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Tytuł: KnotProt : a database of proteins with knots and slipknots
Autor: Jamróz, Michał
Niemyska, Wanda
Rawdon, Eric J.
Stasiak, Andrzej
Millett, Kenneth C.
Sułkowski, Piotr
Sułkowska, Joanna
Słowa kluczowe: Knot Prot Database; Protein Conformation; Peptides; Protein Data Bank
Data wydania: 2015
Źródło: Nucleic Acids Research, Vol. 43, iss. D1 (2015), s. D306-D314
Abstrakt: The protein topology database KnotProt,, 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.
DOI: 10.1093/nar/gku1059
ISSN: 0305-1048
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