ArticleQuantitative biology (Beijing, China)2025
Link node: A method to characterize the chain topology of intrinsically disordered proteins.
Article in Quantitative biology (Beijing, China), 2025. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 4 papers.
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4 citing papers in PubMed.
- Topological Entanglement in Intrinsically Disordered Proteins: Sequence, Structural, and Functional Determinants.The journal of physical chemistry. B · 2026Article
- Martini 3 as a Transferable Force Field for Lipopolysaccharide Parametrization.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
- Link node: A method to characterize the chain topology of intrinsically disordered proteins.Quantitative biology (Beijing, China) · 2025Article
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5 authors.
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Abstract
Intrinsically disordered proteins (IDP) are highly dynamic, and the effective characterization of IDP conformations is still a challenge. Here, we analyze the chain topology of IDPs and focus on the physical link of the IDP chain, that is, the entanglement between two segments along the IDP chain. The Gauss linking number of two segments throughout the IDP chain is systematically calculated to analyze the physical link. The crossing points of physical links are identified and denoted as link nodes. We notice that the residues involved in link nodes tend to have lower root mean square fluctuation (RMSF), that is, the entanglement of the IDP chain may affect its conformation fluctuation. Moreover, the evolution of the physical link is considerably slow with a timescale of hundreds of nanoseconds. The essential conformation evolution may be depicted on the basis of chain topology.
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