Research workbench
Glutamate bound to a double cysteine mutant (A452C/S652C) of the ligand binding domain of GLUA2
Analyse Glutamate bound to a double cysteine mutant (A452C/S652C) of the ligand binding… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3T93
- Type
- protein
- Length
- 774 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor 2
- UniProt
- P19491
- Ligands
- GLU, ZN
- Pockets
- 5 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| B, D, F | Glutamate receptor 2 | protein | 258 | 38% helix, 21% strand | P19491 |
Ligands and binding sites
- GLU · Glutamic acid · ligand · 3 copies · chains B, D, F
- ZN · Zinc ion · metal · 5 copies · chains B, F, D
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 | 809 | 0.78 | 0.81 | 100 | empty |
| 2 | 1130 | 0.73 | 0.76 | 97 | empty |
| 3 | 257 | 0.56 | 0.78 | 30 | empty |
| 4 | 62 | 0.34 | 0.77 | 14 | empty |
| 5 | 68 | 0.32 | 0.75 | 13 | empty |
Interfaces
3 interfaces between chains.
- B–D · 982 Ų buried · 11 hydrogen bonds · protein-protein
- B–F · 300 Ų buried · 5 hydrogen bonds · protein-protein
- D–F · 75 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide (disulfide).
Compared structures
- 3T93 · Glutamate bound to a double cysteine mutant (A452C/S652C) of the ligand binding domain of… · the same entry in another collection · chain B against B, TM-score 1.00
- P19491 · AlphaFold monomer V2.0 prediction for glutamate receptor 2 (P19491) · a predicted model of the same protein · chain B against A, TM-score 0.98
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 3T93 · PDBe 3T93 · UniProt P19491
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