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Structure paper

TitleStructural basis of GluK2 kainate receptor activation by a partial agonist.
Journal, issue, pagesNat Struct Mol Biol, Vol. 32, Issue 8, Page 1456-1469, Year 2025
Publish dateMay 29, 2025
AuthorsGuadalupe Segura-Covarrubias / Changping Zhou / Nebojša Bogdanović / Lisa Zhang / Nami Tajima /
PubMed AbstractKainate receptors (KARs) belong to the family of ionotropic glutamate receptors that regulate neurotransmitter release and excitatory synaptic transmission in the central nervous system. Despite ...Kainate receptors (KARs) belong to the family of ionotropic glutamate receptors that regulate neurotransmitter release and excitatory synaptic transmission in the central nervous system. Despite their critical roles in synaptic signaling and disease, the detailed gating mechanisms of KARs are not completely understood. Here we present cryo-electron microscopy structures of homomeric rat GluK2 KAR in an unliganded apo state and in complexes with a partial agonist, domoate. Partial agonist-bound GluK2 populates multiple conformations, including intermediate and desensitized states. Moreover, we demonstrate that the N-glycans at the amino-terminal domain-ligand binding domain (LBD) interface modulate receptor gating properties by interfering with cation binding at the LBD dimer interface. Together, these results provide insights into the unique gating mechanisms of KARs.
External linksNat Struct Mol Biol / PubMed:40442317
MethodsEM (single particle)
Resolution3.1 - 3.93 Å
Structure data

29929

8gc5

EMDB-29929, PDB-8gc5:
Domoate-bound GluK2 kainate receptors in non-active conformation
Method: EM (single particle) / Resolution: 3.93 Å

45237

9c5y

EMDB-45237, PDB-9c5y:
Structure of the amino-terminal domain of kainate receptor GluK2 in the apo state
Method: EM (single particle) / Resolution: 3.1 Å

45238

9c5z

EMDB-45238, PDB-9c5z:
Structure of Ligand binding and transmembrane domains of kainate receptor Gluk2 in apo state
Method: EM (single particle) / Resolution: 3.63 Å

45239

9c60

EMDB-45239, PDB-9c60:
CryoEM structure of kainate receptor Gluk2 in apo state
Method: EM (single particle) / Resolution: 3.8 Å

45410

9caz

EMDB-45410, PDB-9caz:
Structure of kainate receptor Gluk2 in apo state
Method: EM (single particle) / Resolution: 3.88 Å

Chemicals

ChemComp-NAG:
2-acetamido-2-deoxy-beta-D-glucopyranose

ChemComp-DOQ:
(2S,3S,4S)-2-CARBOXY-4-[(1Z,3E,5R)-5-CARBOXY-1-METHYL-1,3-HEXADIENYL]-3-PYRROLIDINEACETIC ACID / neurotoxin*YM

ChemComp-MAN:
alpha-D-mannopyranose

Source
  • rattus norvegicus (Norway rat)
KeywordsMEMBRANE PROTEIN / ion channel / glutamate kainate receptor 2 / homotetramer / STRUCTURAL PROTEIN / C1 / membrane / glycosylation / glutamate / synapse / homotetrmer / channel protein

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