KnotProt 2.0: a database of proteins with knots and other entangled structures.

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Version: Final published version
License: CC BY 4.0
Serval ID
serval:BIB_CACEFF8F3AA5
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
KnotProt 2.0: a database of proteins with knots and other entangled structures.
Journal
Nucleic acids research
Author(s)
Dabrowski-Tumanski P., Rubach P., Goundaroulis D., Dorier J., Sulkowski P., Millett K.C., Rawdon E.J., Stasiak A., Sulkowska J.I.
ISSN
1362-4962 (Electronic)
ISSN-L
0305-1048
Publication state
Published
Issued date
08/01/2019
Peer-reviewed
Oui
Volume
47
Number
D1
Pages
D367-D375
Language
english
Notes
Publication types: Journal Article ; Research Support, Non-U.S. Gov't
Publication Status: ppublish
Abstract
The KnotProt 2.0 database (the updated version of the KnotProt database) collects information about proteins which form knots and other entangled structures. New features in KnotProt 2.0 include the characterization of both probabilistic and deterministic entanglements which can be formed by disulfide bonds and interactions via ions, a refined characterization of entanglement in terms of knotoids, the identification of the so-called cysteine knots, the possibility to analyze all or a non-redundant set of proteins, and various technical updates. The KnotProt 2.0 database classifies all entangled proteins, represents their complexity in the form of a knotting fingerprint, and presents many biological and geometrical statistics based on these results. Currently the database contains >2000 entangled structures, and it regularly self-updates based on proteins deposited in the Protein Data Bank (PDB).
Keywords
Algorithms, Animals, Cysteine/chemistry, Cystine/chemistry, Data Management, Databases, Protein, Humans, Ions/chemistry, Models, Molecular, Probability, Protein Conformation, Protein Folding, User-Computer Interface
Pubmed
Web of science
Open Access
Yes
Create date
11/04/2019 10:27
Last modification date
26/06/2020 5:21
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