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Deciphering the Structural Effects of Activating EGFR Somatic Mutations with Molecular Dynamics Simulation
Published on: May 20, 2020
Membrane interaction of bound ligands contributes to the negative binding cooperativity of the EGF receptor
Anton Arkhipov1, Yibing Shan1, Eric T Kim1
1D. E. Shaw Research, New York, New York, United States of America.
Abstract:
The epidermal growth factor receptor (EGFR) plays a key role in regulating cell proliferation, migration, and differentiation, and aberrant EGFR signaling is implicated in a variety of cancers. EGFR signaling is triggered by extracellular ligand binding, which promotes EGFR dimerization and activation. Ligand-binding measurements are consistent with a negatively cooperative model in which the ligand-binding affinity at either binding site in an EGFR dimer is weaker when the other site is occupied by a ligand. This cooperativity is widely believed to be central to the effects of ligand concentration on EGFR-mediated intracellular signaling. Although the extracellular portion of the human EGFR dimer has been resolved crystallographically, the crystal structures do not reveal the structural origin of this negative cooperativity, which has remained unclear. Here we report the results of molecular dynamics simulations suggesting that asymmetrical interactions of the two binding sites with the membrane may be responsible (perhaps along with other factors) for this negative cooperativity. In particular, in our simulations the extracellular domains of an EGFR dimer spontaneously lay down on the membrane in an orientation in which favorable membrane contacts were made with one of the bound ligands, but could not be made with the other. Similar interactions were observed when EGFR was glycosylated, as it is in vivo.
Insights
Epidermal growth factor receptor (EGFR) negative cooperativity, crucial for cancer signaling, may stem from asymmetrical membrane interactions. Simulations reveal EGFR dimers interacting unevenly with cell membranes, impacting ligand binding.
Area of Science:
- Biochemistry
- Molecular Biology
- Cell Biology
Background:
- Epidermal growth factor receptor (EGFR) signaling regulates vital cell functions like proliferation and differentiation.
- Aberrant EGFR signaling is a hallmark of various human cancers.
- EGFR activation involves ligand binding, dimerization, and subsequent intracellular signaling cascades.
Purpose of the Study:
- To elucidate the structural basis of negative cooperativity in epidermal growth factor receptor (EGFR) ligand binding.
- To investigate the role of membrane interactions in EGFR negative cooperativity.
- To understand how ligand concentration affects EGFR-mediated signaling.
Main Methods:
- Molecular dynamics simulations were employed to study EGFR dimer behavior.
- Simulations focused on the extracellular domains of EGFR in interaction with a membrane environment.
- Analysis included examination of ligand-binding site interactions and membrane contacts.
Main Results:
- Molecular dynamics simulations suggest asymmetrical membrane interactions contribute to EGFR negative cooperativity.
- EGFR dimers were observed to adopt orientations on the membrane favoring contact with one ligand-binding site over the other.
- These asymmetrical interactions persisted even when EGFR was glycosylated, mimicking in vivo conditions.
Conclusions:
- Asymmetrical interactions between EGFR dimers and the cell membrane are a likely structural origin of negative cooperativity in ligand binding.
- This finding provides a novel perspective on the regulation of EGFR signaling.
- Understanding this mechanism could offer new avenues for therapeutic interventions in EGFR-driven cancers.
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