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De novo design of metal-oxide templating proteins
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Top 1% · Validated by QED

De novo design of metal-oxide templating proteins

Amijai Saragovi, Harley Pyles, Timothy F. Huddy +20 more
November 2025
 ·
bioRxiv
 ·
DOI 
10.1101/2024.06.24.600095
94
%
Reproducible
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This paper passed independent validation.
QED's automated review checked the evidence supporting each claim, the statistical methods, and whether the results are reproducible from the data provided.

It ranks in the top 1% of preprints assessed in Synthetic Biology this quarter.
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Why this is interesting

By designing proteins that template zinc oxide and hematite—semiconductors entirely absent from biology—this work dismantles the boundary between protein engineering and inorganic materials science, unlocking programmable protein-semiconductor hybrids for biosensing, bioelectronics, and catalysis.

QED claims analysis

Summary

De novo designed proteins presenting systematically engineered interfaces can bind to and template the heterogeneous nucleation of metal-oxide semiconductors (ZnO and hematite) not found in biological systems, with functional interfaces operating through metal ion coordination or water-structuring mechanisms that can be transferred across protein scaffolds and spatially confined within designed protein assemblies to direct localized materials growth at atomic resolution.

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Main Claim 1 –

Yeast Display Screens Identify Designed ZnO and Hematite Binders

Supporting evidence

  • Metal-Oxide Binding Uses Ion Coordination and Water Structuring
Main Claim 2 –

Designed Proteins Nucleate ZnO Where Binding Peptides Fail

Supporting evidence

  • Preserved Interface Motifs Transfer ZnO Nucleation Across Scaffolds
  • Protein Assemblies Confine and Spatially Localize ZnO Nucleation
  • Cryo-EM Reveals Interface-Specific ZnO Nucleation with Ordered Solvent
Main Claim 3 –

Designed Proteins Bias Iron Oxide Formation Toward Hematite

Abstract

Protein design now enables the precise arrangement of atoms on the nanometer length scales of inorganic crystal nuclei, opening up the possibility of templating the growth of metal oxides including semiconductors. We designed proteins presenting regularly repeating interfaces containing functional groups that organize ions and water molecules, and characterized their ability to bind to and template metal oxides. Two interfaces promoted the growth of hematite under conditions that otherwise resulted in the formation of magnetite. Three interfaces promoted ZnO nucleation under conditions where traditional ZnO-binding peptides and control proteins were ineffective. Designed cyclic assemblies with these ZnO nucleating interfaces lining interior cavities promoted ZnO growth within the cavity. CryoEM analysis of a designed octahedral nanocage revealed atomic density likely corresponding to the growing ZnO directly adjacent to the designed nucleation promoting interfaces. These findings demonstrate that designed proteins can direct the formation of metal oxides not observed in biological systems, opening the door to protein-semiconductor hybrid materials.

We describe the design of structured protein interfaces that bind to, promote, and localize the growth of zinc oxide and hematite, inorganic materials which are not found in biological systems.

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