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The main source of decoherence for an electron spin confined to a quantum dot is the hyperfine interaction with nuclear spins. To analyze this process theoretically we diagonalize the central spin Hamiltonian in the high magnetic B-field limit. Then we project the eigenstates onto an unpolarized state of the nuclear bath and find that the resulting density of states has Gaussian tails. The level spacing of the nuclear sublevels is exponentially small in the middle of each of the two electron Zeeman levels but increases superexponentially away from the center. This suggests to select states from the wings of the distribution when the system is projected on a single eigenstate by a measurement to reduce the noise of the nuclear spin bath. This theory is valid when the external magnetic field is larger than a typical Overhauser field at high nuclear spin temperature. 相似文献
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Oleksandr BurylkoArkady Pikovsky 《Physica D: Nonlinear Phenomena》2011,240(17):1352-1361
We consider the nonlinear extension of the Kuramoto model of globally coupled phase oscillators where the phase shift in the coupling function depends on the order parameter. A bifurcation analysis of the transition from fully synchronous state to partial synchrony is performed. We demonstrate that for small ensembles it is typically mediated by stable cluster states, that disappear with creation of heteroclinic cycles, while for a larger number of oscillators a direct transition from full synchrony to a periodic or a quasiperiodic regime occurs. 相似文献
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Dr. Bugga Balakrishna Arjun Menon Dr. Kecheng Cao Sebastian Gsänger Dr. Sebastian B. Beil Julia Villalva Oleksandr Shyshov Oliver Martin Prof. Dr. Andreas Hirsch Prof. Dr. Bernd Meyer Prof. Dr. Ute Kaiser Prof. Dr. Dirk M. Guldi Prof. Dr. Max von Delius 《Angewandte Chemie (Weinheim an der Bergstrasse, Germany)》2020,132(42):18933-18945
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Igor Dovgan Alexandre Hentz Oleksandr Koniev Anthony Ehkirch Steve Hessmann Sylvain Ursuegui Sbastien Delacroix Margaux Riomet Frdric Taran Sarah Cianfrani Sergii Kolodych Alain Wagner 《Chemical science》2020,11(5):1210
Controlled protein functionalization holds great promise for a wide variety of applications. However, despite intensive research, the stoichiometry of the functionalization reaction remains difficult to control due to the inherent stochasticity of the conjugation process. Classical approaches that exploit peculiar structural features of specific protein substrates, or introduce reactive handles via mutagenesis, are by essence limited in scope or require substantial protein reengineering. We herein present equimolar native chemical tagging (ENACT), which precisely controls the stoichiometry of inherently random conjugation reactions by combining iterative low-conversion chemical modification, process automation, and bioorthogonal trans-tagging. We discuss the broad applicability of this conjugation process to a variety of protein substrates and payloads.Controlled protein functionalization holds great promise for a wide variety of applications.Applications of protein conjugates are limitless, including imaging, diagnostics, drug delivery, and sensing.1–4 In many of these applications, it is crucial that the conjugates are homogeneous.5 The site-selectivity of the conjugation process and the number of functional labels per biomolecule, known as the degree of conjugation (DoC), are crucial parameters that define the composition of the obtained products and are often the limiting factors to achieving adequate performance of the conjugates. For instance, immuno-PCR, an extremely sensitive detection technique, requires rigorous control of the average number of oligonucleotide labels per biomolecule (its DoC) in order to achieve high sensitivity.6 In optical imaging, the performance of many super-resolution microscopy techniques is directly defined by the DoC of fluorescent tags.7 For therapeutics, an even more striking example is provided by antibody–drug conjugates, which are prescribed for the treatment of an increasing range of cancer indications.8 A growing body of evidence from clinical trials indicates that bioconjugation parameters, DoC and DoC distribution, directly influence the therapeutic index of these targeted agents and hence must be tightly controlled.9Standard bioconjugation techniques, which rely on nucleophile–electrophile reactions, result in a broad distribution of different DoC species (Fig. 1a), which have different biophysical parameters, and consequently different functional properties.10Open in a separate windowFig. 1Schematic representation of the types of protein conjugates.To address this key issue and achieve better DoC selectivity, a number of site-specific conjugation approaches have been developed (Fig. 1b). These techniques rely on protein engineering for the introduction of specific motifs (e.g., free cysteines,11 selenocysteines,12 non-natural amino acids,13,14 peptide tags recognized by specific enzymes15,16) with distinct reactivity compared to the reactivity of the amino acids present in the native protein. These motifs are used to simultaneously control the DoC (via chemo-selective reactions) and the site of payload attachment. Both parameters are known to influence the biological and biophysical parameters of the conjugates,11 but so far there has been no way of evaluating their impact separately.The influence of DoC is more straightforward, with a lower DoC allowing the minimization of the influence of payload conjugation on the properties of the protein substrate. The lowest DoC that can be achieved for an individual conjugate is 1 (corresponding to one payload attached per biomolecule). It is noteworthy that DoC 1 is often difficult to achieve through site-specific conjugation techniques due to the symmetry of many protein substrates (e.g., antibodies). Site selection is a more intricate process, which usually relies on a systematic screening of conjugation sites for some specific criteria, such as stability or reactivity.17Herein, we introduce a method of accessing an entirely new class of protein conjugates with multiple conjugation sites but strictly homogenous DoCs (Fig. 1c). To achieve this, we combined (a) iterative low conversion chemical modification, (b) process automation, and (c) bioorthogonal trans-tagging in one workflow.The method has been exemplified for protein substrates, but it is applicable to virtually any native bio-macromolecule and payload. Importantly, this method allows for the first time the disentangling of the effects of homogeneous DoC and site-specificity on conjugate properties, which is especially intriguing in the light of recent publications revealing the complexity of the interplay between payload conjugation sites and DoC for in vivo efficacy of therapeutic bioconjugates.18 Finally, it is noteworthy that this method can be readily combined with an emerging class of site-selective bioconjugation reagents to produce site-specific DoC 1 conjugates, thus further expanding their potential for biotechnology applications.19 相似文献
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Oleksandr Romanenko Petr Slepička Petr Malinsky Mariapompea Cutroneo Vladimír Havránek James Stammers Václav Švorčík Anna Macková 《Surface and interface analysis : SIA》2020,52(12):1040-1044
3D microstructures in pure poly(dimethylsiloxane) (PDMS) and PDMS with embedded Au nanoparticles were prepared by ion beam lithography without any further etching. Two mega-electron volts helium and 10 MeV oxygen ions were used for ion microstructuring. Parallel lines of 1 mm in length and 10 μm in thickness were fabricated for investigation of the effect of the nanoparticles presence in the polymer on the surface morphology of the created microstructures. The created microstructures were checked by optical microscope. Infrared (IR) spectrometry was used to study the effect of the ions type and fluence on the chemical changes of the material. Atomic force microscopy was used for the fine detail study as well as for checking the microstructure quality. Analysis revealed an increased radiation resistance of the nanocomposite compared to the pure PDMS. Shrinkage is proportional to the fluence, but the maximum value for both materials is limited by saturation. 3D microstructure in modified PDMS obtained at the same irradiation condition as pure PDMS is characterized by its smaller height. Obtaining the microstructure in nanocomposite of the same height as in pure PDMS by increasing the fluence can be impossible due to saturation of shrinkage and/or radiation-induced heating of the material. 相似文献
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Vladimir L. Solozhenko Oleksandr O. Kurakevych 《Journal of solid state chemistry》2009,182(6):1359-240
Chemical interaction and phase transformations in the B-BN system have been in situ studied by X-ray diffraction with synchrotron radiation at pressures up to 5.3 GPa and temperatures up to 2800 K using multianvil press. New rhombohedral boron subnitride B13N2 has been synthesized by crystallization from the B-BN melt at 5 GPa. The structure of B13N2 belongs to the R-3m space group (a=5.4455(2) Å, c=12.2649(9) Å) and represents a new structural type. The subnitride is an individual compound and not a solid solution, in contrast to boron carbide. Besides, the formation of two other boron-rich B-N phases denoted as “B6N” and “B50N2” has been observed. Their structures seem to be much more sophisticated and have not been even resolved to present time. 相似文献
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Malets Yehor S. Moskvina Viktoriia S. Grygorenko Oleksandr O. Brovarets Volodymyr S. 《Chemistry of Heterocyclic Compounds》2019,55(11):1007-1012
Chemistry of Heterocyclic Compounds - This minireview highlights known methods for the synthesis of azachromones and azachromanones, including the earliest and the latest examples of their... 相似文献
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Protein kinases are an important class of enzymes controlling virtually all cellular signaling pathways. Consequently, selective inhibitors of protein kinases have attracted significant interest as potential new drugs for many diseases. Computational methods, including molecular docking, have increasingly been used in the inhibitor design process [1]. We have considered several docking packages in order to strengthen our kinase inhibitor work with computational capabilities. In our experience, AutoDock offered a reasonable combination of accuracy and speed, as opposed to methods that specialize either in fast database searches or detailed and computationally intensive calculations.However, AutoDock did not perform well in cases where extensive hydrophobic contacts were involved, such as docking of SB203580 to its target protein kinase p38. Another shortcoming was a hydrogen bonding energy function, which underestimated the attraction component and, thus, did not allow for sufficiently accurate modeling of the key hydrogen bonds in the kinase-inhibitor complexes.We have modified the parameter set used to model hydrogen bonds, which increased the accuracy of AutoDock and appeared to be generally applicable to many kinase-inhibitor pairs without customization. Binding to largely hydrophobic sites, such as the active site of p38, was significantly improved by introducing a correction factor selectively affecting only carbon and hydrogen energy grids, thus, providing an effective, although approximate, treatment of solvation. 相似文献