Structural Convergence Among Diverse, Toxic β-Sheet Ion Channels

Recent studies show that an array of β-sheet peptides, including N-terminally truncated Aβ peptides (Aβ_{11−42/17−42}), K3 (a β₂-microglobulin fragment), and protegrin-1 (PG-1) peptides form ion channel-like structures and elicit single channel ion conductance when reconstituted in lipid bilayers and induce cell damage through cell calcium overload. Striking similarities are observed in the dimensions of these toxic channels irrespective of their amino acid sequences. However, the intriguing question of preferred channel sizes is still unresolved. Here, exploiting ssNMR-based, U-shaped, β-strand-turn-β-strand coordinates, we modeled truncated Aβ peptide (p3) channels with different sizes (12- to 36-mer). Molecular dynamics (MD) simulations show that optimal channel sizes of the ion channels presenting toxic ionic flux range between 16- and 24-mer. This observation is in good agreement with channel dimensions imaged by AFM for Aβ₉₋₄₂, K3 fragment, and PG-1 channels and highlights the bilayer-supported preferred toxic β-channel sizes and organization, regardless of the peptide sequence