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Browsing by Author "Li, Zhao"

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    Regulating the Biomedical and Biocatalytic Properties of Amphiphilic Self-assembling Peptides via Supramolecular Nanostructures
    Li, Zhao (Virginia Tech, 2023-08-28)
    Self-assembly is a fundamental process in the field of nanotechnology, where molecules organize into complex structures spontaneously or induced by environmental factors. Peptides, short chains of amino acids, can self-assemble into many types of nanostructures. The self-assembly of peptides is governed by noncovalent interactions, including electrostatic interactions, hydrogen bonding, hydrophobic interactions, aromatic-aromatic interactions, and van der Waals forces. By varying the amino acid sequences and manipulating environmental parameters, these interactions can be modulated to obtain diverse supramolecular nanostructures, exhibiting a wide range of physical, chemical, and biological properties. Furthermore, the ability to control these properties opens up a world of possibilities in biomedical and biocatalytic applications. From drug delivery systems to enzyme mimics, as well as cancer treatments, the potential of these self-assembling peptides is vast and continues to be a vibrant area of research. Exploiting this potential, this dissertation delves into the design, synthesis, and investigation of self-assembling peptides for a range of applications. The introductory chapters of this document lay the groundwork, providing a comprehensive overview of self-assembly and its potential in biocatalytic and biomedical domains. The focus shifts in the later chapters to drug delivery applications, particularly in the delivery of hydrogen sulfide (H2S), and its implications in cardioprotection and cancer treatment. Finally, this document details an evaluation of self-assembled peptides in the context of biocatalysis using a combined experimental and computational approach. Chapter 3 discusses the design and synthesis of peptide-H2S donor conjugates (PHDCs) with an unusual adamantyl group. Several of PHDCs studied in this chapter self-assembled into novel nanocrescent structures observed under both conventional transmission microscopy (TEM) and cryogenic TEM (cryo-TEM). By varying the C-terminal amino acid with cationic, nonionic, or anionic amino acids, the PHDC morphologies remained unaffected, offering a robust peptide design for crescent-shaped supramolecular nanostructures. Chapter 4 discusses an extension of this project, introducing a cyclohexane in PHDCs instead of an adamantyl group. In this work, we designed and fabricated four constitutional isomeric PHDCs, which self-assembled into nanoribbons with different dimensions and large nanobelts. These morphologies exhibited varying cellular uptake and in vitro H2S release amounts, influencing their protective effects against oxidative stress induced by H2O2. With the knowledge of the impact of subtle changes in PHDC structures, Chapter 5 discusses our further design of three more PHDCs with the variation of side chain capping group, from an aromatic phenyl ring to a cyclohexane unit, to an aliphatic n-hexyl chain. In this chapter, we studied how changes in the hydrocarbon tail can influence the supramolecular nanostructures and their potential ability for colon cancer treatment. A final aspect of H2S delivery in Chapter 6 involves the creation of a stable PHDC with an extended H2S release profile. By integrating the H2S donor into a β-sheet forming peptide sequence with a Newkome-like poly(ethylene glycol) dendron, this PHDC self-assembles into spherical or fibril nanostructures with or without stirring. The H2S release was further studied by triggering release with various charged thiol molecules. Finally, another facet of this document focuses on three constitutional isomeric tetrapeptides containing a catalytic functional amino acid, His. Chapter 7 discusses these tetrapeptides, which self-assembled into nanocoils, nanotoroids, and nanoribbons based on the position of the His residue in the peptide sequence. Computational studies simulating the self-assembling process revealed the distribution of His residues and hydrophobic pockets, reminiscent of natural enzyme binding sites. A tight spatial distribution of His residues and hydrophobic pocket in nanocoils provided a picture for why this morphology exhibited the highest rate enhancement in catalyzing a model ester hydrolysis reaction. This study demonstrated how subtle molecular-level changes impact supramolecular nanostructures and catalytic efficiency. The final chapter details conclusions on all the research in this dissertation and discusses further directions of self-assembling peptides in the application of drug delivery and design of catalyst mimics.
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    Supramolecular Peptide Nanostructures Regulate Catalytic Efficiency and Selectivity
    Li, Zhao; Joshi, Soumil Y.; Wang, Yin; Deshmukh, Sanket A.; Matson, John B. (Wiley-V C H, 2023-05)
    We report three constitutionally isomeric tetrapeptides, each comprising one glutamic acid (E) residue, one histidine (H) residue, and two lysine (K-S) residues functionalized with side-chain hydrophobic S-aroylthiooxime (SATO) groups. Depending on the order of amino acids, these amphiphilic peptides self-assembled in aqueous solution into different nanostructures:nanoribbons, a mixture of nanotoroids and nanoribbons, or nanocoils. Each nanostructure catalyzed hydrolysis of a model substrate, with the nanocoils exhibiting the greatest rate enhancement and the highest enzymatic efficiency. Coarse-grained molecular dynamics simulations, analyzed with unsupervised machine learning, revealed clusters of H residues in hydrophobic pockets along the outer edge of the nanocoils, providing insight for the observed catalytic rate enhancement. Finally, all three supramolecular nanostructures catalyzed hydrolysis of the l-substrate only when a pair of enantiomeric Boc-l/d-Phe-ONp substrates were tested. This study highlights how subtle molecular-level changes can influence supramolecular nanostructures, and ultimately affect catalytic efficiency.