Research workbench
Structure of glutamate receptor-like channel GLR3.4 ligand-binding domain in complex with serine
Analyse Structure of glutamate receptor-like channel GLR3.4 ligand-binding domain in… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7LZ1
- Type
- protein
- Length
- 749 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor 3.4
- UniProt
- Q8GXJ4
- Ligands
- SER, SO4
- Pockets
- 5 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 35% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamate receptor 3.4 | protein | 252 | 35% helix, 21% strand | Q8GXJ4 |
| B | Glutamate receptor 3.4 | protein | 247 | 36% helix, 25% strand | Q8GXJ4 |
| C | Glutamate receptor 3.4 | protein | 250 | 33% helix, 24% strand | Q8GXJ4 |
Ligands and binding sites
- SER · Serine · ligand · 3 copies · chains A, B, C
- SO4 · Sulfate ion · ion · 3 copies · chains B, C
- GOL · Glycerol · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 603 | 0.75 | 0.82 | 83 | empty |
| 2 | 238 | 0.74 | 0.89 | 29 | empty |
| 3 | 779 | 0.70 | 0.76 | 66 | GOL |
| 4 | 56 | 0.35 | 0.78 | 10 | empty |
| 5 | 61 | 0.34 | 0.77 | 16 | empty |
Interfaces
2 interfaces between chains.
- B–C · 1241 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 662 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 7LZ1 · Structure of glutamate receptor-like channel GLR3.4 ligand-binding domain in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8GXJ4 · AlphaFold monomer V2.0 prediction for glutamate receptor 3.4 (Q8GXJ4) · a predicted model of the same protein · chain C 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 Q8GXJ4
- Elsewhere: RCSB PDB 7LZ1 · PDBe 7LZ1 · UniProt Q8GXJ4
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