Macrocyclic Tetramers-Structural Investigation of Peptide-Peptoid Hybrids.

Outstanding affinity and specificity are the main characteristics of peptides, rendering them interesting compounds for basic and medicinal research. However, their biological applicability is limited due to fast proteolytic degradation. The use of mimetic peptoids overcomes this disadvantage, though they lack stereochemical information at the α-carbon. Hybrids composed of amino acids and peptoid monomers combine the unique properties of both parent classes. Rigidification of the backbone increases the affinity towards various targets. However, only little is known about the spatial structure of such constrained hybrids. The determination of the three-dimensional structure is a key step for the identification of new targets as well as the rational design of bioactive compounds. Herein, we report the synthesis and the structural elucidation of novel tetrameric macrocycles. Measurements were taken in solid and solution states with the help of X-ray scattering and NMR spectroscopy. The investigations made will help to find diverse applications for this new, promising compound class.

Selective excitation enables encoding and measurement of multiple diffusion parameters in a single experiment.

Band selectivity to address specific resonances in a spectrum enables one to encode individual settings for diffusion experiments. In a single experiment, this could include different gradient strengths (enabling coverage of a larger range of diffusion constants), different diffusion delays, or different gradient directions (enabling anisotropic diffusion measurement). In this report, a selective variant of the bipolar pulsed gradient eddy current delay (BPP-LED) experiment, enabling selective encoding of three resonances, was implemented. As proof of principle, the diffusion encoding gradient amplitude was assigned a range dependent on the selected signal, thereby allowing the extraction of the diffusion coefficient for water and a tripeptide (Met-Ala-Ser) with optimal settings in a single experiment.

Configuration determination by residual dipolar couplings: accessing the full conformational space by molecular dynamics with tensorial constraints.

Residual dipolar couplings (RDCs) and other residual anisotropic NMR parameters provide valuable structural information of high quality and quantity, bringing detailed structural models of flexible molecules in solution in reach. The corresponding data interpretation so far is directly or indirectly based on the concept of a molecular alignment tensor, which, however, is ill-defined for flexible molecules. The concept is typically applied to a single or a small set of lowest energy structures, ignoring the effect of vibrational averaging. Here, we introduce an entirely different approach based on time averaged molecular dynamics with dipolar couplings as tensorial orientational restraints that can be used to solve structural problems in molecules of any size without the need of introducing an explicit molecular alignment tensor into the computation. RDC restraints are represented by their full 3D interaction tensor in the laboratory frame, for which pseudo forces are calculated using a secular dipolar Hamiltonian as the target. The resulting rotational averaging of each individual tensorial restraint leads to structural ensembles that best fulfil the experimental data. Using one-bond RDCs, the approach has been implemented in the force field procedures of the program COSMOS and extensively tested. A concise theoretical introduction, including the special treatment of force fields for stable and fast MD simulations, as well as applications regarding configurational analyses of small to medium-sized organic molecules with different degrees of flexibility, is given. The observed results are discussed in detail.

16-Electron pentadienyl- and cyclopentadienyl-ruthenium half-sandwich complexes with bis(imidazol-2-imine) ligands and their use in catalytic transfer hydrogenation.

Bis(η(5)-2,4-dimethylpentadienyl)ruthenium(II), [(η(5)-C7H11)2Ru] (1, "open ruthenocene"), which has become accessible in high yield and large quantities via an isoprene-derived diallyl ruthenium(IV) complex, can be converted into the protonated open ruthenocene 2 by treatment with HBF4 and subsequently into the protonated half-open ruthenocene 3 by reaction with cyclopentadiene. The electronic structure of 3 was studied by DFT methods, revealing that the CH-agostic complex [(η(5)-C5H5)Ru{(1-4η)-C7H12-η(2)-C(5),H(5)}]BF4 (A) represents the global minimum, which is 3.7 kcal mol(−1) lower in energy than the hydride complex [(η(5)-C5H5)RuH(η(5)-C7H11)]BF4 (B). 2 and 3 were treated with the ligands N,N'-bis(1,3,4,5-tetramethylimidazolin-2-ylidene)-1,2-ethanediamine (BL(Me)) and N,N'-bis(1,3-diisopropyl-4,5-dimethylimidazolin-2-ylidene)-1,2-ethanediamine (BL(iPr)) to afford the cationic 16-electron pentadienyl and cyclopentadienyl complexes [(η(5)-C7H11)Ru(BL(R))]BF4 (4a, R = Me; 4b, R = iPr) and [(η(5)-C5H5)Ru(BL(R))]BF4 (5a, R = Me; 5b, R = iPr). All complexes catalyse the transfer hydrogenation of acetophenone in isopropanol, and the most active complex 4a in this reaction was employed for the hydrogenation of a broader range of aliphatic and aromatic ketones.