ArticleScientific reports2022
The protein folding rate and the geometry and topology of the native state.
Article in Scientific reports, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 11 papers.
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Who cites it
11 citing papers in PubMed.
- Topological Entanglement in Intrinsically Disordered Proteins: Sequence, Structural, and Functional Determinants.The journal of physical chemistry. B · 2026Article
- Topological Entanglement in Intrinsically Disordered Proteins: Sequence, Structural, and Functional Determinants.bioRxiv : the preprint server for biology · 2026Article
- Topological metrics as evolutionary and dynamical descriptors of conformational landscapes within protein families.PLoS computational biology · 2026Article
- "Shape is everything: on proteins' functions": Author.Biology & philosophy · 2026Article
- Geometry based prediction of tau protein sites and motifs associated with misfolding and aggregation.Scientific reports · 2025Article
- Multi-scale Jones polynomial and persistent Jones polynomial for knot data analysis.AIMS mathematics · 2025Article
- Folds from fold: Exploring topological isoforms of a single-domain protein.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- Mathematical topology and geometry-based classification of tauopathies.Scientific reports · 2024Article
- Article
- Pathfinder: Protein folding pathway prediction based on conformational sampling.PLoS computational biology · 2023Article
- Article
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Proteins fold in 3-dimensional conformations which are important for their function. Characterizing the global conformation of proteins rigorously and separating secondary structure effects from topological effects is a challenge. New developments in applied knot theory allow to characterize the topological characteristics of proteins (knotted or not). By analyzing a small set of two-state and multi-state proteins with no knots or slipknots, our results show that 95.4% of the analyzed proteins have non-trivial topological characteristics, as reflected by the second Vassiliev measure, and that the logarithm of the experimental protein folding rate depends on both the local geometry and the topology of the protein's native state.
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