5UGK image
Deposition Date 2017-01-09
Release Date 2017-05-31
Last Version Date 2024-05-15
Entry Detail
PDB ID:
5UGK
Title:
Zinc-Binding Structure of a Catalytic Amyloid from Solid-State NMR Spectroscopy
Biological Source:
Source Organism:
Method Details:
Experimental Method:
Conformers Calculated:
100
Conformers Submitted:
20
Selection Criteria:
structures with the lowest energy
Macromolecular Entities
Polymer Type:polypeptide(L)
Molecule:ILE-HIS-VAL-HIS-LEU-GLN-ILE
Chain IDs:A, B (auth: C), C (auth: E), D (auth: G), E (auth: I), F (auth: K), G (auth: O), H (auth: Q), I (auth: S), J (auth: U), K (auth: W), L (auth: Y)
Chain Length:7
Number of Molecules:12
Biological Source:synthetic construct
Ligand Molecules
Primary Citation
Zinc-binding structure of a catalytic amyloid from solid-state NMR.
Proc. Natl. Acad. Sci. U.S.A. 114 6191 6196 (2017)
PMID: 28566494 DOI: 10.1073/pnas.1706179114

Abstact

Throughout biology, amyloids are key structures in both functional proteins and the end product of pathologic protein misfolding. Amyloids might also represent an early precursor in the evolution of life because of their small molecular size and their ability to self-purify and catalyze chemical reactions. They also provide attractive backbones for advanced materials. When β-strands of an amyloid are arranged parallel and in register, side chains from the same position of each chain align, facilitating metal chelation when the residues are good ligands such as histidine. High-resolution structures of metalloamyloids are needed to understand the molecular bases of metal-amyloid interactions. Here we combine solid-state NMR and structural bioinformatics to determine the structure of a zinc-bound metalloamyloid that catalyzes ester hydrolysis. The peptide forms amphiphilic parallel β-sheets that assemble into stacked bilayers with alternating hydrophobic and polar interfaces. The hydrophobic interface is stabilized by apolar side chains from adjacent sheets, whereas the hydrated polar interface houses the Zn2+-binding histidines with binding geometries unusual in proteins. Each Zn2+ has two bis-coordinated histidine ligands, which bridge adjacent strands to form an infinite metal-ligand chain along the fibril axis. A third histidine completes the protein ligand environment, leaving a free site on the Zn2+ for water activation. This structure defines a class of materials, which we call metal-peptide frameworks. The structure reveals a delicate interplay through which metal ions stabilize the amyloid structure, which in turn shapes the ligand geometry and catalytic reactivity of Zn2.

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