MolNFT v1 · #54725 · protein
Crystal structure of the GLUK2 (GLUR6) D776K lbd dimer in complex with glutamate
2XXW · Glutamate receptor, ionotropic kainate 2: “Crystal structure of the GLUK2 (GLUR6) D776K lbd dimer in complex with glutamate”. X-ray diffraction, 2 ligands (GLU, CL), 8 pockets (best druggability 0.68). MolNFT v1 #54725 on GenesisL1…
- PDB
- 2XXW
- Type
- protein
- Length
- 501 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor, ionotropic kainate 2
- UniProt
- P42260
- Ligands
- GLU, CL
- Pockets
- 8 · best druggability 0.68
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamate receptor, ionotropic kainate 2 | protein | 250 | 40% helix, 22% strand | P42260 |
| B | Glutamate receptor, ionotropic kainate 2 | protein | 251 | 41% helix, 22% strand | P42260 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 52 | 0.68 | 0.97 | 20 | GLU |
| 2 | 145 | 0.67 | 0.88 | 28 | empty |
| 3 | 421 | 0.65 | 0.78 | 55 | empty |
| 4 | 105 | 0.52 | 0.83 | 28 | empty |
| 5 | 89 | 0.42 | 0.79 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1186 Ų buried · 14 hydrogen bonds · protein-protein
Compared structures
- 2XXW · Crystal structure of the GluK2 (GluR6) D776K LBD dimer in complex with glutamate · the same entry in another collection · chain A against A, TM-score 1.00
- P42260 · AlphaFold monomer V2.0 prediction for glutamate receptor ionotropic, kainate 2 (P42260) · a predicted model of the same protein · chain A against A, TM-score 0.97
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 P42260
- Elsewhere: RCSB PDB 2XXW · PDBe 2XXW · UniProt P42260
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