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Intermediate-state-trapped mutants pinpoint G protein-coupled receptor conformational allostery

Journal Article · · Nature Communications
 [1];  [2];  [3];  [3];  [4]
  1. University of South Florida, Tampa, FL (United States)
  2. Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
  3. California Institute of Technology, Pasadena, CA (United States)
  4. University of South Florida, Tampa, FL (United States); H. Lee Moffitt Cancer Center & Research Institute, Tampa, FL (United States)
Understanding the roles of intermediate states in signaling is pivotal to unraveling the activation processes of G protein-coupled receptors (GPCRs). However, the field is still struggling to define these conformational states with sufficient resolution to study their individual functions. Here, we demonstrate the feasibility of enriching the populations of discrete states via conformation-biased mutants. These mutants adopt distinct distributions among five states that lie along the activation pathway of adenosine A2A receptor (A2AR), a class A GPCR. Our study reveals a structurally conserved cation-π lock between transmembrane helix VI (TM6) and Helix8 that regulates cytoplasmic cavity opening as a “gatekeeper” for G protein penetration. A GPCR activation process based on the well-discerned conformational states is thus proposed, allosterically micro-modulated by the cation-π lock and a previously well-defined ionic interaction between TM3 and TM6. Intermediate-state-trapped mutants will also provide useful information in relation to receptor-G protein signal transduction.
Research Organization:
Los Alamos National Laboratory (LANL), Los Alamos, NM (United States)
Sponsoring Organization:
USDOE National Nuclear Security Administration (NNSA); USDOE Laboratory Directed Research and Development (LDRD) Program; National Institutes of Health (NIH)
Grant/Contract Number:
AC52-06NA25396
OSTI ID:
2469627
Journal Information:
Nature Communications, Journal Name: Nature Communications Journal Issue: 1 Vol. 14; ISSN 2041-1723
Publisher:
Nature Publishing GroupCopyright Statement
Country of Publication:
United States
Language:
English

References (66)

CHARMM-GUI: A web-based graphical user interface for CHARMM journal March 2008
Settle: An analytical version of the SHAKE and RATTLE algorithm for rigid water models journal October 1992
Loop modeling: Sampling, filtering, and scoring journal January 2008
Improved prediction of protein side-chain conformations with SCWRL4 journal December 2009
A comparison of chemical shift sensitivity of trifluoromethyl tags: optimizing resolution in 19F NMR studies of proteins journal March 2015
[19] Integrated methods for the construction of three-dimensional models and computational probing of structure-function relations in G protein-coupled receptors book January 1995
The Dynamic Process of β2-Adrenergic Receptor Activation journal January 2013
Structural Insights into the Dynamic Process of β 2 -Adrenergic Receptor Signaling journal May 2015
Delineating the conformational landscape of the adenosine A2A receptor during G protein coupling journal April 2021
An in-membrane NMR spectroscopic approach probing native ligand-GPCR interaction journal May 2022
Structure of Bovine Rhodopsin in a Trigonal Crystal Form journal November 2004
New frontiers and developing applications in 19F NMR journal April 2013
Active state structures of G protein-coupled receptors highlight the similarities and differences in the G protein and arrestin coupling interfaces journal August 2017
GROMACS: High performance molecular simulations through multi-level parallelism from laptops to supercomputers journal September 2015
19F NMR: A promising tool for dynamic conformational studies of G protein-coupled receptors journal October 2022
Illuminating GPCR Signaling by Cryo-EM journal August 2018
The Potential of 19F NMR Application in GPCR Biased Drug Discovery journal January 2021
How Do Branched Detergents Stabilize GPCRs in Micelles? journal May 2020
Trifluorinated Keto–Enol Tautomeric Switch in Probing Domain Rotation of a G Protein-Coupled Receptor journal December 2020
Crystal Structure and Subsequent Ligand Design of a Nonriboside Partial Agonist Bound to the Adenosine A2A Receptor journal March 2021
ConfGen: A Conformational Search Method for Efficient Generation of Bioactive Conformers journal April 2010
CHARMM-GUI Micelle Builder for Pure/Mixed Micelle and Protein/Micelle Complex Systems journal July 2013
P-LINCS:  A Parallel Linear Constraint Solver for Molecular Simulation journal December 2007
Flat-Bottom Strategy for Improved Accuracy in Protein Side-Chain Placements journal November 2008
Optimized Phospholipid Bilayer Nanodiscs Facilitate High-Resolution Structure Determination of Membrane Proteins journal January 2013
Exploring the Activation Process of the β2AR-GsComplex journal July 2021
All-Atom Empirical Potential for Molecular Modeling and Dynamics Studies of Proteins journal April 1998
Agonist-bound adenosine A2A receptor structures reveal common features of GPCR activation journal May 2011
Crystal structure of the β2 adrenergic receptor–Gs protein complex journal July 2011
Structure of the human κ-opioid receptor in complex with JDTic journal March 2012
Activation of the A2A adenosine G-protein-coupled receptor by conformational selection journal May 2016
Phase-plate cryo-EM structure of a class B GPCR–G-protein complex journal April 2017
Cryo-EM structure of the activated GLP-1 receptor in complex with a G protein journal May 2017
Phase-plate cryo-EM structure of a biased agonist-bound human GLP-1 receptor–Gs complex journal February 2018
Coupling ligand structure to specific conformational switches in the β2-adrenoceptor journal June 2006
CHARMM36m: an improved force field for folded and intrinsically disordered proteins journal November 2016
Mechanistic insights into allosteric regulation of the A2A adenosine G protein-coupled receptor by physiological cations journal April 2018
The road to fully programmable protein catalysis journal June 2022
Comparison of simple potential functions for simulating liquid water journal July 1983
Particle mesh Ewald: An N ⋅log( N ) method for Ewald sums in large systems journal June 1993
A smooth particle mesh Ewald method journal November 1995
High-resolution distance mapping in rhodopsin reveals the pattern of helix movement due to activation journal May 2008
Functional role of internal water molecules in rhodopsin revealed by x-ray crystallography journal April 2002
Evaluating conformational free energies: The colony energy and its application to the problem of loop prediction journal May 2002
Separation of on-target efficacy from adverse effects through rational design of a bitopic adenosine receptor agonist journal March 2014
Ligand- and mutation-induced conformational selection in the CCR5 chemokine G protein-coupled receptor journal August 2014
Structural dynamics and energetics underlying allosteric inactivation of the cannabinoid receptor CB 1 journal June 2015
A 2A adenosine receptor functional states characterized by 19 F-NMR journal November 2018
The mechanism for ligand activation of the GPCR–G protein complex journal April 2022
Fluorotyrosine Alkaline Phosphatase from Escherichia coli: Preparation, Properties, and Fluorine-19 Nuclear Magnetic Resonance Spectrum journal February 1974
Cation-pi interactions in structural biology journal August 1999
NMR spectroscopy in studies of light-induced structural changes in mammalian rhodopsin: Applicability of solution 19 F NMR journal November 1999
Detergent- and phospholipid-based reconstitution systems have differential effects on constitutive activity of G-protein–coupled receptors journal July 2019
Activation of the β 2 -Adrenergic Receptor Involves Disruption of an Ionic Lock between the Cytoplasmic Ends of Transmembrane Segments 3 and 6 journal May 2001
Evidence for a Model of Agonist-induced Activation of 5-Hydroxytryptamine 2A Serotonin Receptors That Involves the Disruption of a Strong Ionic Interaction between Helices 3 and 6 journal January 2002
A Homogenous Bioluminescent System for Measuring GTPase, GTPase Activating Protein, and Guanine Nucleotide Exchange Factor Activities journal October 2015
GROMACS 4.5: a high-throughput and highly parallel open source molecular simulation toolkit journal February 2013
GPCRdb in 2021: integrating GPCR sequence, structure and function journal December 2020
OPM database and PPM web server: resources for positioning of proteins in membranes journal September 2011
Mutagenesis and Modelling of the α1b-Adrenergic Receptor Highlight the Role of the Helix 3/Helix 6 Interface in Receptor Activation journal May 2002
Conformational dynamics of a G protein–coupled receptor helix 8 in lipid membranes journal August 2020
Biased Signaling Pathways in  2-Adrenergic Receptor Characterized by 19F-NMR journal January 2012
Structural Basis for Allosteric Regulation of GPCRs by Sodium Ions journal July 2012
Crystal Structure of Rhodopsin: A G Protein-Coupled Receptor journal August 2000
Use of 19F NMR to Probe Protein Structure and Conformational Changes journal June 1996
Expression and Purification of Yeast-derived GPCR, Gα and Gβγ Subunits for Structural and Dynamic Studies journal January 2021