LinkProt: a database collecting information about biological links

Nucleic Acids Res. 2017 Jan 4;45(D1):D243-D249. doi: 10.1093/nar/gkw976. Epub 2016 Oct 28.


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 ( 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.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Biopolymers
  • Computational Biology / methods*
  • Databases, Protein*
  • Software*
  • Structure-Activity Relationship
  • Web Browser


  • Biopolymers