8fpk

LBD conformation 1 of GluA2 flip Q isoform of AMPA receptor in complex with gain-of-function TARP gamma-2, with 10mM CaCl2, 150mM NaCl, 1mM MgCl2, 330uM CTZ, and 100uM CNQX (Closed-CaNaMg)

Method: ELECTRON MICROSCOPY Dmax: 115.9 Å Quality: GOOD

1. Protein Identity and Related Structures Protein Identity & Related Structures

Glutamate receptor 2

Rattus norvegicus

UniProt P19491

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein homooligomer Homooligomer Protein × 4 PDB declaration: tetrameric(4) Consistent with protein copy count Chain A; UniProt 1–883 Chain B; UniProt 1–883 Chain C; UniProt 1–883 Chain D; UniProt 1–883 Mutation:FLAG epitope tag (DYKDDDDK) insertion Y4Y 6-(aminomethyl)-7-nitro-1,4-dihydroquinoxaline-2,3-dione × 4 CYZ CYCLOTHIAZIDE × 4 ELECTRON MICROSCOPY cryo-EM buffer:pH 8;6-cyano-7-nitroquinoxaline-2,3-dione (CNQX, 0.1 mM) and cyclothiazide (CTZ, 0.33 mM) were added before freezing. cryo-EM vitrification conditions:Cryogen ETHANE Resolution 2.76 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

333 other PDB entries and 482 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name GRIA2_RAT
Isoform P19491-2
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–889; UniProt 1–883 Author chain B; PDBConstruct 1–889; UniProt 1–883 Author chain C; PDBConstruct 1–889; UniProt 1–883 Author chain D; PDBConstruct 1–889; UniProt 1–883

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 8fpk

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 8fpk
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2. Structure Basics 2. Structure Basics

Entry ID entry_id8fpk
Deposition date deposition_date2023-01-04
Structure title titleLBD conformation 1 of GluA2 flip Q isoform of AMPA receptor in complex with gain-of-function TARP gamma-2, with 10mM CaCl2, 150mM NaCl, 1mM MgCl2, 330uM CTZ, and 100uM CNQX (Closed-CaNaMg)
Keywords keywords;ionotropic glutamate receptors, AMPA receptors, ion channel, ligand-gated ion channel, auxiliary subunit, stargazing, TARP gamma2, TRANSPORT PROTEIN ;; TRANSPORT PROTEIN
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier35.08
Radius of gyration Rg (electron density) rg_electron34.58
Forward intensity I(0) i0204121000.00
Molecular weight molecular_weight116200.0 kDa
Excluded volume excluded_volume146110 ų
Envelope volume envelope_volume191490 ų
Hydration-shell volume shell_volume45983 ų
Envelope diameter envelope_diameter124.0
Shell Rg shell_rg41.29
Envelope Rg envelope_rg33.96
Shape Rg shape_rg34.58
Total Rg total_rg35.08
Total atoms total_atoms8136
Residues n_residues1024
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax115.9
Rg (real space) rg_real35.07
Rg uncertainty (real space) rg_real_error0.83
I(0) (real space) i0_real2.0410e+08
I(0) uncertainty (real space) i0_real_error3.4050e+06
Rg (reciprocal space) rg_reciprocal35.08
I(0) (reciprocal space) i0_reciprocal204100000.0000
Solution quality estimate total_estimate0.8953
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary38.6
Skewness Skewness skewness0.297
Kurtosis Kurtosis kurtosis-0.531
Angular range angular_range— – 0.2250 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha37280000.0000
Real-space data points n_real_points46
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.886; Stabil: 1.000; Sysdev: 1.000; Positv: 1.000; Valcen: 0.994; Smooth: 0.981

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

8. Citations (1)

9. Files and Curves (10)