Kinase-Centric Computational Drug Development

Albert J. Kooistra, Andrea Volkamer*

*Corresponding author for this work

Research output: Chapter in Book / Report / Conference proceedingChapterAcademicpeer-review

Abstract

Kinases are among the most studied drug targets in industry and academia, due to their involvement in a majority of cellular processes and, upon dysregulation, in a variety of diseases including cancer, inflammation, and autoimmune disorders. The high interest in this druggable protein family triggered the generation of a large pool of data comprising sequence, structure, bioactivity, and mutation data. Together with this continuously growing amount of available data, comes the need as well as the opportunity to organize, analyze, and utilize this data in order to aid the design of novel, active, and potentially selective kinase inhibitors. In this chapter, we provide a comprehensive overview of kinase-centric data resources and tools that can be utilized for computationally driven kinase research. The contents of all resources are summarized, and all platforms focused on human kinases are discussed in more detail. Furthermore, practical applications from literature and illustrative examples showcasing the aforementioned sources and tools are presented. These applications utilize sequence, structure, and bioactivity data and range from single structure analysis, sequence comparisons, binding site predictions, druggability predictions, and protein–ligand interaction fingerprinting to activity predictions using machine learning methods. Finally, a perspective is given on the unmet needs, potential pitfalls, and current developments in kinase drug design.

Original languageEnglish
Title of host publicationAnnual Reports in Medicinal Chemistry: Platform Technologies in Drug Discovery and Validation
EditorsRobert A. Goodnow Jr
PublisherAcademic Press Inc.
Pages197-236
Number of pages40
Volume50
ISBN (Print)9780128130698
DOIs
Publication statusPublished - 2017

Publication series

NameAnnual Reports in Medicinal Chemistry
Volume50
ISSN (Print)0065-7743

Keywords

  • Activity
  • Binding sites
  • Bioactivity
  • Computational tools
  • Drug design
  • Druggability
  • In silico screening
  • Kinase inhibitors
  • Kinases
  • Kinome
  • Machine learning
  • Polypharmacology
  • Protein–ligand interactions
  • Selectivity
  • Sequence
  • Structure
  • Target assessment

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