9EEC

X-ray crystallographic structure of a beta-hairpin peptide mimic derived from Abeta 16-36 ORN-LYS-LEU-VAL-H7V-PHE-ALA-GLU-ORN-ALA-ILE-ILE-GLY-LEU-MET-VAL

This is a non-PDB format compatible entry.

Summary for 9EEC

• Entry DOI: 10.2210/pdb9eec/pdb
• Descriptor: ORN-LYS-LEU-VAL-H7V-PHE-ALA-GLU-ORN-ALA-ILE-ILE-GLY-LEU-MET-VAL (2 entities in total)
• Functional Keywords: alzheimer's disease, oligomer, hairpin, hexamer, trimer, de novo protein
• Biological source: Homo sapiens
• Total number of polymer chains: 3
• Total formula weight: 5400.95

Authors

Kreutzer, A.G.,Zhu, J.,Nowick, J.S. (deposition date: 2024-11-18, release date: 2025-04-09, Last modification date: 2025-04-30)

Primary citation

Zhu, J.,Kreutzer, A.G.,Liu, Z.,Li, X.,Richter, S.M.,Pophristic, V.,Nowick, J.S.
A beta-hairpin peptide derived from A beta forms different oligomers in the crystal state and in aqueous solution.
Org.Biomol.Chem., 23:3881-3893, 2025

PubMed Abstract: The supramolecular assembly of amyloid-β into soluble oligomers is critical Alzheimer's disease (AD) progression. Soluble Aβ oligomers have emerged as neurotoxic species involved in AD progression and some Aβ oligomers are thought to be composed of β-hairpins. In this work, we report the X-ray crystallographic and solution-phase assembly of a macrocyclic β-hairpin peptide that mimics a β-hairpin formed by Aβ. In the crystal lattice, the peptide assembles into a symmetric hexamer composed of two identical triangular trimers. In aqueous solution, the peptide assembles to form an asymmetric hexamer. H NMR, TOCSY, and H,N HSQC experiments establish that the asymmetric hexamer contains two different species, A and B. N-edited NOESY reveals that species A is a cylindrin-like trimer and species B is a triangular trimer that collectively constitute the asymmetric hexamer. Diffusion-ordered NMR spectroscopy (DOSY) suggests that two asymmetric hexamers further assemble to form a dodecamer. NMR-guided molecular mechanics and molecular dynamics studies provide a model for the asymmetric hexamer and suggest how two asymmetric hexamers can form a dodecamer. Solution-phase NMR studies of analogues show that intermolecular hydrogen bonding and the formation of a hydrophobic core help stabilize the asymmetric hexamer. These NMR and crystallographic studies illustrate how an Aβ β-hairpin peptide can assemble to form different well-defined oligomers in the crystal state and in aqueous solution, providing a deeper understanding of the heterogeneity of Aβ oligomers and new structural models of Aβ oligomers composed of Aβ β-hairpins.

PubMed: 40130612
DOI: 10.1039/d5ob00296f

Experimental method

X-RAY DIFFRACTION (1.58 Å)