ArticleProceedings of the National Academy of Sciences of the United States of America2017
Topological knots and links in proteins.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 41 papers.
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41 citing papers in PubMed.
- Tangled Tail of Mechanically Interlocked Peptides.Journal of the American Chemical Society · 2026Review
- Tightly Knotted Enzymes Inhibit Protein-Protein Aggregation.bioRxiv : the preprint server for biology · 2026Article
- Peptide cages: bioinspired supramolecular architectures for next-generation applications.Chemical science · 2026Review
- Link node: A method to characterize the chain topology of intrinsically disordered proteins.Quantitative biology (Beijing, China) · 2025Article
- Polymers in Physics, Chemistry and Biology: Behavior of Linear Polymers in Fractal Structures.Polymers · 2024Review
- Knotted artifacts in predicted 3D RNA structures.PLoS computational biology · 2024Article
- Evolutionary Khovanov homology.AIMS mathematics · 2024Article
- Geometric learning of knot topology.Soft matter · 2023Article
- Conservation of knotted and slipknotted topology in transmembrane transporters.Biophysical journal · 2023Article
- The SKMT Algorithm: A method for assessing and comparing underlying protein entanglement.PLoS computational biology · 2023Article
- Topological links in predicted protein complex structures reveal limitations of AlphaFold.Communications biology · 2023Article
- Knot Formation on DNA Pushed Inside Chiral Nanochannels.Polymers · 2023Article
- Polar Solomon rings in ferroelectric nanocrystals.Nature communications · 2023Article
- A single-domain green fluorescent protein catenane.Nature communications · 2023Article
- A catenane that is topologically achiral despite being composed of oriented rings.Nature chemistry · 2023Article
- A tile model of circuit topology for self-entangled biopolymers.Scientific reports · 2023Article
- Emergence of zero-field non-synthetic single and interchained antiferromagnetic skyrmions in thin films.Nature communications · 2022Article
- The mechanical cell - the role of force dependencies in synchronising protein interaction networks.Journal of cell science · 2022Review
- Geometric Predictors of Knotted and Linked Arcs.ACS polymers Au · 2022Article
- Peptide/protein-based macrocycles: from biological synthesis to biomedical applications.RSC chemical biology · 2022Review
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2 authors.
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Abstract
Twenty years after their discovery, knots in proteins are now quite well understood. They are believed to be functionally advantageous and provide extra stability to protein chains. In this work, we go one step further and search for links-entangled structures, more complex than knots, which consist of several components. We derive conditions that proteins need to meet to be able to form links. We search through the entire Protein Data Bank and identify several sequentially nonhomologous chains that form a Hopf link and a Solomon link. We relate topological properties of these proteins to their function and stability and show that the link topology is characteristic of eukaryotes only. We also explain how the presence of links affects the folding pathways of proteins. Finally, we define necessary conditions to form Borromean rings in proteins and show that no structure in the Protein Data Bank forms a link of this type.
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