Fluorescence resonance energy transfer between quantum dot donors and dye-labeled protein acceptors

We used luminescent CdSe-ZnS core-shell quantum dots (QDs) as energy donors in fluorescent resonance energy transfer (FRET) assays. Engineered maltose binding protein (MBP) appended with an oligohistidine tail and labeled with an acceptor dye (Cy3) was immobilized on the nanocrystals via a noncovalent self-assembly scheme. This configuration allowed accurate control of the donor-acceptor separation distance to a range smaller than 100 A and provided a good model system to explore FRET phenomena in QD-protein-dye conjugates. This QD-MBP conjugate presents two advantages: (1) it permits one to tune the degree of spectral overlap between donor and acceptor and (2) provides a unique configuration where a single donor can interact with several acceptors simultaneously. The FRET signal was measured for these complexes as a function of both degree of spectral overlap and fraction of dye-labeled proteins in the QD conjugate. Data showed that substantial acceptor signals were measured upon conjugate formation, indicating efficient nonradiative exciton transfer between QD donors and dye-labeled protein acceptors. FRET efficiency can be controlled either by tuning the QD photoemission or by adjusting the number of dye-labeled proteins immobilized on the QD center. Results showed a clear dependence of the efficiency on the spectral overlap between the QD donor and dye acceptor. Apparent donor-acceptor distances were determined from efficiency measurements and corresponding F?rster distances, and these results agreed with QD bioconjugate dimensions extracted from structural data and core size variations among QD populations.     

Optimisation of accurate rutile TiO<Subscript>2</Subscript> (110), (100), (101) and (001) surface models from periodic DFT calculations

In this paper, geometric bulk parameters, bulk moduli, energy gaps and relative stabilities of the TiO₂ anatase and rutile phases were determined from periodic DFT calculations. Then, for the rutile phase, structures, relaxations and surface energies of the (110), (100), (101) and (001) faces were computed. The calculated surface energies are consistent with the natural rutile powder composition, even if a dependence on the number of layers of the slab used to model the surface was identified. Internal constraints, consisting in freezing some internal layers of the slab to atomic bulk positions, were thus added to mimic the bulk hardness in order to stabilise the computed surface energies for thinner systems. In parallel, the influence of pseudopotentials was studied and it appears that four valence electrons for titanium atoms are sufficient. The aim of this study was to optimise accurate rutile TiO₂ surface models that will be used in further calculations to investigate water and uranyl ion sorption mechanisms.     

Förster Resonance Energy Transfer Investigations Using Quantum‐Dot Fluorophores

F?rster resonance energy transfer (FRET), which involves the nonradiative transfer of excitation energy from an excited donor fluorophore to a proximal ground-state acceptor fluorophore, is a well-characterized photophysical tool. It is very sensitive to nanometer-scale changes in donor-acceptor separation distance and their relative dipole orientations. It has found a wide range of applications in analytical chemistry, protein conformation studies, and biological assays. Luminescent semiconductor nanocrystals (quantum dots, QDs) are inorganic fluorophores with unique optical and spectroscopic properties that could enhance FRET as an analytical tool, due to broad excitation spectra and tunable narrow and symmetric photoemission. Recently, there have been several FRET investigations using luminescent QDs that focused on addressing basic fundamental questions, as well as developing targeted applications with potential use in biology, including sensor design and protein conformation studies. Herein, we provide a critical review of those developments. We discuss some of the basic aspects of FRET applied to QDs as both donors and acceptors, and highlight some of the advantages offered (and limitations encountered) by QDs as energy donors and acceptors compared to conventional dyes. We also review the recent developments made in using QD bioreceptor conjugates to design FRET-based assays.     

Electronic state of Fe used as Mössbauer probe in the perovskites LaMO3 (M=Ni and Cu)

For the first time a comparative study of rhombohedral LaNiO₃ and LaCuO₃ oxides, using ⁵⁷Fe Mössbauer probe spectroscopy (1% atomic rate), has been carried out. In spite of the fact that both oxides are characterized by similar crystal structure and metallic properties, the behavior of ⁵⁷Fe probe atoms in such lattices appears essentially different. In the case of LaNi_0.99Fe_0.01O₃, the observed isomer shift (δ) value corresponds to Fe³⁺ (3d⁵) cations in high-spin state located in an oxygen octahedral surrounding. In contrast, for the LaCu_0.99Fe_0.01O₃, the obtained δ value is comparable to that characterizing the formally tetravalent high-spin Fe⁴⁺(3d⁴) cations in octahedral coordination within Fe(IV) perovskite-like ferrates. To explain such a difference, an approach based on the qualitative energy diagrams analysis and the calculations within the cluster configuration interaction method have been developed. It was shown that in the case of LaNi_0.99Fe_0.01O₃, electronic state of nickel is dominated by the d⁷ configuration corresponding to the formal ionic “Ni³⁺-O²⁻” state. On the other hand, in the case of LaCu_0.99Fe_0.01O₃ a large amount of charge is transferred via Cu-O bonds from the O:2p bands to the Cu:3d orbitals and the ground state is dominated by the d⁹L configuration (“Cu²⁺−O” state). The dominant d⁹L ground state for the (CuO₆) sublattice induces in the environment of the ⁵⁷Fe probe cations a charge transfer Fe³⁺+O⁻(L)→Fe⁴⁺+O²⁻, which transforms “Fe³⁺” into “Fe⁴⁺” state. The analysis of the isomer shift value for the formally “Fe⁴⁺” ions in perovskite-like oxides clearly proved a drastic influence of the 4s iron orbitals population on the Fe−O bonds character.     

Synthesis, excited-state dynamics, and reactivity of a directly-linked pyromellitimide-(porphinato)zinc(II) complex

N-[5-(10,20-Diphenylporphinato)zinc(II)]-N'-(octyl)pyromellitic diimide (PZn-PI), a meso-pyromellitimide-substituted (porphinato)zinc(II) compound, has been fabricated from the reaction of (5-amino-10,20-diphenylporphinato)zinc(II) with pyromellitic dianhydride in the presence of octylamine. Interrogation of the photoinduced charge separation (CS) and thermal charge recombination (CR) electron-transfer (ET) dynamics for PZn-PI in CH(2)Cl(2) via pump-probe transient absorption spectroscopic methods shows that tau(CS) and tau(CR) are 770 and 5200 fs, respectively. These ET dynamics differ from those elucidated previously for closely related 5-quinonyl-substituted (porphinato)metal compounds, and derive from the fact that the low-lying excited states for PZn-PI are porphyrin-localized, possessing little charge-transfer character. The synthesis of N-(5-[15-(2-(triisopropylsilyl)ethynyl)-10,20-diphenylporphinato]zinc(II))-N'-(octyl)pyromellitic diimide demonstrates that PZn-PI can be halogenated at its 15-meso-position and used subsequently as a substrate in metal-catalyzed cross-coupling reactions; the reactivity of PZn-PI is unusual with respect to many directly linked donor-acceptor compounds in that it is stable to these oxidizing and reducing reaction conditions.     

Voltammetric behavior of zaleplon and its differential pulse polarographic determination in capsules

In this work both the electrochemical behavior and the analysis of the hypnotic pyrazolopyrimidine derivative zaleplon were studied. Zaleplon in ethanol-0.1M Britton Robinson buffer solution (30-70) showed 2 irreversible, well-defined cathodic responses in the pH range of 2-12 using differential pulse polarography (DPP), tast polarography, and cyclic voltammetry. From chronocoulometric studies, it was possible to conclude that one electron was transferred in each reduction peak or wave. For analytical purposes, the DPP technique working at pH 4.5 for peak I was selected, which exhibited adequate repeatability, reproducibility, and selectivity. The recovery was 99.97 +/- 1.52%, and the detection and quantitation limits were 5.13 x 10(-7)M and 1.11 x 10(-6)M, respectively. The DPP method was applied successfully to the individual assay of capsules in order to verify the content uniformity of zaleplon. Treatment of the sample is not required because the excipients do not interfere, the method is not time consuming, and it is less expensive than column liquid chromatography.     

Reversible modulation of quantum dot photoluminescence using a protein- bound photochromic fluorescence resonance energy transfer acceptor

Multiple copies ( approximately 20) of Escherichia coli maltose binding protein (MBP) were coordinated to luminescent semiconductor quantum dots (QDs) via a C-terminal oligohistidine segment. The MBP was labeled with a sulfo-N-hydroxysuccinimide-activated photochromic BIPS molecule (1',3-dihydro-1'-(2-carboxyethyl)-3,3-dimethyl-6-nitrospiro[2H-1-benzopyran-2,2'-(2H)-indoline]) at two different dye-to-MBP ratios; D/P = 1 and 5. The ability of MBP-BIPS to modulate QD photoluminescence was tested by switching BIPS from the colorless spiropyran (SP) to the colored merocyanine (MC) using white light (>500 nm) or UV light ( approximately 365 nm), respectively. QDs surrounded by MBP-BIPS with D/P = 1 were quenched on average approximately 25% with consecutive repeated switches, while QDs surrounded by MBP-BIPS with D/P = 5 were quenched approximately 60%. This result suggests a possible use of BIPS-labeled proteins in QD-based nanostructures as part of a threshold switch or other biosensing device.     

The structure of 1-phenyl-3-benzoylamino-4-benzoylpyrazol-2-in-5-one

Crystal and molecular structure of 1-phenyl-3-benzoylamino-4-benzoylpyrazol-2-in-5-one as a product of the benzoylation of 1-phenyl-3-benzoylaminopyrazol-2-in-5-one was characterised by X-ray single crystal diffraction. It is shown that 1-phenyl-3-benzoylamino-4-benzoylpyrazol-2-in-5-one exists in the solid phase in an NH-tautomeric form, which is stabilised by two intramolecular hydrogen bonds and one intermolecular bond with the solvate dioxane molecule, the latter being used as a solvent for recrystallisation.     

Theoretical studies on the hydrolysis of mono-phosphate and tri-phosphate in gas phase and aqueous solution

Phosphate hydrolysis by GTPases plays an important role as a molecular switch in signal transduction and as an initiator of many other biological processes. Despite the centrality of this ubiquitous reaction, the mechanism is still poorly understood. As a first step to understand the mechanisms of this process, the nonenzymatic hydrolysis of mono-phosphate and tri-phosphate esters were systematically studied in gas phase and aqueous solution using hybrid density functional methods. The dielectric effect of the environment on the energetics of these processes was also explored. Theoretical results show that for mono-phosphate ester, the dissociative pathway is much more favorable than the associative pathway. However, the reaction barriers for the dissociative and associative pathways of tri-phosphate hydrolysis are very close in aqueous solution, though the dissociative pathway is more favorable in the gas phase. High dielectric solvents, such as water, significantly lower the activation barrier of the associative pathway due to the greater solvation energy of the associative transition states than that of the reactant complex. By contrast, the barrier of the dissociative pathway, with respect to the gas phase, is less sensitive to the surrounding dielectric. In the associative hydrolysis pathway of the tri-phosphate ester, negative charge is transferred from the gamma-phosphate to beta-phosphate through the bridging ester oxygen and results in Pgamma-O bond dissociation. No analogous charge transfer was observed in the dissociative pathway, where Pgamma-O bond dissociation resulted from proton transfer from the gamma-phosphate to the bridge oxygen. Finally, the active participation of local water molecules can significantly lower the activation energy of the dissociative pathway for both mono-phosphate and tri-phosphate.     

Quantum algorithm for alchemical optimization in material design

The development of tailored materials for specific applications is an active field of research in chemistry, material science and drug discovery. The number of possible molecules obtainable from a set of atomic species grow exponentially with the size of the system, limiting the efficiency of classical sampling algorithms. On the other hand, quantum computers can provide an efficient solution to the sampling of the chemical compound space for the optimization of a given molecular property. In this work, we propose a quantum algorithm for addressing the material design problem with a favourable scaling. The core of this approach is the representation of the space of candidate structures as a linear superposition of all possible atomic compositions. The corresponding ‘alchemical’ Hamiltonian drives the optimization in both the atomic and electronic spaces leading to the selection of the best fitting molecule, which optimizes a given property of the system, e.g., the interaction with an external potential as in drug design. The quantum advantage resides in the efficient calculation of the electronic structure properties together with the sampling of the exponentially large chemical compound space. We demonstrate both in simulations and with IBM Quantum hardware the efficiency of our scheme and highlight the results in a few test cases. This preliminary study can serve as a basis for the development of further material design quantum algorithms for near-term quantum computers.

‘Alchemical’ quantum algorithm for the simultaneous optimisation of chemical composition and electronic structure for material design. By exploiting quantum mechanical principles this approach will boost drug discovery in the near future.