ArticleStructure (London, England : 1993)2024
A suite of designed protein cages using machine learning and protein fragment-based protocols.
Article in Structure (London, England : 1993), 2024. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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16 citing papers in PubMed.
- Tools For Building Artificial Biological Nanostructures.ACS nano · 2026Review
- Computational redesign and directed evolution of a lanthanide-dependent photoredox enzyme for enantioselective diol cleavage.Chemical science · 2026Article
- Unraveling the maturation pathway of a eukaryotic virus through cryo-EM.Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Self-assembling protein cages: from coiled-coil module to machine learning-drivenMaterials advances · 2026Review
- Protein engineering: status report.Protein engineering, design & selection : PEDS · 2026Review
- De novo design of protein nanoparticles with integrated functional motifs.bioRxiv : the preprint server for biology · 2026Article
- Protein engineering strategies to optimise recombinant product synthesis and accumulation in Nicotiana benthamiana.Plant biotechnology journal · 2026Review
- There and back again: a cell biologist's journey from organelles to molecules.Biological chemistry · 2025Review
- From sequence to scaffold: Computational design of protein nanoparticle vaccines from AlphaFold2-predicted building blocks.Proceedings of the National Academy of Sciences of the United States of America · 2025Article
- Computational design of bifaceted protein nanomaterials.Nature materials · 2025Article
- Recent Advances, Challenges, and Functional Applications of Protein Chemical Modification in the Food Industry.Foods (Basel, Switzerland) · 2025Review
- Exploring Use of a Protein Cage System for Producing Bioactive Peptides in Escherichia coli.Microbial biotechnology · 2025Article
- Article
- Design of a symmetry-broken tetrahedral protein cage by a method of internal steric occlusion.Protein science : a publication of the Protein Society · 2024Article
- Designed fluorescent protein cages as fiducial markers for targeted cell imaging.bioRxiv : the preprint server for biology · 2024Article
- Design of a symmetry-broken tetrahedral protein cage by a method of internal steric occlusion.bioRxiv : the preprint server for biology · 2023Article
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8 authors.
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Abstract
Designed protein cages and related materials provide unique opportunities for applications in biotechnology and medicine, but their creation remains challenging. Here, we apply computational approaches to design a suite of tetrahedrally symmetric, self-assembling protein cages. For the generation of docked conformations, we emphasize a protein fragment-based approach, while for sequence design of the de novo interface, a comparison of knowledge-based and machine learning protocols highlights the power and increased experimental success achieved using ProteinMPNN. An analysis of design outcomes provides insights for improving interface design protocols, including prioritizing fragment-based motifs, balancing interface hydrophobicity and polarity, and identifying preferred polar contact patterns. In all, we report five structures for seven protein cages, along with two structures of intermediate assemblies, with the highest resolution reaching 2.0 Å using cryo-EM. This set of designed cages adds substantially to the body of available protein nanoparticles, and to methodologies for their creation.
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