A Helquat-like Compound as a Potent Inhibitor of Flaviviral and Coronaviral Polymerases

Positive-sense single-stranded RNA (+RNA) viruses have proven to be important pathogens that are able to threaten and deeply damage modern societies, as illustrated by the ongoing COVID-19 pandemic. Therefore, compounds active against most or many +RNA viruses are urgently needed. Here, we present PR673, a helquat-like compound that is able to inhibit the replication of SARS-CoV-2 and tick-borne encephalitis virus in cell culture. Using in vitro polymerase assays, we demonstrate that PR673 inhibits RNA synthesis by viral RNA-dependent RNA polymerases (RdRps). Our results illustrate that the development of broad-spectrum non-nucleoside inhibitors of RdRps is feasible.

A Peierls Transition in Long Polymethine Molecular Wires: Evolution of Molecular Geometry and Single-Molecule Conductance

Molecules capable of mediating charge transport over several nanometers with minimal decay in conductance have fundamental and technological implications. Polymethine cyanine dyes are fascinating molecular wires because up to a critical length, they have no bond-length alternation (BLA) and their electronic structure resembles a one-dimensional free-electron gas. Beyond this threshold, they undergo a symmetry-breaking Peierls transition, which increases the HOMO-LUMO gap. We have investigated cationic cyanines with central polymethine chains of 5-13 carbon atoms (Cy3⁺-Cy11⁺). The absorption spectra and crystal structures show that symmetry breaking is sensitive to the polarity of the medium and the size of the counterion. X-ray crystallography reveals that Cy9·PF₆ and Cy11·B(C₆F₅)₄ are Peierls distorted, with high BLA at one end of the π-system, away from the partially delocalized positive charge. This pattern of BLA distribution resembles that of solitons in polyacetylene. The single-molecule conductance is essentially independent of molecular length for the polymethine salts of Cy3⁺-Cy11⁺ with the large B(C₆F₅)₄^- counterion, but with the PF₆^- counterion, the conductance decreases for the longer molecules, Cy7⁺-Cy11⁺, because this smaller anion polarizes the π-system, inducing a symmetry-breaking transition. At higher bias (0.9 V), the conductance of the shorter chains, Cy3⁺-Cy7⁺, increases with length (negative attenuation factor, β = -1.6 nm^-1), but the conductance still drops in Cy9⁺ and Cy11⁺ with the small polarizing PF₆^- counteranion.

Allosteric Cooperativity and Template-Directed Synthesis with Stacked Ligands in Porphyrin Nanorings

The link between allosteric cooperativity and template-directed synthesis has been investigated by studying complexes in which two oligopyridine ligands bind inside a zinc porphyrin nanoring in a stacked arrangement. The binding of a 6-porphyrin nanoring to two tridentate ligands (with s-triazine or benzene cores) occurs with high negative allosteric cooperativity (α ≈ 10^-3-10^-4). Formation constants for 1:1 and 1:2 complexes were determined by UV-vis-NIR denaturation titration, using pyridine as a competing ligand, and cooperativity factors were confirmed by NMR spectroscopy. The rate constants for formation of the 1:1 and 1:2 complexes are approximately equal, and the negative cooperativity can be attributed to faster dissociation of the 1:2 complex. These tridentate ligands are not effective templates for directing the synthesis of the 6-porphyrin nanoring, in keeping with their negative cooperativity of binding. In contrast, the binding of a 12-porphyrin nanoring to two hexadentate ligands occurs with high positive allosteric cooperativity (α > 40), and the ligand is an effective Vernier template for directing the synthesis of the 12-porphyrin nanoring. This stacked Vernier template approach creates the product in an open circular conformation, which is advantageous for preparing macrocycles that do not easily adopt a figure-of-eight geometry.

Global Aromaticity and Antiaromaticity in Porphyrin Nanoring Anions

Doping, through oxidation or reduction, is often used to modify the properties of π-conjugated oligomers. In most cases, the resulting charge distribution is difficult to determine. If the oligomer is cyclic and doping establishes global aromaticity or antiaromaticity, then it is certain that the charge is fully delocalized over the entire perimeter of the ring. Herein we show that reduction of a six-porphyrin nanoring using decamethylcobaltocene results in global aromaticity (in the 6- state; [90 π]) and antiaromaticity (in the 4- state; [88 π]), consistent with the Hückel rules. Aromaticity is assigned by NMR spectroscopy and density-functional theory calculations.

Tuning the Circumference of Six-Porphyrin Nanorings

Most macrocycles are made from a simple repeat unit, resulting in high symmetry. Breaking this symmetry allows fine-tuning of the circumference, providing better control of the host–guest behavior and electronic structure. Here, we present the template-directed synthesis of two unsymmetrical cyclic porphyrin hexamers with both ethyne (C2) and butadiyne (C4) links, and we compare these nanorings with the symmetrical analogues with six ethyne or six butadiyne links. Inserting two extra carbon atoms into the smaller nanoring causes a spectacular change in binding behavior: the template affinity increases by a factor of 3 × 10⁹, to a value of ca. 10³⁸ M^–1, and the mean effective molarity is ca. 830 M. In contrast, removing two carbon atoms from the largest nanoring results in almost no change in its template-affinity. The strain in these nanorings is 90–130 kJ mol^–1, as estimated both from DFT calculation of homodesmotic reactions and from comparing template affinities of linear and cyclic oligomers. Breaking the symmetry has little effect on the absorption and fluorescence behavior of the nanorings: the low radiative rates that are characteristic of a circular delocalized S₁ excited state are preserved in the low-symmetry macrocycles.

Single-Acetylene Linked Porphyrin Nanorings

The synthesis of ethyne-linked porphyrin nanorings has been achieved by template-directed Sonogashira coupling. The cyclic hexamer and octamer are predicted by density functional theory to adopt low symmetry conformations, due to dihedral twists between neighboring porphyrin units, but their symmetries are effectively D_6h and D_8h, respectively, in solution by ¹H NMR. The fluorescence spectra indicate that the singlet excited states of these nanorings are highly delocalized.

Effects of ethanol and tertiary-butanol on energy expenditure and substrate utilization in the rat

The acute effects of ethanol and tertiary-butanol, an alcohol which is not metabolized via the alcohol dehydrogenase pathway, on whole body metabolism were studied using indirect calorimetry. Ethanol, but not t-butanol, increased energy expenditure in food-deprived rats. Both ethanol and t-butanol reduced respiratory quotient (RQ), an index of overall body energy substrate utilization. The lowered RQ indicates an increased dependence upon lipids as an energy source. Taken together, these data suggest that ethanol, probably within a narrow dose range, can enhance energy expenditure in the rat, either via a metabolite (e.g., acetaldehyde) or through a consequence of its oxidation. The increase in lipid mobilization seen after acute treatment with ethanol, on the other hand, appears to be independent of its oxidation.

Hypothalamic modulation of thermogenesis and energy substrate utilization

The metabolic effects of electrical stimulation of the hypothalamus were investigated using indirect calorimetry. Stimulation of either the ventromedial hypothalamic nucleus (VMH) or the lateral hypothalamic area (LH) increased both respiratory quotient (RQ) and energy expenditure (EE) in 23 lightly anesthetized rats. The use of a muscle relaxant to reduce motor activity and a regression analysis on the residual activity showed that the metabolic changes were independent of motor activity following LH stimulation. The increased RQ indicates that stimulation increased the dependence on carbohydrates as an energy substrate. The increased EE indicates that the LH modulates EE by mediating thermogenesis. The interpretation of the metabolic changes in RQ and EE following VMH stimulation is complicated by the fact that there were significant relationships between residual activity and metabolic changes in the sedated rats with VMH electrodes. Together, these data suggest that the hypothalamus regulates body weight by controlling energy expenditure, as well as energy intake. At the same time, hypothalamic activity influences which substrate the rat uses for energy.