Research workbench
Electron density MAP of GLUA2EM in complex with LY451646 and glutamate
Analyse Electron density MAP of GLUA2EM in complex with LY451646 and glutamate in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4UQ6
- Type
- protein
- Length
- 2,526 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor 2
- UniProt
- P19491
- Ligands
- GLU
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 2 distinct chains · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Glutamate receptor 2 | protein | 631 | 34% helix, 22% strand | P19491 |
| B, D | Glutamate receptor 2 | protein | 632 | 34% helix, 22% strand | P19491 |
Ligands and binding sites
- GLU · Glutamic acid · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 726 | 0.77 | 0.81 | 98 | empty |
| 2 | 509 | 0.72 | 0.81 | 72 | empty |
| 3 | 485 | 0.70 | 0.80 | 58 | empty |
| 4 | 476 | 0.70 | 0.80 | 55 | empty |
| 5 | 480 | 0.69 | 0.80 | 57 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1368 Ų buried · 10 hydrogen bonds · protein-protein
- C–D · 1363 Ų buried · 10 hydrogen bonds · protein-protein
- A–D · 941 Ų buried · 11 hydrogen bonds · protein-protein
- B–C · 940 Ų buried · 11 hydrogen bonds · protein-protein
- B–D · 287 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 4UQ6 · Electron density map of GluA2em in complex with LY451646 and glutamate · the same entry in another collection · chain A against A, TM-score 1.00
- P19491 · AlphaFold monomer V2.0 prediction for glutamate receptor 2 (P19491) · a predicted model of the same protein · chain C against A, TM-score 0.85
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 P19491
- Elsewhere: RCSB PDB 4UQ6 · PDBe 4UQ6 · UniProt P19491
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