Molecular dynamics simulations of forced unbending of integrin α(v)β₃

PLoS Comput Biol. 2011 Feb;7(2):e1001086. doi: 10.1371/journal.pcbi.1001086. Epub 2011 Feb 17.

Abstract

Integrins may undergo large conformational changes during activation, but the dynamic processes and pathways remain poorly understood. We used molecular dynamics to simulate forced unbending of a complete integrin α(v)β₃ ectodomain in both unliganded and liganded forms. Pulling the head of the integrin readily induced changes in the integrin from a bent to an extended conformation. Pulling at a cyclic RGD ligand bound to the integrin head also extended the integrin, suggesting that force can activate integrins. Interactions at the interfaces between the hybrid and β tail domains and between the hybrid and epidermal growth factor 4 domains formed the major energy barrier along the unbending pathway, which could be overcome spontaneously in ~1 µs to yield a partially-extended conformation that tended to rebend. By comparison, a fully-extended conformation was stable. A newly-formed coordination between the α(v) Asp457 and the α-genu metal ion might contribute to the stability of the fully-extended conformation. These results reveal the dynamic processes and pathways of integrin conformational changes with atomic details and provide new insights into the structural mechanisms of integrin activation.

Publication types

  • Research Support, N.I.H., Extramural
  • Research Support, U.S. Gov't, Non-P.H.S.

MeSH terms

  • Humans
  • Integrin alphaVbeta3 / chemistry*
  • Integrin alphaVbeta3 / metabolism
  • Molecular Dynamics Simulation*
  • Oligopeptides / chemistry
  • Protein Binding
  • Protein Conformation
  • Protein Stability
  • Protein Structure, Tertiary

Substances

  • Integrin alphaVbeta3
  • Oligopeptides
  • arginyl-glycyl-aspartic acid