Conformational proofreading: the impact of conformational changes on the specificity of molecular recognition

PLoS One. 2007 May 23;2(5):e468. doi: 10.1371/journal.pone.0000468.

Abstract

To perform recognition, molecules must locate and specifically bind their targets within a noisy biochemical environment with many look-alikes. Molecular recognition processes, especially the induced-fit mechanism, are known to involve conformational changes. This raises a basic question: Does molecular recognition gain any advantage by such conformational changes? By introducing a simple statistical-mechanics approach, we study the effect of conformation and flexibility on the quality of recognition processes. Our model relates specificity to the conformation of the participant molecules and thus suggests a possible answer: Optimal specificity is achieved when the ligand is slightly off target; that is, a conformational mismatch between the ligand and its main target improves the selectivity of the process. This indicates that deformations upon binding serve as a conformational proofreading mechanism, which may be selected for via evolution.

Publication types

  • Research Support, Non-U.S. Gov't

MeSH terms

  • Ligands
  • Molecular Conformation*

Substances

  • Ligands