Canonical DNA minor groove insertion of bisbenzamidine-Ru(ii) complexes with chiral selectivity

Molecular dynamics modelling of the interaction of a synthetic zinc-finger miniprotein with DNA

We report the modelling of the DNA complex of an artificial miniprotein composed of two zinc finger modules and an AT-hook linking peptide. The computational study provides for the first time a structural view of these types of complexes, dissecting interactions that are key to modulate their stability. The relevance of these interactions was validated experimentally. These results confirm the potential of this type of computational approach for studying peptide-DNA complexes and suggest that they could be very useful for the rational design of non-natural, DNA binding miniproteins.

Metallointercalators-DNA Tetrahedron Supramolecular Self-Assemblies with Increased Serum Stability

Self-assembly of metallointercalators into DNA nanocages is a rapid and facile approach to synthesize discrete bioinorganic host/guest structures with a high load of metal complexes. Turberfield's DNA tetrahedron can accommodate one intercalator for every two base pairs, which corresponds to 48 metallointercalators per DNA tetrahedron. The affinity of the metallointercalator for the DNA tetrahedron is a function of both the structure of the intercalating ligand and the overall charge of the complex, with a trend in affinity [Ru(bpy)₂(dppz)]²⁺ > [Tb-DOTAm-Phen]³⁺ ≫ Tb-DOTA-Phen. Intercalation of the metal complex stabilizes the DNA tetrahedron, resulting in an increase of its melting temperature and, importantly, a significant increase in its stability in the presence of serum. [Ru(bpy)₂(dppz)]²⁺, which has a greater affinity for DNA than [Tb-DOTAm-Phen]³⁺, increases the melting point and decreases degradation in serum to a greater extent than the Tb^III complex. In the presence of Lipofectamine, the metallointercalator@DNA nanocage assemblies substantially increase the cell uptake of their respective metal complex. Altogether, the facile incorporation of a large number of metal complexes per assembly, the higher stability in serum, and the increased cell penetration of metallointercalator@DNA make these self-assemblies well-suited as metallodrugs.

Autocatalytic photodegradation of [Ru(II)(2,2'-bipyridine)2DAD]+ (DADH = 1,2-dihydroxyanthracene-9,10-dione) by hydrogen peroxide under acidic aqueous conditions

As part of a continuing effort to identify ruthenium agents capable of the photorelease of anthraquinone-based ligands the complexes Δ/Λ-[Ru(bpy)2DAD]+ (bpy = 2,2'-bipyridine) were produced by the reaction of 1,2-dihydroxyanthracene-9,10-dione (DADH) with chirally pure Δ/Λ-[Ru(bpy)2(py)2][(+)-O,O'-dibenzoyl-d-tartrate]·12H2O (py = pyridine). A very subtle difference in the chemical shift of the hydroxyl proton in their high-field 1H NMR spectra was observed, supporting that the OH proton is susceptible to a small change in environment at the metal centre. The excited state lifetime of the complexes, as measured by femtosecond pump-probe spectroscopy, was 7.1 (±0.8) ps in water (pH 2) and 13 (±1) ps in MeCN. Illumination of a sample of Λ-[Ru(bpy)2DAD]+ in water (pH 2) in the presence of hydrogen peroxide resulted in decomposition of the complex. The decay profile, as monitored at several wavelengths, was sigmoidal indicating the reaction was autocatalytic, in which the product formed catalysed decomposition of the starting complex. A mechanism is proposed that relies on participation of the uncoordinated hydroxyl group on the anthraquinone ligand in promoting water loss and radical formation in the excited state. The radical is oxidised by peroxide to generate the ruthenium(iii) complex, which behaves as an oxidant in the autocatalytic process.

Chiral molecular imprinted sensor for highly selective determination of D-carnitine in enantiomers via dsDNA-assisted conformation immobilization

In this paper, a novel approach was established on the basis of a molecularly imprinted technique with the aid of double-stranded deoxyribonucleic acid (dsDNA) embedded in a molecularly imprinted polymer (MIP) membrane as a new functional unit with chiral recognition for highly specific chiral recognition. The chiral molecules were immobilized and anchored in the cavities of the MIP membrane on the basis of the three-dimensional structure of a molecule determined by the functional groups, spatial characterization of the cavities of MIPs, and the spatial orientation with dsDNA embedded in MIPs. D-carnitine was selected as an example of a chiral molecular template, which intercalated into dsDNA immobilized on the gold electrode surface to form dsDNA-D-carnitine complex, and then the complex was embedded in the MIP during electropolymerization. After elution, the stereo-selective cavities were obtained. Our findings have shown that AAAA-TTTT base sequence had high affinity for D-carnitine intercalation. Combined with the electrochemical detection method, MIP sensor was prepared. The selectivity of the MIP sensor to ultratrace D-carnitine was significantly improved; the sensor had remarkable stereo-selectivity and highly chiral specific recognition to D-carnitine, and L-carnitine with a concentration of 10,000 times D-carnitine did not interfere with the detection of D-carnitine in the assay of raceme. The sensor also exhibited high sensitivity to ultratrace D-carnitine determination with a linear response to the concentration of D-carnitine in the range of 3.0 × 10^-16 mol/L to 4.0 × 10^-13 mol/L, with a detection limit of 2.24 × 10^-16 mol/L. The mechanism of chiral recognition was studied, and result showed that apart from the recognition effect of imprinted cavities, dsDNA provided chiral selectivity to the spatial orientation of chiral molecules via the intercalation of chiral molecules with dsDNA and electrostatic interaction with groups of DNA base.