MolNFT v1 · #73852 · protein
Crystal structure of GLUN2D ligand-binding core in complex with D- glutamate
3OEL · Glutamate [NMDA] receptor subunit epsilon-4: “Crystal structure of GLUN2D ligand-binding core in complex with D- glutamate”. X-ray diffraction, 1 ligand (DGL), 2 pockets (best druggability 0.59). MolNFT v1 #73852 on GenesisL1: 3D…
- PDB
- 3OEL
- Type
- protein
- Length
- 264 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate [NMDA] receptor subunit epsilon-4
- UniProt
- Q62645
- Ligands
- DGL
- Pockets
- 2 · best druggability 0.59
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamate [NMDA] receptor subunit epsilon-4 | protein | 264 | 36% helix, 22% strand | Q62645 |
Ligands and binding sites
- DGL · D-glutamic acid · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 207 | 0.59 | 0.81 | 33 | DGL |
| 2 | 63 | 0.38 | 0.79 | 18 | empty |
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 3OEL · Crystal structure of GluN2D ligand-binding core in complex with D-glutamate · the same entry in another collection · chain A against A, TM-score 1.00
- Q62645 · AlphaFold monomer V2.0 prediction for glutamate receptor ionotropic, NMDA 2D (Q62645) · a predicted model of the same protein · chain A against A, TM-score 0.96
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q62645
- Elsewhere: RCSB PDB 3OEL · PDBe 3OEL · UniProt Q62645
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