System Approach for Building of Calcium-Binding Sites in Proteins

Alexander I. Denesyuk, Sergei E. Permyakov, Mark S. Johnson, Konstantin Denessiouk, Eugene A. Permyakov

Research output: Contribution to journalArticleScientificpeer-review

Abstract

We introduce five new local metal cation (first of all, Ca2+) recognition units in proteins: Clampn,(n-2), Clampn,(n-1), Clampn,n, Clampn,(n+1) and Clampn,(n+2). In these units, the backbone oxygen atom of a residue in position "n" of an amino acid sequence and side-chain oxygen atom of a residue in position "n + i" (i = -2 to +2) directly interact with a metal cation. An analysis of the known "Ca2+-bound niches" in proteins has shown that a system approach based on the simultaneous use of the Clamp units and earlier proposed One-Residue (OR)/Three-Residue (TR) units significantly improves the results of constructing metal cation-binding sites in proteins.
Original languageEnglish
Article number588
JournalBiomolecules
Volume10
Issue number4
DOIs
Publication statusPublished - 2020
MoE publication typeA1 Journal article-refereed

Keywords

  • system approach
  • building kit
  • calcium
  • cation

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