DFT/TDDFT investigation of the stepwise deprotonation in tetracycline: pK<Subscript>a</Subscript> assignment and UV–vis spectroscopy

Tetracyclines are a class of derivatives of polycyclic naphthacene carboxamide, which have attracted wide interest in the pharmaceutical field for their use as antibiotics. These molecules are characterized by a substantial conformational flexibility and by the presence of different binding sites which endow tetracycline with a noticeable capability in binding biological targets. A salient property of tetracyclines is the presence of multiple acidic groups: four equilibrium constants have been measured for the fully protonated tetracycline (TCH₃ ⁺) but so far no clear information concerning the pK_as of the various sites has been reported. We present here a computational investigation on the correlation between the acid–base and the spectroscopic properties of this important class of compounds. Starting from the TCH₃ ⁺ species, the pK_a of all the possible deprotonation sites has been computed by DFT calculations. The computed pK_as nicely compare with the experimental data, within 1 pK_a unit, allowing us to individuate the products of the first deprotonation. This procedure has been iteratively repeated using as starting species the products singled out from the previous deprotonation, thus individuating the stepwise products of each deprotonation step. Then, the optical absorption spectra have been computed for all the species involved in the protonation/deprotonation equilibria, comparing the results with the experimental data. The good agreement between theory and experiment has allowed us to rationalize the correlation between the solution pH and the absorption spectra.     

AFM-based force-clamp monitors lipid bilayer failure kinetics

The lipid bilayer rupture phenomenon is here explored by means of atomic force microscopy (AFM)-based force clamp, for the first time to our knowledge, to evaluate how lipid membranes respond when compressed under an external constant force, in the range of nanonewtons. Using this method, we were able to directly quantify the kinetics of the membrane rupture event and the associated energy barriers, for both single supported bilayers and multibilayers, in contradistinction to the classic studies performed at constant velocity. Moreover, the affected area of the membrane during the rupture process was calculated using an elastic deformation model. The elucidated information not only contributes to a better understanding of such relevant process, but also proves the suitability of AFM-based force clamp to study model structures as lipid bilayers. These findings on the kinetics of lipid bilayers rupture could be extended and applied to the study of other molecular thin films. Furthermore, systems of higher complexity such as models mimicking cell membranes could be studied by means of AFM-based force-clamp technique.     

Photoinduced electron transfer in Os(terpyridine)-biphenylene-(bi)pyridinium assemblies

A series of linearly arranged donor-spacer-acceptor (D-S-A) systems 1-3, has been prepared and characterized. These dyads combine an Os(II)bis(terpyridine) unit as the photoactivable electron donor (D), a biphenylene (2) or phenylene-xylylene (3) fragment as the spacer (S), and a N-aryl-2,6-diphenylpyridinium electrophore (with aryl = 4-pyridyl or 4-pyridylium in 1 or 2/3, respectively) as the acceptor (A). Their absorption spectra, redox behavior, and luminescence properties (both at 77 K in rigid matrix and at 298 K in fluid solution) have been studied. The electronic structure and spectroscopic properties of a representative compound of the series (i.e., 2) have also been investigated at the theoretical level, performing Density Functional Theory (DFT)-based calculations. Time-dependent transient absorption spectra of 1-3 have also been recorded at room temperature. The results indicate that efficient photoinduced oxidative electron transfer takes place in the D-S-A systems at room temperature in fluid solution, for which rate constants (in the range 4 × 10(8)-2 × 10(10) s(-1)) depend on the driving force of the process and the spacer nature. In all the D-S-A systems, charge recombination is faster than photoinduced charge separation, in spite of the relatively large energy of the D(+)-S-A(-) charge-separated states (between 1.47 and 1.78 eV for the various species), which would suggest that the charge recombination occurs in the Marcus inverted region. Considerations based on superexchange mechanism suggest that the reason for the fast charge recombination is the presence of a virtual D-S(+)-A(-) state at low energy--because of the involvement of the easily oxidizable biphenylene spacer--which is beneficial for charge recombination via superexchange but unsuitable for photoinduced charge separation. To further support the above statement, we prepared a fourth D-S-A species, 4, analogous to 2 but with a (hardly oxidizable) single phenylene fragment serving as the spacer. For such a species, charge recombination (about 3 × 10(10) s(-1)) is slower than photoinduced charge separation (about 1 × 10(11) s(-1)), thereby confirming our suggestions.     

Simple preparations of Pd6Cl12, Pt6Cl12, and Qn[Pt2Cl8+n], n=1, 2 (Q=TBA+, PPN+) and structural characterization of [TBA][Pt2Cl9] and [PPN]2[Pt2Cl10].C7H8

The hexanuclear Pd6Cl12, i.e., the crystal phase classified as beta-PdCl2, was obtained by reacting [TBA]2[Pd2Cl6] with AlCl3 (or FeCl3) in CH2Cl2. The action of AlCl3 on PtCl42-, followed by digestion of the resulting solid in 1,2-C2H4Cl2 (DCE), CHCl3, or benzene, produced Pt6Cl12.DCE, Pt6Cl12.CHCl3, or Pt6Cl12.C6H6, respectively. Treating [TBA]2[PtCl6] with a slight excess of AlCl3 afforded [TBA][Pt2Cl9], whose anion was established crystallographically to be constituted by two "PtCl6" octahedra sharing a face. Dehydration of H2PtCl6.nH2O with SOCl2 gave an amorphous compound closely analyzing as PtCl4, reactive with [Q]Cl in SOCl2 to yield [Q][Pt2Cl9] or [Q]2[Pt2Cl10], depending on the [Q]Cl/Pt molar ratio (Q=TBA+, PPN+). A single-crystal X-ray diffraction study has shown [PPN]2[Pt2Cl10].C7H8 to contain dinuclear anions formed by two edge-sharing PtCl6 octahedra.     

Potassium-selective optrode based on an immobilized fluorogenic crown ether

A new optical sensor phase for potassium ions has been developed based on the immobilization of the pH-dependent fluorogenic crown ether 4-acryloylamidobenzo-18-crown-6 on the non-ionic polymeric resin Amberlite XAD-2.Two different optical designs, a flow-through sensor and a fibre optic probetype sensor (optrode), have been constructed and their analytical performance characteristics have been evaluated. The resulting fluorimetric sensors for K⁺ ions exhibited detection limits of 0.4 or 0.8 M of K⁺ (16 g/l or 31 g/l), depending on the design, while the linear response occurred from 1 to 25 M of the metal concentrations. The precision, evaluated as the relative standard deviation of measurements of K⁺ levels at around ten times the detection limit (e.g. 5 M), turned out to be around ±2%.Advantageous features of this fluorimetric sensing phase and optrode include ease of construction, simplicity of use, reversibility, short response times (ca. 1 min full scale deflection) selectivity and operational stability, suitable for sensing potassium at low levels in complex matrices such as biological fluids.The fluorimetric optical sensor has been successfully applied to the direct determination of potassium in clinically important samples (serum and urine) and in natural waters. Very good accuracy has been obtained just using adequate synthetic aqueous potassium standards for calibration.     

Photochemistry and vibrational spectra of matrix-isolated methyl 4-chloro-5-phenylisoxazole-3-carboxylate

Methyl 4-chloro-5-phenylisoxazole-3-carboxylate (MCPIC) has been synthesized, isolated in low temperature argon and xenon matrices, and studied by FTIR spectroscopy. The characterization of the low energy conformers of MCPIC was made by undertaking a systematic investigation of the DFT(B3LYP)/6-311++G(d,p) potential energy surface of the molecule. The theoretical calculations predicted the existence of three low energy conformers. Two of them (I and II) were observed experimentally in the cryogenic matrices. The third one (III) was found to be converted into conformer II during deposition of the matrices, a result that is in agreement with the predicted low III → II energy barrier (<0.3 kJ mol(-1)). In situ UV irradiation (λ > 235 nm) of matrix-isolated MCPIC yielded as final photoproduct the corresponding oxazole (methyl 4-chloro-5-phenyl-1,3-oxazole-2-carboxylate). Identification of the azirine and nitrile-ylide intermediates in the spectra of the irradiated matrices confirmed their mechanistic relevance in the isoxazole → oxazole photoisomerization.     

Partial least squares model and design of experiments toward the analysis of the metabolome of Jatropha gossypifolia leaves: Extraction and chromatographic fingerprint optimization

A major challenge in metabolomic studies is how to extract and analyze an entire metabolome. So far, no single method was able to clearly complete this task in an efficient and reproducible way. In this work we proposed a sequential strategy for the extraction and chromatographic separation of metabolites from leaves Jatropha gossypifolia using a design of experiments and partial least square model. The effect of 14 different solvents on extraction process was evaluated and an optimized separation condition on liquid chromatography was estimated considering mobile phase composition and analysis time. The initial conditions of extraction using methanol and separation in 30 min between 5 and 100% water/methanol (1:1 v/v) with 0.1% of acetic acid, 20 μL sample volume, 3.0 mL min^?1 flow rate and 25°C column temperature led to 107 chromatographic peaks. After the optimization strategy using i‐propanol/chloroform (1:1 v/v) for extraction, linear gradient elution of 60 min between 5 and 100% water/(acetonitrile/methanol 68:32 v/v with 0.1% of acetic acid), 30 μL sample volume, 2.0 mL min^?1 flow rate, and 30°C column temperature, we detected 140 chromatographic peaks, 30.84% more peaks compared to initial method. This is a reliable strategy using a limited number of experiments for metabolomics protocols.     

Steady-state and time-resolved investigations of a crown thioether conjugated with methylacridinium and its complexes with metal ions

The crown thioether 9-[4-(4,7,10,13-tetrathia-1-azacyclopentadecyl]phenyl-N-methylacridinium perchlorate (TCMA) was synthesized and characterized with the aim to verify its ability to interact selectively with metal ions and substantiate the possibility to detect easily the presence of heavy metals in fluid samples. The spectroscopic properties of TCMA, alone and in the presence of metal ions, were therefore studied in polar solvents (MeCN and H(2)O); in particular, steady-state UV-Vis spectrophotometric and fluorimetric techniques were used together with transient absorption spectroscopy with fs time resolution to investigate the spectral and dynamic properties of the lowest excited singlet state of TCMA and of TCMA/metal ion complexes. The absorption in the Vis region is characterized by a charge-transfer nature with the methylacridinium moiety acting as the electron-acceptor and the anilic group as the electron-donor. No emission from the S(1) was detected both in MeCN and H(2)O, while a small S(2)→ S(0) fluorescence emission (λ(max) = 485 nm and ?(F) = 0.0011) was detected in water. Time-resolved measurements with fs resolution of TCMA in MeCN have shown that the relaxed S(1) state is reached ～0.6 ps after the laser pulse, while the S(1)→ S(0) time constant is 3.7 ps. Among the investigated metal ions, only Fe(3+) (in MeCN) and Hg(2+) (in MeCN and H(2)O) were able to form stable complexes (association constant, K(ass) = 1-11 × 10(4) M(-1)) with TCMA. The S(1) state of the TCMA/M(n+) complexes emits with low quantum yield (?(F) = 0.0023-0.014) and decays with time constants much longer than TCMA itself, at least in the case of TCMA/Hg(2+) in MeCN. This study showed that TCMA is a good candidate for colorimetric/fluorimetric sensing of Hg(2+) in aqueous media owing to its high selectivity towards metal ions.