Abstract

The μ opioid receptor (μOR), the principal target to control pain, belongs to the G protein-coupled receptors (GPCRs) family, one of the most highlighted protein families due to their importance as therapeutic targets. The conformational flexibility of GPCRs is one of their essential characteristics as they take part in ligand recognition and subsequent activation or inactivation mechanisms. It is assessed that the intrinsic mechanical properties of the μOR, more specifically its particular flexibility behavior, would facilitate the accomplishment of specific biological functions, at least in their first steps, even in the absence of a ligand or any chemical species usually present in its biological environment. The study of the mechanical properties of the μOR would thus bring some indications regarding the highly efficient ability of the μOR to transduce cellular message. We therefore investigate the intrinsic flexibility of the μOR in its apo-form using all-atom Molecular Dynamics simulations at the sub-microsecond time scale. We particularly consider the μOR embedded in a simplified membrane model without specific ions, particular lipids, such as cholesterol moieties, or any other chemical species that could affect the flexibility of the μOR. Our analyses highlighted an important local effect due to the various bendability of the helices resulting in a diversity of shape and volume sizes adopted by the μOR binding site. Such property explains why the μOR can interact with ligands presenting highly diverse structural geometry. By investigating the topology of the μOR binding site, a conformational global effect is depicted: the correlation between the motional modes of the extra- and intracellular parts of μOR on one hand, along with a clear rigidity of the central μOR domain on the other hand. Our results show how the modularity of the μOR flexibility is related to its preability to activate and to present a basal activity.

Original languageEnglish
Article numbere115856
Number of pages29
JournalPLoS ONE
Volume9
Issue number12
DOIs
Publication statusPublished - 2015

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narcotics
Opioid Receptors
receptors
chemical speciation
G-Protein-Coupled Receptors
Ligands
mechanical properties
binding sites
Binding Sites
Mechanical properties
Aptitude
molecular dynamics
Molecular Dynamics Simulation
Formability
Rigidity
topology
Molecular dynamics
pain
inactivation
Chemical activation

Cite this

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title = "On the Modularity of the Intrinsic Flexibility of the μ Opioid Receptor: A Computational study",
abstract = "The μ opioid receptor (μOR), the principal target to control pain, belongs to the G protein-coupled receptors (GPCRs) family, one of the most highlighted protein families due to their importance as therapeutic targets. The conformational flexibility of GPCRs is one of their essential characteristics as they take part in ligand recognition and subsequent activation or inactivation mechanisms. It is assessed that the intrinsic mechanical properties of the μOR, more specifically its particular flexibility behavior, would facilitate the accomplishment of specific biological functions, at least in their first steps, even in the absence of a ligand or any chemical species usually present in its biological environment. The study of the mechanical properties of the μOR would thus bring some indications regarding the highly efficient ability of the μOR to transduce cellular message. We therefore investigate the intrinsic flexibility of the μOR in its apo-form using all-atom Molecular Dynamics simulations at the sub-microsecond time scale. We particularly consider the μOR embedded in a simplified membrane model without specific ions, particular lipids, such as cholesterol moieties, or any other chemical species that could affect the flexibility of the μOR. Our analyses highlighted an important local effect due to the various bendability of the helices resulting in a diversity of shape and volume sizes adopted by the μOR binding site. Such property explains why the μOR can interact with ligands presenting highly diverse structural geometry. By investigating the topology of the μOR binding site, a conformational global effect is depicted: the correlation between the motional modes of the extra- and intracellular parts of μOR on one hand, along with a clear rigidity of the central μOR domain on the other hand. Our results show how the modularity of the μOR flexibility is related to its preability to activate and to present a basal activity.",
author = "Mathieu Foss{\'e}pr{\'e} and Laurence Leherte and Aatto Laaksonen and Vercauteren, {Daniel P.}",
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T1 - On the Modularity of the Intrinsic Flexibility of the μ Opioid Receptor: A Computational study

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AU - Vercauteren, Daniel P.

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N2 - The μ opioid receptor (μOR), the principal target to control pain, belongs to the G protein-coupled receptors (GPCRs) family, one of the most highlighted protein families due to their importance as therapeutic targets. The conformational flexibility of GPCRs is one of their essential characteristics as they take part in ligand recognition and subsequent activation or inactivation mechanisms. It is assessed that the intrinsic mechanical properties of the μOR, more specifically its particular flexibility behavior, would facilitate the accomplishment of specific biological functions, at least in their first steps, even in the absence of a ligand or any chemical species usually present in its biological environment. The study of the mechanical properties of the μOR would thus bring some indications regarding the highly efficient ability of the μOR to transduce cellular message. We therefore investigate the intrinsic flexibility of the μOR in its apo-form using all-atom Molecular Dynamics simulations at the sub-microsecond time scale. We particularly consider the μOR embedded in a simplified membrane model without specific ions, particular lipids, such as cholesterol moieties, or any other chemical species that could affect the flexibility of the μOR. Our analyses highlighted an important local effect due to the various bendability of the helices resulting in a diversity of shape and volume sizes adopted by the μOR binding site. Such property explains why the μOR can interact with ligands presenting highly diverse structural geometry. By investigating the topology of the μOR binding site, a conformational global effect is depicted: the correlation between the motional modes of the extra- and intracellular parts of μOR on one hand, along with a clear rigidity of the central μOR domain on the other hand. Our results show how the modularity of the μOR flexibility is related to its preability to activate and to present a basal activity.

AB - The μ opioid receptor (μOR), the principal target to control pain, belongs to the G protein-coupled receptors (GPCRs) family, one of the most highlighted protein families due to their importance as therapeutic targets. The conformational flexibility of GPCRs is one of their essential characteristics as they take part in ligand recognition and subsequent activation or inactivation mechanisms. It is assessed that the intrinsic mechanical properties of the μOR, more specifically its particular flexibility behavior, would facilitate the accomplishment of specific biological functions, at least in their first steps, even in the absence of a ligand or any chemical species usually present in its biological environment. The study of the mechanical properties of the μOR would thus bring some indications regarding the highly efficient ability of the μOR to transduce cellular message. We therefore investigate the intrinsic flexibility of the μOR in its apo-form using all-atom Molecular Dynamics simulations at the sub-microsecond time scale. We particularly consider the μOR embedded in a simplified membrane model without specific ions, particular lipids, such as cholesterol moieties, or any other chemical species that could affect the flexibility of the μOR. Our analyses highlighted an important local effect due to the various bendability of the helices resulting in a diversity of shape and volume sizes adopted by the μOR binding site. Such property explains why the μOR can interact with ligands presenting highly diverse structural geometry. By investigating the topology of the μOR binding site, a conformational global effect is depicted: the correlation between the motional modes of the extra- and intracellular parts of μOR on one hand, along with a clear rigidity of the central μOR domain on the other hand. Our results show how the modularity of the μOR flexibility is related to its preability to activate and to present a basal activity.

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