7OCE

Resting state GluA1/A2 AMPA receptor in complex with TARP gamma 8 and CNIH2 (LBD-TMD)


Experimental Data Snapshot

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 

Starting Models: experimental
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wwPDB Validation   3D Report Full Report


This is version 1.3 of the entry. See complete history


Literature

Gating and modulation of a hetero-octameric AMPA glutamate receptor.

Zhang, D.Watson, J.F.Matthews, P.M.Cais, O.Greger, I.H.

(2021) Nature 594: 454-458

  • DOI: https://doi.org/10.1038/s41586-021-03613-0
  • Primary Citation of Related Structures:  
    7OCA, 7OCC, 7OCD, 7OCE, 7OCF

  • PubMed Abstract: 

    AMPA receptors (AMPARs) mediate the majority of excitatory transmission in the brain and enable the synaptic plasticity that underlies learning 1 . A diverse array of AMPAR signalling complexes are established by receptor auxiliary subunits, which associate with the AMPAR in various combinations to modulate trafficking, gating and synaptic strength 2 . However, their mechanisms of action are poorly understood. Here we determine cryo-electron microscopy structures of the heteromeric GluA1-GluA2 receptor assembled with both TARP-γ8 and CNIH2, the predominant AMPAR complex in the forebrain, in both resting and active states. Two TARP-γ8 and two CNIH2 subunits insert at distinct sites beneath the ligand-binding domains of the receptor, with site-specific lipids shaping each interaction and affecting the gating regulation of the AMPARs. Activation of the receptor leads to asymmetry between GluA1 and GluA2 along the ion conduction path and an outward expansion of the channel triggers counter-rotations of both auxiliary subunit pairs, promoting the active-state conformation. In addition, both TARP-γ8 and CNIH2 pivot towards the pore exit upon activation, extending their reach for cytoplasmic receptor elements. CNIH2 achieves this through its uniquely extended M2 helix, which has transformed this endoplasmic reticulum-export factor into a powerful AMPAR modulator that is capable of providing hippocampal pyramidal neurons with their integrative synaptic properties.


  • Organizational Affiliation

    Neurobiology Division, MRC Laboratory of Molecular Biology, Cambridge, UK.


Macromolecules
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Entity ID: 1
MoleculeChains Sequence LengthOrganismDetailsImage
Glutamate receptor 1A,
G [auth C]
915Rattus norvegicusMutation(s): 0 
Gene Names: Gria1Glur1
Membrane Entity: Yes 
UniProt
Find proteins for P19490 (Rattus norvegicus)
Explore P19490 
Go to UniProtKB:  P19490
Entity Groups  
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UniProt GroupP19490
Sequence Annotations
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  • Reference Sequence
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Entity ID: 2
MoleculeChains Sequence LengthOrganismDetailsImage
Glutamate receptor 2B,
E [auth D]
860Rattus norvegicusMutation(s): 0 
Gene Names: Gria2Glur2
Membrane Entity: Yes 
UniProt
Find proteins for P19491 (Rattus norvegicus)
Explore P19491 
Go to UniProtKB:  P19491
Entity Groups  
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UniProt GroupP19491
Sequence Annotations
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  • Reference Sequence
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Entity ID: 3
MoleculeChains Sequence LengthOrganismDetailsImage
Protein cornichon homolog 2C [auth G],
H [auth E]
188Rattus norvegicusMutation(s): 0 
Gene Names: Cnih2
Membrane Entity: Yes 
UniProt
Find proteins for Q5BJU5 (Rattus norvegicus)
Explore Q5BJU5 
Go to UniProtKB:  Q5BJU5
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UniProt GroupQ5BJU5
Sequence Annotations
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  • Reference Sequence
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Entity ID: 4
MoleculeChains Sequence LengthOrganismDetailsImage
Voltage-dependent calcium channel gamma-8 subunitD [auth I],
F [auth J]
422Rattus norvegicusMutation(s): 0 
Gene Names: Cacng8
Membrane Entity: Yes 
UniProt
Find proteins for Q8VHW5 (Rattus norvegicus)
Explore Q8VHW5 
Go to UniProtKB:  Q8VHW5
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UniProt GroupQ8VHW5
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  • Reference Sequence
Small Molecules
Ligands 3 Unique
IDChains Name / Formula / InChI Key2D Diagram3D Interactions
PC1
Query on PC1

Download Ideal Coordinates CCD File 
AA [auth G]
AB [auth C]
BA [auth G]
BB [auth C]
CB [auth C]
AA [auth G],
AB [auth C],
BA [auth G],
BB [auth C],
CB [auth C],
DA [auth I],
DB [auth C],
EA [auth I],
EB [auth E],
FA [auth I],
FB [auth E],
GA [auth I],
GB [auth E],
HA [auth I],
J [auth A],
JA [auth D],
K [auth A],
KA [auth D],
L [auth A],
LA [auth D],
M [auth A],
MA [auth D],
N [auth A],
NA [auth D],
O [auth A],
OA [auth D],
P [auth B],
PA [auth D],
QA [auth D],
R [auth B],
RA [auth D],
S [auth B],
SA [auth J],
T [auth B],
TA [auth J],
U [auth B],
UA [auth J],
V [auth B],
VA [auth J],
W [auth B],
WA [auth J],
X [auth B],
XA [auth C],
Y [auth B],
Z [auth G],
ZA [auth C]
1,2-DIACYL-SN-GLYCERO-3-PHOSPHOCHOLINE
C44 H88 N O8 P
NRJAVPSFFCBXDT-HUESYALOSA-N
CLR
Query on CLR

Download Ideal Coordinates CCD File 
CA [auth G],
HB [auth E]
CHOLESTEROL
C27 H46 O
HVYWMOMLDIMFJA-DPAQBDIFSA-N
E2Q
Query on E2Q

Download Ideal Coordinates CCD File 
I [auth A],
IA [auth D],
Q [auth B],
YA [auth C]
6-nitro-2,3-bis(oxidanylidene)-1,4-dihydrobenzo[f]quinoxaline-7-sulfonamide
C12 H8 N4 O6 S
UQNAFPHGVPVTAL-UHFFFAOYSA-N
Binding Affinity Annotations 
IDSourceBinding Affinity
E2Q BindingDB:  7OCE Ki: min: 210, max: 1600 (nM) from 3 assay(s)
IC50: min: 2500, max: 6000 (nM) from 2 assay(s)
Experimental Data & Validation

Experimental Data

  • Method: ELECTRON MICROSCOPY
  • Resolution: 3.10 Å
  • Aggregation State: PARTICLE 
  • Reconstruction Method: SINGLE PARTICLE 
EM Software:
TaskSoftware PackageVersion
MODEL REFINEMENTREFMAC
MODEL REFINEMENTPHENIX
RECONSTRUCTIONRELION3.1

Structure Validation

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Entry History & Funding Information

Deposition Data


Funding OrganizationLocationGrant Number
Medical Research Council (MRC, United Kingdom)MC_U105174197
Biotechnology and Biological Sciences Research Council (BBSRC)BB/N002113/1

Revision History  (Full details and data files)

  • Version 1.0: 2021-06-09
    Type: Initial release
  • Version 1.1: 2021-06-16
    Changes: Database references
  • Version 1.2: 2021-06-30
    Changes: Database references
  • Version 1.3: 2024-10-16
    Changes: Data collection, Database references, Refinement description, Structure summary