Conformational ensembles, signal transduction and residue hot spots: Application to drug discovery

Ozbabacan S. E. , Gursoy A., Keskin O., Nussinov R.

CURRENT OPINION IN DRUG DISCOVERY & DEVELOPMENT, vol.13, no.5, pp.527-537, 2010 (Journal Indexed in SCI) identifier identifier

  • Publication Type: Article / Review
  • Volume: 13 Issue: 5
  • Publication Date: 2010
  • Page Numbers: pp.527-537
  • Keywords: Allosteric, cellular pathway, conformational selection, drug design, drug target, molecular recognition, pharmacological research, protein dynamics, protein network, signaling, PROTEIN-PROTEIN INTERACTIONS, P53 TUMOR-SUPPRESSOR, NITRIC-OXIDE SYNTHASE, NERVE GROWTH-FACTOR, SMALL-MOLECULE, STRUCTURAL BASIS, BINDING-SITE, MODULAR ARCHITECTURE, CONSERVED RESIDUES, ENERGY LANDSCAPES


A key step in drug development is the identification of both a protein target and its topological cellular network location and interactions, with regard to information flow in disease-causing events and to medication effects. Information flow involves a cascade of binding or covalent modification processes, with each step being affected by those that occur previously. Proteins are flexible, and information flows via dynamic changes in the distribution of conformational protein ensembles; molecular recognition is mainly determined by these changes. Drug discovery often focuses on signaling proteins situated at the crossroads of cellular networks; such signaling proteins have multiple partners that bind through shared binding sites. This review highlights these shared binding sites, and describes research to suggest that partners binding at these sites could at least partly interact via different energetically dominant 'hot-spot' residues. The data also indicate that, despite dynamic changes in the distribution of the conformational ensembles, the hot-spot conformations are retained in their pre-organized states.