ArticlePLoS computational biology2010
A Stevedore's protein knot.
Article in PLoS computational biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 79 papers.
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Who cites it
79 citing papers in PubMed.
- Tied to Work: Topologically Knotted SPOUT Methyltransferases and UCH Deubiquitinases in Cellular Biochemistry.Journal of cellular biochemistry · 2026Review
- Tangled Tail of Mechanically Interlocked Peptides.Journal of the American Chemical Society · 2026Review
- Novel Knotted Solenoid fold with order-shifted coil arrangement leads to nontrivial 3Proceedings of the National Academy of Sciences of the United States of America · 2026Article
- Conformational and Structural Characterization of Knotted Proteins.Biochemistry · 2024Article
- Is There a Functional Role for the Knotted Topology in Protein UCH-L1?Journal of chemical information and modeling · 2024Article
- Theta-curves in proteins.Protein science : a publication of the Protein Society · 2024Article
- Conservation of knotted and slipknotted topology in transmembrane transporters.Biophysical journal · 2023Article
- A Marcus-Type Inverted Region in the Translocation Kinetics of a Knotted Protein.The journal of physical chemistry letters · 2023Article
- AlphaFold Blindness to Topological Barriers Affects Its Ability to Correctly Predict Proteins' Topology.Molecules (Basel, Switzerland) · 2023Article
- Folding kinetics of an entangled protein.PLoS computational biology · 2023Article
- Entangled Motifs in Membrane Protein Structures.International journal of molecular sciences · 2023Article
- AlphaFold predicts novel human proteins with knots.Protein science : a publication of the Protein Society · 2023Article
- Can Polymer Helicity Affect Topological Chirality of Polymer Knots?ACS macro letters · 2023Article
- Long-lived metastable knots in polyampholyte chains.PloS one · 2023Article
- Are there double knots in proteins? Prediction andFrontiers in molecular biosciences · 2023Article
- A Note on the Effects of Linear Topology Preservation in Monte Carlo Simulations of Knotted Proteins.International journal of molecular sciences · 2022Article
- AlphaFold predicts the most complex protein knot and composite protein knots.Protein science : a publication of the Protein Society · 2022Article
- Investigation of the structural dynamics of a knotted protein and its unknotted analog using molecular dynamics.Journal of molecular modeling · 2022Article
- Knot formation of dsDNA pushed inside a nanochannel.Scientific reports · 2022Article
- Lasso Proteins-Unifying Cysteine Knots and Miniproteins.Polymers · 2021Article
19 more citing papers are in PubMed but not listed here.
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7 authors.
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Abstract
Protein knots, mostly regarded as intriguing oddities, are gradually being recognized as significant structural motifs. Seven distinctly knotted folds have already been identified. It is by and large unclear how these exceptional structures actually fold, and only recently, experiments and simulations have begun to shed some light on this issue. In checking the new protein structures submitted to the Protein Data Bank, we encountered the most complex and the smallest knots to date: A recently uncovered alpha-haloacid dehalogenase structure contains a knot with six crossings, a so-called Stevedore knot, in a projection onto a plane. The smallest protein knot is present in an as yet unclassified protein fragment that consists of only 92 amino acids. The topological complexity of the Stevedore knot presents a puzzle as to how it could possibly fold. To unravel this enigma, we performed folding simulations with a structure-based coarse-grained model and uncovered a possible mechanism by which the knot forms in a single loop flip.
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