Conformational dynamics and allostery elucidate how GPCR couple to multiple G-proteins, offering mechanistic insights into coupling-promiscuity and novel drug discovery strategies

August 5, 2024

In a groundbreaking study, a multinational research team led by Dr. Adnan Sljoka (RIKEN) and Prof. Akio Kitao (Tokyo Tech), in collaboration with Prof. Scott Prosser (University of Toronto), has carried out experimental and computational studies to elucidate the mechanisms behind G protein selectivity and efficacy in the human adenosine A_2A receptor (A_2AR). A_2AR is a member of major drug targets G protein-coupled receptor (GPCR) superfamily, which engages the G protein and initiates cell signaling, influencing heart health, inflammation, cancer, and brain diseases. Scientists have made a breakthrough in understanding how A_2AR can engage and activate multiple binding G-proteins and the mechanisms of this selective coupling. The research team discovered that the hallmark coupling promiscuity in A_2AR is a direct consequence of changes in activation conformations. Moreover, the long-range (allosteric) communication mechanisms elegantly control the sampling of specific conformers within a dynamic conformational ensemble. This study offers profound insights into GPCRs selectivity and biased signaling. These findings are expected to have major implications in drug discovery and pave the way for novel GPCR-targeted therapeutic strategies in treating various human conditions, including cancer and neurogenerative disorders. This research will also enable the design of more generalized computational and AI-driven studies, pushing the boundaries in GPCR activation mechanisms and next-generation pharmacology.

Figure 1. GPCR dynamics, shown in purple as the human A2A receptor, and elegant modifications in activation pathways (allostery) indicated by the blue arrow, are critical for enabling GPCRs to bind to multiple G-proteins, shown in green and orange.

Figure 1.: GPCR dynamics, shown in purple as the human A_2A receptor, and elegant modifications in activation pathways (allostery) indicated by the blue arrow, are critical for enabling GPCRs to bind to multiple G-proteins, shown in green and orange.

Background

GPCRs are the largest receptor class, affecting almost every aspect of human physiology, with 35% of all approved drugs acting on GPCRs. They regulate sensory and neuronal signaling, as well as a myriad of processes associated with cell homeostasis, growth, and immune response. GPCRs are primarily situated in the plasma membrane surrounding the cell, while the drug or ligand (such as hormones and neurotransmitters) that acts on the GPCR binds to an extracellular pocket. Activation is then communicated across the receptor, resulting in complexation with proteins on the cell interior. Since the signal arrives at the cell exterior and initiates signaling pathways within the cell, this makes GPCRs particularly useful in drug discovery, as the drug in many cases need not enter the cell.

However, GPCRs activation is related to dynamic events, key intermediate states, and activation states that arise between the time a ligand binds and when the G protein is activated. Furthermore, many GPCRs are promiscuous as they selectively interact with different G proteins, each influencing a unique cellular response. In fact, G protein selectivity is one of the least understood aspects of GPCR biology. Capturing the conformational dynamics of GPCRs, describing various functional states, and understanding allosteric mechanisms and their role in G protein selectivity, coupling promiscuity, activation and signaling mechanisms is a formidable challenge, making it difficult to predict or control GPCR behavior in drug development.

Overview of Research Achievement

Using experimental and computational techniques, including functional assays, Fluorine-nuclear magnetic resonance (¹⁹F-NMR), mathematical rigidity theory, Molecular Dynamics Simulations and rigidity and geometry Monte Carlo simulations, the international research team has discovered mechanism behind GPCR-G protein selectivity. The team focused their study on the human adenosine A_2A receptor (A_2AR). A_2AR is a prototypical GPCR distributed in the nervous system, platelets, immune cells, lungs, heart, and vasculature, engaging several G proteins (notably, G_o) in addition to its cognate G_s protein. A_2AR drugs have been developed to address wound healing, vascular diseases, including atherosclerosis, restenosis, and platelet activation, as well as inflammation and cancer. However, pharmacological regimens are thought to act exclusively as antagonists or agonists to the A_2AR-G_s complex. Thus, understanding the mechanism of G protein selectivity and efficacy in A_2AR, and the general bias and activation mechanisms in GPCRs, can yield new opportunities in pharmacology.

The researchers focused on studying key conformational states and dynamics of A_2AR by complexing it with both cognate G_s and non-cognate G_o G-proteins with same agonist ligand. ¹⁹F NMR revealed several functional activation states of A_2AR when it is coupled to G_s and G_o G-proteins. When A_2AR engages with its preferred G_s partner, the receptor adapts long-lived and highly populated activation states. However, when coupled to G_o, these activation conformational states are significantly less engaged and populated. In fact, one of the activation states was mainly observed when the receptor was engaged with G_s but not G_o.

Molecular dynamics simulations and dPaCS-MD/MSM calculation, performed at Dr. Kitao lab, indicate that G_s forms more interactions with A_2AR and has stronger binding affinity compared to G_o. Additional Monte Carlo simulations performed by Dr. Tucs confirmed when A_2AR engages G_s or G_o G-proteins, there are major changes in the receptor's dynamics, which dictate the populations and interconversions between activation states identified through NMR. This led to the hypothesis that allostery (long range communication) might be at play. To probe allostery in the receptor, the researchers utilized rigidity theory techniques developed by Dr. Sljoka. Rigidity theory analysis validated the presence of multiple adaptive allosteric networks which were distinct when receptor engages with G_s and G_o. The allosteric mechanisms directly control the dynamics differences and transitions between distinct functional states, playing a major role in G protein selectivity and G-protein-receptor coupling.

The ability of GPCRs to connect with multiple proteins through distinct activation states could lead to better treatments, highlighting the complex yet fascinating ways our body's cells communicate and respond to signals. The findings in this study offer important insights into GPCRs selectivity, allostery, partial agonism and biased signaling, with major implications in drug discovery.

Figure 2.: ¹⁹F-NMR spectra of A_2AR (red box) identifies two activation states (orange peaks on left) used to couple to cognate (G_s) and one state (blue peak on left) to non-cognate (G_o) G proteins (TM6) while TM7 labeling reveals dynamic differences (right peaks) between G_s and G_o bound A_2AR. Dual TM6 activation states enable greater diversity of coupling partners while TM7 dynamics dictates coupling efficacy.

Figure 3. Computational analysis based on modelling and mathematical rigidity theory identifies activation (allosteric) network pathway (red) propagating through the A2AR GPCR and the differences in the pathways in the A2AR-Gs (left) and A2AR-Go (right) complexes. These pathways play a major role in the control of GPRC activation, the control in activation states, and G protein selectivity.

Figure 3.: Computational analysis based on modelling and mathematical rigidity theory identifies activation (allosteric) network pathway (red) propagating through the A_2AR GPCR and the differences in the pathways in the A_2AR-G_s (left) and A_2AR-G_o (right) complexes. These pathways play a major role in the control of GPRC activation, the control in activation states, and G protein selectivity.

Future Developments

While the current study provides unprecedented mechanistic understanding of coupling and promiscuity in A_2AR, future studies will no doubt focus on trying to generalize to other GPCRs and incorporation of advanced AI models. These efforts have significant implications for designing safer and more selective therapeutics targeting GPCRs and will deepen our overall understanding of cellular signaling mechanisms.

Reference

Authors :	Louis-Philippe Picard¹, Alexander Orazietti², Duy Phuoc Tran³, Andrejs Tucs^4,5, Sari Hagimoto³, Zhenzhou Qi¹, Shuya Kate Huang¹, Koji Tsuda^4,5, Akio Kitao³, Adnan Sljoka^5,6,*, R. Scott Prosser^1,2
Title :	Balancing G Protein Selectivity and Efficacy in the Adenosine A_2A Receptor
Journal :	Nature Chemical Biology
DOI :	10.1038/s41589-024-01682-6
Affiliations :	¹ Department of Chemical and Physical Sciences, University of Toronto, Canada ² Department of Biochemistry, University of Toronto, Canada ³ School of Life Science and Technology, Tokyo Institute of Technology, Japan ⁴ Graduate School of Frontier Sciences, University of Tokyo, Japan ⁵ Center for Advanced Intelligence Project, RIKEN, Japan ⁶ York University, Department of Chemistry, Canada
* Corresponding authors' emails:	Adnan Sljoka (adnan.sljoka@riken.jp), Scott Prosser (scott.prosser@utoronto.ca), Louis-Philippe Picard (louisphilippe.picard@utoronto.ca)

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Further Information

Professor Akio Kitao

School of Life Science and Technology, Tokyo Institute of Technology

E-mail akitao@bio.titech.ac.jp