As an experimental test of the theoretical prediction that heavy-atom tunneling is involved in the degenerate Cope rearrangement of semibullvalenes at cryogenic temperatures, monodeuterated 1,5-dimethylsemibullvalene isotopomers were prepared and investigated by IR spectroscopy using the matrix isolation technique. As predicted, the less thermodynamically stable isotopomer rearranges at cryogenic temperatures in the dark to the more stable one, while broadband IR irradiation above 2000 cm results in an equilibration of the isotopomeric ratio. Since this reaction proceeds with a rate constant in the order of 10 s despite an experimental barrier of E =4.8 kcal mol and with only a shallow temperature dependence, the results are interpreted in terms of heavy-atom tunneling.

Triplet carbenes react with molecular oxygen with rates that approach diffusion control to carbonyl O-oxides, whereas triplet nitrenes react much slower. For investigating the reaction of phenylnitrene with O2, the nitrene was generated by flash vacuum thermolysis (FVT) of phenylazide and subsequently isolated in O2-doped matrices. FVT of the azide produces the nitrene in high yield and with only minor contaminations of the rearranged products that are frequently observed if the nitrene is produced by photolysis. The phenylnitrene was isolated in solid Ar, Xe, mixtures of these rare gases with O2, and even in pure solid O2. At temperatures between 30 and 35 K an extremely slow thermal reaction between the nitrene and O2 was observed, whereas at higher temperatures, solid Ar and O2 rapidly evaporate. Only O2-doped Xe matrices allowed us to anneal at temperatures above 40 K, and at these temperatures, the nitrene reacts with O2 to produce nitroso O-oxide mainly in its syn conformation. Upon visible light irradiation (450 nm), the nitroso oxide rapidly rearranges to nitrobenzene.

Virtual screening of protein–protein and protein–peptide interactions is a challenging task that directly impacts the processes of hit identification and hit-to-lead optimization in drug design projects involving peptide-based pharmaceuticals. Although several screening tools designed to predict the binding affinity of protein–protein complexes have been proposed, methods specifically developed to predict protein–peptide binding affinity are comparatively scarce. Frequently, predictors trained to score the affinity of small molecules are used for peptides indistinctively, despite the larger complexity and heterogeneity of interactions rendered by peptide binders. To address this issue, we introduce PPI-Affinity, a tool that leverages support vector machine (SVM) predictors of binding affinity to screen datasets of protein–protein and protein–peptide complexes, as well as to generate and rank mutants of a given structure. The performance of the SVM models was assessed on four benchmark datasets, which include protein–protein and protein–peptide binding affinity data. In addition, we evaluated our model on a set of mutants of EPI-X4, an endogenous peptide inhibitor of the chemokine receptor CXCR4, and on complexes of the serine proteases HTRA1 and HTRA3 with peptides. PPI-Affinity is freely accessible at .

5-Methoxy-2H-benzazirine was prepared via irradiation of the corresponding phenyl azide, isolated in an argon matrix at cryogenic temperatures. It undergoes ring expansion to the corresponding ketenimine in the dark at T < 30 K despite a calculated activation barrier of 4.9 kcal mol–1 [B3LYP/6-311++G­(d,p)]. Since this rearrangement proceeds with a rate constant in the order of 10–4 s–1, exhibiting only a shallow temperature dependence, the results are interpreted in terms of heavy-atom tunneling. Of the four isomeric benzazirines resulting from the initial photolysis, only one can be observed to rearrange; this conformer specificity is explained by the other potentially observable rearrangements being either too fast or too slow to be detected due to the differences in heights and widths of their respective activation barriers.

Survivin’s dual function as apoptosis inhibitor and regulator of cell proliferation is mediated via its interaction with the export receptor CRM1. This protein–protein interaction represents an attractive target in cancer research and therapy. Here, we report a sophisticated strategy addressing Survivin’s nuclear export signal (NES), the binding site of CRM1, with advanced supramolecular tweezers for lysine and arginine. These were covalently connected to small peptides resembling the natural, self-complementary dimer interface which largely overlaps with the NES. Several biochemical methods demonstrated sequence-selective NES recognition and interference with the critical receptor interaction. These data were strongly supported by molecular dynamics simulations and multiscale computational studies. Rational design of lysine tweezers equipped with a peptidic recognition element thus allowed to address a previously unapproachable protein surface area. As an experimental proof-of-principle for specific transport signal interference, this concept should be transferable to any protein epitope with a flanking well-accessible lysine.