KnotProt: a database of proteins with knots and slipknots.

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Version: Final published version
Serval ID
serval:BIB_5E3AE35DDBFA
Type
Article: article from journal or magazin.
Collection
Publications
Institution
Title
KnotProt: a database of proteins with knots and slipknots.
Journal
Nucleic Acids Research
Author(s)
Jamroz M., Niemyska W., Rawdon E.J., Stasiak A., Millett K.C., Sulkowski P., Sulkowska J.I.
ISSN
1362-4962 (Electronic)
ISSN-L
0305-1048
Publication state
Published
Issued date
2015
Volume
43
Number
Database issue
Pages
D306-D314
Language
english
Abstract
The protein topology database KnotProt, http://knotprot.cent.uw.edu.pl/, collects information about protein structures with open polypeptide chains forming knots or slipknots. The knotting complexity of the cataloged proteins is presented in the form of a matrix diagram that shows users the knot type of the entire polypeptide chain and of each of its subchains. The pattern visible in the matrix gives the knotting fingerprint of a given protein and permits users to determine, for example, the minimal length of the knotted regions (knot's core size) or the depth of a knot, i.e. how many amino acids can be removed from either end of the cataloged protein structure before converting it from a knot to a different type of knot. In addition, the database presents extensive information about the biological functions, families and fold types of proteins with non-trivial knotting. As an additional feature, the KnotProt database enables users to submit protein or polymer chains and generate their knotting fingerprints.
Keywords
Databases, Protein, Peptides/chemistry, Protein Conformation
Pubmed
Web of science
Open Access
Yes
Create date
14/04/2015 8:54
Last modification date
20/08/2019 14:16
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