9WQK | pdb_00009wqk

GRM5-Gi Complex Structure


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

wwPDB Validation 3D Report Full Report

Validation slider image for 9WQK

This is version 1.1 of the entry. See complete history

Literature

G protein selectivity in group I metabotropic glutamate receptors.

Lu, Y.Wen, T.Lu, X.Zhang, G.Meng, T.Liu, T.Wang, X.Shen, Y.Yang, X.

(2026) Sci Adv 12: eaee0044-eaee0044

  • DOI: https://doi.org/10.1126/sciadv.aee0044
  • Primary Citation Related Structures: 
    27TM, 9WQK, 9WQL, 9WQM, 9WQN, 9WQO

  • PubMed Abstract: 

    Metabotropic glutamate (mGlu) receptors are class C G protein-coupled receptor involved in synaptic transmission and neurological disorders. Group I mGlu receptors (mGlu1 and mGlu5) predominantly couple to G q/11 , whereas group II and III receptors primarily engage G i/o . Although G i/o -coupling mechanisms have been defined for several group II/III receptors, how group I receptors preferentially engage G q/11 remains unclear. Here we report cryo-electron microscopy structures of active mGlu-G protein complexes (mGlu1-G q , mGlu1-G i , mGlu5-G q , and mGlu5-G i ) bound to l-glutamate and positive allosteric modulators (PAMs), together with two additional activated-state structures of mGlu1. Comparative structural and biochemical analyses identify a group I-specific ICL2 insertion that promotes preferential G q engagement. Each receptor dimer asymmetrically binds one G protein heterotrimer via an intracellular pocket engaging the Gα amino-terminal helix. PAM binding to one 7TM domain induces W 6.50 rotation and TM6 outward movement, bringing the two 7TMs into closer. These findings provide a structural basis for preferential G q/11 engagement and activation of group I mGlu receptors.


  • Organizational Affiliation
    • State Key Laboratory of Medicinal Chemical Biology and Frontiers Science Center for Cell Responses, College of Life Sciences, Nankai University, Tianjin 300350, China.

Macromolecule Content 

  • Total Structure Weight: 310.27 kDa 
  • Atom Count: 19,277 
  • Modeled Residue Count: 2,418 
  • Deposited Residue Count: 2,734 
  • Unique protein chains: 5

Macromolecules

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Entity ID: 1
MoleculeChains  Sequence LengthOrganismDetailsImage
Metabotropic glutamate receptor 5A [auth X],
B [auth Y]
850Homo sapiensMutation(s): 0 
Gene Names: GRM5GPRC1EMGLUR5
UniProt & NIH Common Fund Data Resources
Find proteins for P41594 (Homo sapiens)
Explore P41594 
Go to UniProtKB:  P41594
GTEx:  ENSG00000168959 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP41594
Glycosylation
Glycosylation Sites: 4Go to GlyGen: P41594-1
Sequence Annotations
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Reference Sequence
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Entity ID: 2
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(i) subunit alpha-1C [auth A]354Homo sapiensMutation(s): 0 
Gene Names: GNAI1
EC: 3.6.5
UniProt & NIH Common Fund Data Resources
Find proteins for P63096 (Homo sapiens)
Explore P63096 
Go to UniProtKB:  P63096
GTEx:  ENSG00000127955 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP63096
Sequence Annotations
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Reference Sequence
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Entity ID: 3
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1D [auth B]340Homo sapiensMutation(s): 0 
Gene Names: GNB1
UniProt & NIH Common Fund Data Resources
Find proteins for P62873 (Homo sapiens)
Explore P62873 
Go to UniProtKB:  P62873
GTEx:  ENSG00000078369 
Entity Groups
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UniProt GroupP62873
Sequence Annotations
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Reference Sequence
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Entity ID: 4
MoleculeChains  Sequence LengthOrganismDetailsImage
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2E [auth G]80Homo sapiensMutation(s): 0 
Gene Names: GNG2
UniProt & NIH Common Fund Data Resources
Find proteins for P59768 (Homo sapiens)
Explore P59768 
Go to UniProtKB:  P59768
GTEx:  ENSG00000186469 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
UniProt GroupP59768
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Reference Sequence
Find similar proteins by:|  3D Structure
Entity ID: 5
MoleculeChains  Sequence LengthOrganismDetailsImage
scFv16260Mus musculusMutation(s): 0 
Entity Groups
Sequence Clusters30% Identity50% Identity70% Identity90% Identity95% Identity100% Identity
Sequence Annotations
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Reference Sequence

Small Molecules

Ligands 5 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
CLR

Query on CLR



Download:Ideal Coordinates CCD File
AA [auth Y]
N [auth X]
O [auth X]
P [auth X]
Q [auth X]
AA [auth Y],
N [auth X],
O [auth X],
P [auth X],
Q [auth X],
R [auth Y],
Y,
Z [auth Y]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
YKU

Query on YKU



Download:Ideal Coordinates CCD File
G [auth X]3-cyano-N-(1,3-diphenyl-1H-pyrazol-5-yl)benzamide
C23 H16 N4 O
BKUIZWILNWHFHD-UHFFFAOYSA-N
NAG

Query on NAG



Download:Ideal Coordinates CCD File
I [auth X]
J [auth X]
K [auth X]
L [auth X]
T [auth Y]
I [auth X],
J [auth X],
K [auth X],
L [auth X],
T [auth Y],
U [auth Y],
V [auth Y],
W [auth Y]
2-acetamido-2-deoxy-beta-D-glucopyranose
C8 H15 N O6
OVRNDRQMDRJTHS-FMDGEEDCSA-N
GGL

Query on GGL



Download:Ideal Coordinates CCD File
H [auth X],
S [auth Y]
GAMMA-L-GLUTAMIC ACID
C5 H9 N O4
WHUUTDBJXJRKMK-VKHMYHEASA-N
CL

Query on CL



Download:Ideal Coordinates CCD File
M [auth X],
X [auth Y]
CHLORIDE ION
Cl
VEXZGXHMUGYJMC-UHFFFAOYSA-M

Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.70 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTPHENIX1.19_4092
RECONSTRUCTIONRELION5

Structure Validation

View Full Validation Report



Entry History 

& Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
National Natural Science Foundation of China (NSFC)China--

Revision History  (Full details and data files)

  • Version 1.0: 2026-05-27
    Type: Initial release
  • Version 1.1: 2026-07-22
    Changes: Data collection, Database references