Статья

Disordered residues and patterns in the protein data bank

M. Lobanov, I. Likhachev, O. Galzitskaya,
2021

We created a new library of disordered patterns and disordered residues in the Protein Data Bank (PDB). To obtain such datasets, we clustered the PDB and obtained the groups of chains with different identities and marked disordered residues. We elaborated a new procedure for finding disordered patterns and created a new version of the library. This library includes three sets of patterns: unique patterns, patterns consisting of two kinds of amino acids, and homo-repeats. Using this database, the user can: (1) find homologues in the entire Protein Data Bank; (2) perform a statistical analysis of disordered residues in protein structures; (3) search for disordered patterns and homo-repeats; (4) search for disordered regions in different chains of the same protein; (5) download clusters of protein chains with different identity from our database and library of disordered patterns; and (6) observe 3D structure interactively using MView. A new library of disordered patterns will help improve the accuracy of predictions for residues that will be structured or unstructured in a given region. © 2020 by the authors. Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (http://creativecommons.org/licenses/by/4.0/).

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Версии

  • 1. Version of Record от 2021-04-27

Метаданные

Об авторах
  • M. Lobanov
    Institute of Protein Research, Russian Academy of Sciences, Pushchino, Moscow, 142290, Russian Federation
  • I. Likhachev
    Institute of Mathematical Problems of Biology, Keldysh Institute of Applied Mathematics, Russian Academy of Sciences, Vitkevicha str.1, Pushchino, Moscow, 142290, Russian Federation
  • O. Galzitskaya
    Institute of Theoretical and Experimental Biophysics, Russian Academy of Sciences, Pushchino, Moscow, 142290, Russian Federation
Название журнала
  • Molecules
Том
  • 25
Выпуск
  • 7
Страницы
  • -
Ключевые слова
  • amino acid; intrinsically disordered protein; proteome; amino acid repeat; amino acid sequence; chemistry; cluster analysis; protein conformation; protein database; protein domain; protein folding; protein tertiary structure; X ray crystallography; Amino Acid Sequence; Amino Acids; Cluster Analysis; Crystallography, X-Ray; Databases, Protein; Intrinsically Disordered Proteins; Protein Conformation; Protein Domains; Protein Folding; Protein Structure, Tertiary; Proteome; Repetitive Sequences, Amino Acid
Издатель
  • MDPI AG
Тип документа
  • journal article
Тип лицензии Creative Commons
  • CC
Правовой статус документа
  • Свободная лицензия
Источник
  • scopus