A Model for the Rapid Assessment of Solution Structures for 24-Atom Macrocycles: The Impact of β‑Branched Amino Acids on Conformation

Experiment and computation are used to develop a model to rapidly predict solution structures of macrocycles sharing the same Murcko framework. These 24-atom triazine macrocycles result from the quantitative dimerization of identical monomers presenting a hydrazine group and an acetal tethered to an...

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Bibliographic Details
Published in:Journal of organic chemistry 2023-03, Vol.88 (5), p.2692-2702
Main Authors: Menke, Alexander J., Gloor, Camryn J., Claton, Liam E., Mekhail, Magy A., Pan, Hongjun, Stewart, Mikaela D., Green, Kayla N., Reibenspies, Joseph H., Pavan, Giovanni M., Capelli, Riccardo, Simanek, Eric E.
Format: Article
Language:English
Subjects:
Amino Acids
Isoleucine
Molecular Conformation
Threonine
Valine
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Summary:Experiment and computation are used to develop a model to rapidly predict solution structures of macrocycles sharing the same Murcko framework. These 24-atom triazine macrocycles result from the quantitative dimerization of identical monomers presenting a hydrazine group and an acetal tethered to an amino acid linker. Monomers comprising glycine and the β-branched amino acids threonine, valine, and isoleucine yield macrocycles G-G, T-T, V-V, and I-I, respectively. Elements common to all members of the framework include the efficiency of macrocyclization (quantitative), the solution- and solid-state structures (folded), the site of protonation (opposite the auxiliary dimethylamine group), the geometry of the hydrazone (E), the C2 symmetry of the subunits (conserved), and the rotamer state adopted. In aggregate, the data reveal metrics predictive of the three-dimensional solution structure that derive from the fingerprint region of the 1D 1H spectrum and a network of rOes from a single resonance. The metrics also afford delineation of more nuanced structural features that allow subpopulations to be identified among the members of the framework. Well-tempered metadynamics provides free energy surfaces and population distributions of these macrocycles. The areas of the free energy surface decrease with increasing steric bulk (G-G > V-V ∼ T-T > I-I). In addition, the surfaces are increasingly isoenergetic with decreasing steric bulk (G-G > V-V ∼ T-T > I-I).
ISSN:0022-3263
1520-6904
DOI:10.1021/acs.joc.2c01984