Research workbench
Rat ionotropic glutamate delta-2 receptor in complex with 7-cka and calcium
Analyse Rat ionotropic glutamate delta-2 receptor in complex with 7-cka and calcium in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6LU9
- Type
- protein
- Length
- 2,640 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor ionotropic, delta-2
- UniProt
- Q63226
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 1 distinct chain · 37% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Glutamate receptor ionotropic, delta-2 | protein | 660 | 37% helix, 25% strand | Q63226 |
Pockets
20 pockets found on a 1 Å grid, 17 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1136 | 0.77 | 0.79 | 93 | empty |
| 2 | 671 | 0.75 | 0.81 | 71 | empty |
| 3 | 387 | 0.75 | 0.85 | 51 | empty |
| 4 | 583 | 0.73 | 0.80 | 73 | empty |
| 5 | 614 | 0.72 | 0.80 | 63 | empty |
Interfaces
4 interfaces between chains.
- A–B · 2108 Ų buried · 34 hydrogen bonds · protein-protein
- C–D · 1602 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 827 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 88 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 disulfide (disulfide).
Compared structures
- 6LU9 · Rat ionotropic Glutamate Delta-2 receptor in complex with 7-CKA and Calcium · the same entry in another collection · chain A against A, TM-score 1.00
- Q63226 · AlphaFold monomer V2.0 prediction for glutamate receptor ionotropic, delta-2 (Q63226) · a predicted model of the same protein · chain A against A, TM-score 0.66
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 Q63226
- Elsewhere: RCSB PDB 6LU9 · PDBe 6LU9 · UniProt Q63226
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