8X0C | pdb_00008x0c

Human FL Metabotropic glutamate receptor 5, mGlu5-5M with quisqualate and VU0424465, conformer 1


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Model: other
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wwPDB Validation   3D Report Full Report


This is version 1.2 of the entry. See complete history


Literature

Conformational diversity in class C GPCR positive allosteric modulation.

Cannone, G.Berto, L.Malhaire, F.Ferguson, G.Fouillen, A.Balor, S.Font-Ingles, J.Llebaria, A.Goudet, C.Kotecha, A.K R, V.Lebon, G.

(2025) Nat Commun 16: 619-619

  • DOI: https://doi.org/10.1038/s41467-024-55439-9
  • Primary Citation of Related Structures:  
    8X0B, 8X0C, 8X0D, 8X0E, 8X0F, 8X0G, 8X0H

  • PubMed Abstract: 

    The metabotropic glutamate receptors (mGlus) are class C G protein-coupled receptors (GPCR) that form obligate dimers activated by the major excitatory neurotransmitter L-glutamate. The architecture of mGlu receptor comprises an extracellular Venus-Fly Trap domain (VFT) connected to the transmembrane domain (7TM) through a Cysteine-Rich Domain (CRD). The binding of L-glutamate in the VFTs and subsequent conformational change results in the signal being transmitted to the 7TM inducing G protein binding and activation. The mGlu receptors signal transduction can be allosterically potentiated by positive allosteric modulators (PAMs) binding to the 7TMs, which are of therapeutic interest in various neurological disorders. Here, we report the cryoEM structures of metabotropic glutamate receptor 5 (mGlu 5 ) purified with three chemically and pharmacologically distinct PAMs. We find that the PAMs modulate the receptor equilibrium through their different binding modes, revealing how their interactions in the 7TMs impact the mGlu 5 receptor conformational landscape and function. In addition, we identified a PAM-free but agonist-bound intermediate state that also reveals interactions mediated by intracellular loop 2. The activation of mGlu 5 receptor is a multi-step process in which the binding of the PAMs in the 7TM modulates the equilibrium towards the active state.


  • Organizational Affiliation
    • MRC Laboratory of Molecular Biology, Cambridge, CB2 0QH, UK.

Macromolecules
Find similar proteins by:  (by identity cutoff)  |  3D Structure
Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Metabotropic glutamate receptor 5
A, B
836Homo sapiensMutation(s): 7 
Gene Names: GRM5
Membrane Entity: Yes 
UniProt & NIH Common Fund Data Resources
Find proteins for P41594 (Homo sapiens)
Explore P41594 
Go to UniProtKB:  P41594
PHAROS:  P41594
GTEx:  ENSG00000168959 
Entity Groups  
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP41594
Glycosylation
Glycosylation Sites: 1Go to GlyGen: P41594-1
Sequence Annotations
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
XQT (Subject of Investigation/LOI)
Query on XQT

Download Ideal Coordinates CCD File 
E [auth A],
H [auth B]
VU0424465
C19 H19 F N2 O2
ZPKZAFDYFVJULO-CYBMUJFWSA-N
NAG
Query on NAG

Download Ideal Coordinates CCD File 
C [auth A],
F [auth B]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
QUS (Subject of Investigation/LOI)
Query on QUS

Download Ideal Coordinates CCD File 
D [auth A],
G [auth B]
(S)-2-AMINO-3-(3,5-DIOXO-[1,2,4]OXADIAZOLIDIN-2-YL)-PROPIONIC ACID
C5 H7 N3 O5
ASNFTDCKZKHJSW-REOHCLBHSA-N
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.20 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
RECONSTRUCTIONcryoSPARC4.3.0
MODEL REFINEMENTPHENIX1.20.1-4487
MODEL REFINEMENTREFMAC5.8.0411

Structure Validation

View Full Validation Report



Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Department of Biotechnology (DBT, India)IndiaDBT/PR12422/MED/31/287/204
Other governmentIndiaRTI4006
Agence Nationale de la Recherche (ANR)FranceANR-20-CE11-0019

Revision History  (Full details and data files)

  • Version 1.0: 2024-11-06
    Type: Initial release
  • Version 1.1: 2024-11-27
    Changes: Data collection
  • Version 1.2: 2025-01-29
    Changes: Data collection, Database references