Classification of common functional loops of kinase super-families

Narcis Fernandez-Fuentes, Antoni Hermoso, Jordi Espadaler, Enrique Querol, Frances X. Aviles, Baldomero Oliva

Research output: Contribution to journalArticleResearchpeer-review

18 Citations (Scopus)

Abstract

A structural classification of loops has been obtained from a set of 141 protein structures classified as kinases. A total of 1813 loops was classified into 133 subclasses (9 ββlinks, 15 ββ hairpins, 31 α-α, 46 α-β and 32 β-α). Functional information and specific features relating subclasses and function were included in the classification. Functional loops such as the P-loop (shared by different folds) or the Gly-rich-loop, among others, were classified into structural motifs. As a result, a common mechanism of catalysis and substrate binding was proved for most kinases. Additionally, the multiple-alignment of loop sequences made within each subclass was shown to be useful for comparative modeling of kinase loops. © 2004 Wiley-Liss, Inc.
Original languageEnglish
Pages (from-to)539-555
JournalProteins: Structure, Function and Genetics
Volume56
DOIs
Publication statusPublished - 15 Aug 2004

Keywords

  • Comparative modeling
  • Kinases
  • P-loop
  • Protein-loops classification
  • Protein-motifs

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