ArticleNucleic acids research2017
LinkProt: a database collecting information about biological links.
Article in Nucleic acids research, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 20 papers.
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Who cites it
20 citing papers in PubMed.
- Generating protein hydrogels with customizable stress relaxation behavior via deep learning-driven entanglement design.Nature communications · 2026Article
- Tangled Tail of Mechanically Interlocked Peptides.Journal of the American Chemical Society · 2026Review
- Topological data analysis and topological deep learning beyond persistent homology: a review.Artificial intelligence review · 2026Article
- Link node: A method to characterize the chain topology of intrinsically disordered proteins.Quantitative biology (Beijing, China) · 2025Article
- Theta-curves in proteins.Protein science : a publication of the Protein Society · 2024Article
- Topology-Based Detection and Tracking of Deadlocks Reveal Aging of Active Ring Melts.ACS macro letters · 2024Article
- A tile model of circuit topology for self-entangled biopolymers.Scientific reports · 2023Article
- Lasso Proteins-Unifying Cysteine Knots and Miniproteins.Polymers · 2021Article
- Slipknotted and unknotted monovalent cation-proton antiporters evolved from a common ancestor.PLoS computational biology · 2021Article
- Topoly: Python package to analyze topology of polymers.Briefings in bioinformatics · 2021Article
- Knot_pull-python package for biopolymer smoothing and knot detection.Bioinformatics (Oxford, England) · 2020Article
- Genus for biomolecules.Nucleic acids research · 2020Article
- Defining and detecting links in chromosomes.Scientific reports · 2019Article
- KnotProt 2.0: a database of proteins with knots and other entangled structures.Nucleic acids research · 2019Article
- KnotGenome: a server to analyze entanglements of chromosomes.Nucleic acids research · 2018Article
- To Tie or Not to Tie? That Is the Question.Polymers · 2017Review
- Topological Models for Open-Knotted Protein Chains Using the Concepts of Knotoids and Bonded Knotoids.Polymers · 2017Article
- Article
- Physical Links: defining and detecting inter-chain entanglement.Scientific reports · 2017Article
- Topological knots and links in proteins.Proceedings of the National Academy of Sciences of the United States of America · 2017Article
Corrections and comments
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Authors and funding
6 authors.
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No grant is acknowledged in the PubMed record.
Abstract
Protein chains are known to fold into topologically complex shapes, such as knots, slipknots or complex lassos. This complex topology of the chain can be considered as an additional feature of a protein, separate from secondary and tertiary structures. Moreover, the complex topology can be defined also as one additional structural level. The LinkProt database (http://linkprot.cent.uw.edu.pl) collects and displays information about protein links - topologically non-trivial structures made by up to four chains and complexes of chains (e.g. in capsids). The database presents deterministic links (with loops closed, e.g. by two disulfide bonds), links formed probabilistically and macromolecular links. The structures are classified according to their topology and presented using the minimal surface area method. The database is also equipped with basic tools which allow users to analyze the topology of arbitrary (bio)polymers.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.