Pup is the minimal ligase recognition motif in Mtb. Specific hydrophobic residues within this sequence that are known to be important for the interactions of Pup with proteasomes are also critical for the activation of Pup by PafA.
    Keywords: Fluorescent Dyes -- Chemistry ; Ligases -- Metabolism ; Mycobacterium Tuberculosis -- Metabolism ; Ubiquitin -- Metabolism
    ISSN: 00027863
    E-ISSN: 1520-5126
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  • 2
    Language: English
    In: European Journal of Operational Research, 01 September 2014, Vol.237(2), pp.474-486
    Description: This research studies the performance of – a “lean” configuration of lateral inventory sharing among retailers or warehouses – and compares its performance to that of no pooling and complete pooling in terms of expected costs and optimal order quantities. Each retailer faces uncertain demand, and we wish to minimize procurement, shortage and transshipment costs. In a circular unidirectional chain all retailers are connected in a closed loop, so that each retailer can cooperate with exactly two others as follows: receive units (if needed⧹available) from the left “neighbor” and send units (if needed⧹available) to the right, and a retailer who receives units from one neighbor is not allowed to send any units to its other neighbor. If the chain consists of at least three nodes and demands across nodes are i.i.d., its performance turns out to be independent of the number of nodes. The optimal stocking is therefore solved . Analytical comparative statics with respect to cost parameters and demand distributions are provided. We also examine thoroughly the cases of uniform demand distribution (analytically) and normal demand distribution (numerically). In the uniform case with free transshipment, a unidirectional chain can save up to 1/3 of the expected cost of separate newsvendors caused by uncertainty. For three nodes, the advantage of complete pooling over unidirectional chaining does not exceed 19%.
    Keywords: Inventory Pooling ; Supply Chain Management ; Lateral Transshipments ; Engineering ; Business ; Computer Science
    ISSN: 0377-2217
    E-ISSN: 1872-6860
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  • 3
    Language: English
    In: International Journal of Hydrogen Energy, 13 January 2014, Vol.39(2), pp.1122-1136
    Description: Hydrogen being an ecological fuel is very attractive now for engines designers. It is already actively used in rocket engines. There exist plans to use hydrogen in pulse detonation engines. However, peculiarities of hydrogen combustion kinetics, the presence of zones of inverse dependence of reaction rate on pressure, etc. prevent from wide use of hydrogen engines. Computer aided design of new effective and clean hydrogen engines needs mathematical tools for supercomputer modeling of hydrogen–oxygen components mixing and combustion gas dynamics. The paper presents the results of developing verification and validation of mathematical model and numerical tool making it possible to simulate unsteady processes of ignition and combustion in engines of different types and to study its peculiarities. First, verification and validation of the chemical kinetic models for hydrogen oxidation were carried out through investigations on the ignition delay time on pressure, temperature, and equivalence ratio for hydrogen-oxygen mixtures. Then, the developed solver was used to model pre-mixed and non-premixed combustion and detonation related phenomena including deflagration to detonation transition.
    Keywords: Combustion ; Ignition Delay ; Non-Equilibrium ; Diffusion ; Turbulence ; Mathematical Simulation ; Engineering
    ISSN: 0360-3199
    E-ISSN: 1879-3487
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  • 4
    Language: English
    In: Physical Review. B, Condensed Matter and Materials Physics, 15 February 2011, Vol.83(8)
    Description: The Cherenkov effect is a well-known phenomenon in the electrodynamics of fast charged particles passing through transparent media. If the particle is faster than the light in a given medium, the medium emits a forward light cone. This beautiful phenomenon has an acoustic counterpart where the role of photons is played by phonons and the role of the speed of light is played by the sound velocity. In this case the medium emits a forward sound cone. Here, we show that in a system with spin-orbit interactions in addition to this normal Cherenkov sound there appears an anomalous Cherenkov sound with forward and backward sound propagation. Furthermore, we demonstrate that the transition from the normal to anomalous Cherenkov sound happens in a singular way at the Cherenkov cone angle. The detection of this acoustic singularity therefore represents an alternative experimental tool for the measurement of the spin-orbit coupling strength.
    Keywords: Condensed Matter Physics, Superconductivity And Superfluidity ; Charged Particles ; Charged-Particle Transport ; Cherenkov Radiation ; Detection ; Electrodynamics ; Emission ; Light Cone ; L-S Coupling ; Orbits ; Phonons ; Photons ; Singularity ; Sound Waves ; Spin ; Visible Radiation ; Angular Momentum ; Bosons ; Coupling ; Electromagnetic Radiation ; Elementary Particles ; Intermediate Coupling ; Massless Particles ; Particle Properties ; Quasi Particles ; Radiation Transport ; Radiations ; Space-Time ; Physics
    ISSN: 1098-0121
    E-ISSN: 1550-235X
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  • 5
    Language: English
    In: Physical Review B, 11/2013, Vol.88(20)
    Description: Topological insulators are currently of considerable interest due to peculiar electronic properties originating from helical states on their surfaces. Here we demonstrate that the sound excited by helical particles on surfaces of topological insulators has several exotic properties fundamentally different from sound propagating in non-helical or even isotropic helical systems. Specifically, the sound may have strictly forward propagation absent for isotropic helical states. Its dependence on the anisotropy of the realistic surface-states is of distinguished behavior which may be used as an alternative experimental tool to measure the anisotropy strength. Fascinating from the fundamental point of view backward, or anomalous, Cherenkov sound is excited above the critical angle $\pi/2$ when the anisotropy exceeds a critical value. Strikingly, at strong anisotropy the sound localizes into a few forward and backward beams propagating along specific directions. Comment: 9 pages, 15 figures
    Keywords: Condensed Matter - Mesoscale And Nanoscale Physics;
    ISSN: 1098-0121
    E-ISSN: 1550-235X
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  • 6
    Language: English
    In: Physical Review B, 9/2014, Vol.90(12)
    Description: A general phenomenon of the Cherenkov radiation known in optics or acoustics of conventional materials is a formation of a forward cone of, respectively, photons or phonons emitted by a particle accelerated above the speed of light or sound in those materials. Here we suggest three-dimensional topological insulators as a unique platform to fundamentally explore and practically exploit the acoustic aspect of the Cherenkov effect. We demonstrate that applying an in-plane magnetic field to a surface of a three-dimensional topological insulator one may suppress the forward Cherenkov sound up to zero at a critical magnetic field. Above the critical field the Cherenkov sound acquires pure backward nature with the polar distribution differing from the forward one generated below the critical field. Potential applications of this asymmetric Cherenkov reverse are in design of low energy electronic devices such as acoustic ratchets or, in general, in low power design of electronic circuits with a magnetic field control of the direction and magnitude of the Cherenkov dissipation. Comment: published version; 6 pages, 5 figures
    Keywords: Condensed Matter - Mesoscale And Nanoscale Physics;
    ISSN: 1098-0121
    E-ISSN: 1550-235X
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  • 7
    Article
    Article
    Language: English
    In: Physical Review B, 11/2015, Vol.92(19)
    Description: In thermodynamics a macroscopic state of a system results from a number of its microscopic states. This number is given by the exponent of the system's entropy $\exp(S)$. In non-interacting systems with discrete energy spectra, such as large scale quantum dots, $S$ as a function of the temperature has usually a plateau shape with integer values of $\exp(S)$ on these plateaus. Plateaus with non-integer values of $\exp(S)$ are fundamentally forbidden and would be thermodynamically infeasible. Here we investigate the entropy of a non-interacting quantum dot coupled via tunneling to normal metals with continuum spectra as well as to topological superconductors. We show that the entropy may have non-integer plateaus if the topological superconductors support weakly overlapping Majorana bound states. This brings a fundamental change in the thermodynamics of the quantum dot whose specific heat $c_V$ acquires low temperature Majorana peaks which should be absent according to the conventional thermodynamics. We also provide a fundamental thermodynamic understanding of the transport properties, such as the linear conductance. In general our results show that the thermodynamics of systems coupled to Majorana modes represents a fundamental physical interest with diverse applications depending on versatility of possible coupling mechanisms. Comment: 8 pages, 11 figures
    Keywords: Condensed Matter - Mesoscale And Nanoscale Physics ; Condensed Matter - Superconductivity;
    ISSN: 1098-0121
    E-ISSN: 1550-235X
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  • 8
    Language: English
    In: Chemical Physics Letters, Sept 17, 2013, Vol.583, p.155(5)
    Description: To link to full-text access for this article, visit this link: http://dx.doi.org/10.1016/j.cplett.2013.08.019 Byline: V.A. Smirnov, N.N. Denisov, A.E. Ukshe, Yu.M. Shulga Abstract: Display Omitted Article History: Received 10 June 2013; Accepted 7 August 2013
    Keywords: Graphene -- Electric Properties ; Graphite -- Electric Properties ; Pyridine -- Electric Properties
    ISSN: 0009-2614
    Source: Cengage Learning, Inc.
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  • 9
    Language: English
    In: Physical Review B, 6/2010, Vol.81(21)
    Description: We investigate the Ruderman-Kittel-Kasuya-Yosida oscillations of the itinerant carrier spin density in a system where those oscillations appear only due to a finite distribution of a localized spin. The system represents a half-infinite one-dimensional quantum wire with a magnetic impurity located at its edge. In contrast to the conventional model of a point-like exchange interaction the itinerant carrier spin density oscillations in this system exist. We {\it analytically} demonstrate that when the radius of the exchange interaction is less than the wave length of the itinerant carriers living on the Fermi surface, the long range behavior of the oscillations is identical to the one taking place in the zero radius limit of the same exchange interaction but for an infinite one-dimensional quantum wire where, in comparison with the original half-infinite system, the mass of the itinerant carriers is {\it strongly} modified by the exchange interaction radius. On the basis of our analysis we make a suggestion on directionality of surface Ruderman-Kittel-Kasuya-Yosida interaction shown in recent experiments: we believe that in general the anisotropy of the Ruderman-Kittel-Kasuya-Yosida interaction could result not only from the anisotropy of the {\it Fermi surface} of itinerant carriers but also from the anisotropy of the {\it spin carrying atomic orbitals} of magnetic impurities. Comment: Published version, 6 pages, 4 figures
    Keywords: Condensed Matter - Mesoscale And Nanoscale Physics;
    ISSN: 1098-0121
    E-ISSN: 1550-235X
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  • 10
    In: Physical Chemistry Chemical Physics, 2017, Vol.19(34), pp.23095-23105
    Description: The behavior of methane hydrate (MH) enclosed between the (010) surfaces of the silicalite-1 zeolite was studied by means of molecular dynamics simulations at temperatures of 150 and 250 K. Calculations reveal that the interaction with the hydrophilic surface OH groups destabilizes the clathrate structure of hydrate. While MH mostly conserves the structure in the simulation at the low temperature, thermal motion at the high temperature breaks the fragilized cages of H-bonded water molecules, thus leading to the release of methane. The dissociation proceeds in a layer-by-layer manner starting from the outer parts of the MH slab until complete hydrate decomposition. The released CH 4 molecules are absorbed by the microporous solid, whereas water is retained at the surfaces of hydrophobic silicalite and forms a meniscus in the interlayer space. Methane uptake reaches 70% of the silicalite sorption capacity. The energy necessary for the endothermic MH dissociation is supplied by the exothermic methane absorption by the zeolite.
    Keywords: Fire-Damp ; Hydrates ; MD-Simulation ; Dissociation ; Model-Study ; Hydrophilic-Surface ; Intercalation ; Clathrate-Structure ; Low-Temperature ; High-TC ; Sorption-Capacity ; Zeolites ; Methanol-Decomposition ; Outer-Surface ; Methan ; Hydrat ; Molekulardynamische Simulation ; Dissoziation ; Modelluntersuchung ; Hydrophile Oberfläche ; Zwischenschicht ; Clathratstruktur ; Niedertemperatur ; Hochtemperatur ; Sorptionskapazität ; Zeolith ; Methanolzersetzung ; Äußere Oberfläche ; Chemistry;
    ISSN: 1463-9076
    E-ISSN: 1463-9084
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