› 5kc8

X-ray diffraction
1.75Å resolution

Crystal structure of the amino-terminal domain (ATD) of iGluR Delta-2 (GluD2)

Released:
DOI: 10.2210/pdb5kc8/pdb
PDB entry 5kc8 coloured by chain, front view.
PDB entry 5kc8 coloured by chain, side view.
PDB entry 5kc8 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis for integration of GluD receptors within synaptic organizer complexes.
Elegheert J, Kakegawa W, Clay JE, Shanks NF, Behiels E, Matsuda K, Kohda K, Miura E, Rossmann M, Mitakidis N, Motohashi J, Chang VT, Siebold C, Greger IH, Nakagawa T, Yuzaki M, Aricescu AR
Science 353 295-9 (2016)
PMID: 27418511

Function and Biology Details

Biochemical function:
  • not assigned
Biological process:
  • not assigned
Cellular component:
  • not assigned
Sequence domains:

Structure analysis Details

Assembly composition:
homo dimer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-128922 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Glutamate receptor ionotropic, delta-2 Chain: A
Molecule details ›
Chain: A
Length: 429 amino acids
Theoretical weight: 48.47 KDa
Source organism: Homo sapiens
Expression system: Homo sapiens
UniProt:
  • Canonical: O43424 (Residues: 24-440; Coverage: 42%)
Gene names: GLURD2, GRID2
Sequence domains: Receptor family ligand binding region
Structure domains: Rossmann fold

Ligands and Environments

2 bound ligands:
Ligand CA 2 x CA
Ligand EDO 3 x EDO
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: I222
Unit cell:
a: 45.1Å b: 79.16Å c: 246.69Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.191 0.189 0.218
Expression system: Homo sapiens

Quick links

Citations

29 review citations

Synaptic Neurexin Complexes: A Molecular Code for the Logic of Neural Circuits.
Südhof TC. (2017)
28 more

1 mention without citation

Structural basis for integration of GluD receptors within synaptic organizer complexes.
Elegheert et al. (2016)