Computational clues for a new mechanism in the glycosylase activity of the human DNA repair protein hOGG1. A generalized paradigm for purine-repairing systems?

A theoretical density functional theory (DFT, B3LYP) investigation has been carried out on the catalytic cycle responsible for the glycosylase activity of the human DNA repair protein hOGG1: enzyme activation, cleavage of the glycosidic bond, and expulsion of the damaged base. An unprecedented large quantum mechanics (QM) model system has been used, which includes a complete oxoG molecule, the deoxyribose ring bonded to the phosphate groups, and most of the surrounding residues that simulate the protein binding pocket. It has been found that Asp268 does not play any role in Lys249 activation and that the oxoG basis acts as a coenzyme, triggering nucleophile activation by Lys249 deprotonation. An SN2 nucleophilic attack by Lys249 on the anomeric carbon then follows. This is the rate-determining step of the process with an activation barrier of 16.7 kcal mol(-1) in good agreement with the experimental value of 17.1 kcal mol(-1). The expelled oxoG plays again as an enzyme cofactor at the end of the process by activating (via proton transfer) ribose ring opening and Schiff base formation. This study suggests a recurring catalytic strategy in the enzymatic cleavage of purine nucleoside where the activation of the leaving group by protonation of the nucleoside base (via an enzymatic general acid) triggers the cleavage of the glycosidic bond.     

Synthesis of α-trifluoromethyl-α-amino-β-sulfone hydroxamates: novel nanomolar inhibitors of matrix metalloproteinases

The racemic α-trifluoromethyl-α-amino-β-sulfone hydroxamates 1 were synthesized by means of a nucleophilic addition of sulfur-stabilized carbanions to a N-Cbz imine of trifluoropyruvate (4). The free amino derivative 1a was the most potent inhibitor of both MMP-3 (stromelysin-1) and MMP-9 (gelatinase-B), showing an IC₅₀ = 14 nM and 1 nM, respectively, and excellent selectivity versus MMP-1 (>5000-fold difference in inhibitory capacity). The N-Me derivative 1b was the most selective for MMP-3 with respect to MMP-9 (62-fold difference).     

On the Effects of UV‐C and pH on the Mechanical Behavior,Molecular Conformation and Cell Viability of Collagen‐Based Scaffold for Vascular Tissue Engineering

Collagen‐based vascular substitutes represent in VTE a valid alternative for the replacement of diseased small‐calibre blood vessels. In this study, collagen gel‐based scaffolds were crosslinked combining modulation of pH and UV‐C radiation. The effects on the mechanical properties, on the molecular structure and on cell viability and morphology were investigated. The mechanical response increased as a function of pH or UV‐C dose and strongly depended on the test speed. Collagen molecular conformation resulted only slightly modified. While cell adhesion was not significantly altered, cell proliferation partially decreased in function of pH and UV‐C. These findings suggest that UV‐C treated collagen gels can represent an adequate substrate for VTE applications.

     

Isomerism in rhodium(I) N,S-donor heteroscorpionates: ring substituent and ancillary ligand effects

The heteroscorpionate ligands [HB(taz)(2)(pz(R))](-) (pz(R) = pz, pz(Me2), pz(Ph)) and [HB(taz)(pz)(2)](-), synthesised from the appropriate potassium hydrotris(pyrazolyl)borate salt and 4-ethyl-3-methyl-5-thioxo-1,2,4-triazole (Htaz), react with [{Rh(cod)(μ-Cl)}(2)] to give [Rh(cod)Tx] {Tx = HB(taz)(2)(pz), HB(taz)(2)(pz(Me2)), HB(taz)(2)(pz(Ph)), HB(taz)(pz)(2)}; the heteroscorpionate rhodaboratrane [Rh{B(taz)(2)(pz(Me2))}{HB(taz)(2)(pz(Me2))}] is the only isolable product from the reaction of [{Rh(nbd)(μ-Cl)}(2)] with K[HB(taz)(2)(pz(Me2))]. Carbonylation of the cod complexes gave a mixture of [Rh(CO)(2)Tx] and [(RhTx)(2)(μ-CO)(3)] which reacts with PR(3) to give [Rh(CO)(PR(3))Tx] (R = Cy, NMe(2), Ph, OPh). In the solid state the complexes are square planar with the particular structure dependent on the steric and/or electronic properties of the scorpionate and ancillary ligands. The complex [Rh(cod){HB(taz)(pz)(2)}] has the heteroscorpionate κ(2)[N(2)]-coordinated to rhodium with the B-H bond directed away from the rhodium square plane while [Rh(cod){HB(taz)(2)(pz(Me2))}] is κ(2)[SN]-coordinated, with the B-H bond directed towards the metal. The complexes [Rh(CO)(PPh(3)){HB(taz)(2)(pz)}] and [Rh(CO)(PPh(3)){HB(taz)(2)(pz(Me2))}] are also κ(2)[SN]-coordinated but with the pyrazolyl ring cis to PPh(3); in the former the B-H bond is directed towards rhodium while in the latter the ring is pseudo-parallel to the rhodium square plane, as also found for [Rh(CO)(2){HB(taz)(2)(pz(Me2))}]. The analogues [Rh(CO)(PR(3)){HB(taz)(2)(pz(Me2))}] (R = Cy, NMe(2)) have the phosphines trans to the pyrazolyl ring. Uniquely, [Rh(CO)(PPh(3)){HB(taz)(2)(pz(Ph))}] is κ(2)[S(2)]-coordinated. A qualitative mechanism is given for the rapid ring-exchange, and hence isomerisation, observed in solution.     

Phonon dynamics and electron-phonon coupling in pristine picene

The paper reports a complete analysis of the phonon structure of crystalline picene, a recently announced organic semiconductor. Both lattice and intramolecular vibrations are investigated. An exhaustive assignment of lattice phonons is obtained through polarized Raman spectra assisted by lattice dynamics calculations based on a well tested atom-atom potential model. Raman, infrared spectra and density functional (DFT) calculations are used for the characterization of intramolecular modes. Coupling between low-frequency molecular vibrations and lattice phonons is accounted for. Molecule-to-molecule transfer integrals, as well as the Peierls and Holstein (non-local and local) coupling constants, are evaluated through the semiempirical method INDO/S (Intermediate Neglect of Differential Overlap with Spectroscopic parametrization).     

Voltammetric Detection of Free Sulfhydryl Compounds in Food Flours

Cyclic voltammetry has been applied to the rapid measurement of free SH‐compounds in food flours samples. The protocol is based on the electrochemical adaptation of the Ellman's test, where the DTNB reacts with SH‐compounds present in food flour extracts, resulting in the equimolar production of the electroactive compound TNBA which, in turns, reacts with phenylendiamine. The reaction is found to provide an analytical signal from which to quantify indirectly free sulfhydryl compounds in flours extracts.     

Aggregation induced colour change for phosphorescent iridium(III) complex-based anionic surfactants

We describe a new class of water soluble metallosurfactant molecules based on luminescent neutral iridium(III) complexes. The compounds possess an alkyl chain terminated with a negatively charged group, a sulphate. Due to their amphiphilic nature they assemble in aggregates in water and their photophysical properties, as well as the morphological characterization of the assemblies are presented. In particular, UV-Vis absorption, steady-state and time-resolved emission spectroscopy, dynamic light scattering and scanning electron microscopy techniques have been employed towards the analysis of the assemblies in different media. Comparison with the single components shows that the aggregates have very different photophysical properties. Importantly, the change in colour upon self-assembly is a remarkable feature which could be used for the design of probes which can change properties in different environments.     

Aryl‐Phosphonate Lanthanide Complexes and Their Fluorinated Derivatives: Investigation of Their Unusual Relaxometric Behavior and Potential Application as Dual Frequency 1H/19F MRI Probes

A series of low molecular weight lanthanide complexes were developed that have high ¹H longitudinal relaxivities (r₁) and the potential to be used as dual frequency ¹H and ¹⁹F MR probes. Their behavior was investigated in more detail through relaxometry, pH‐potentiometry, luminescence, and multinuclear NMR spectroscopy. Fitting of the ¹H NMRD and ¹⁷O NMR profiles demonstrated a very short water residence lifetime (<10 ns) and an appreciable second sphere effect. At lower field strengths (20 MHz), two of the complexes displayed a peak in r₁ (21.7 and 16.3 mM ^?1 s^?1) caused by an agglomeration, that can be disrupted through the addition of phosphate anions. NMR spectroscopy revealed that at least two species are present in solution interconverting through an intramolecular binding process. Two complexes provided a suitable signal in ¹⁹F NMR spectroscopy and through the selection of optimized imaging parameters, phantom images were obtained in a MRI scanner at concentrations as low as 1 mM . The developed probes could be visualized through both ¹H and ¹⁹F MRI, showing their capability to function as dual frequency MRI contrast agents.