Research workbench
Crystal structure of the NR3B ligand binding core complex with glycine at 1.58 ångström resolution
Analyse Crystal structure of the NR3B ligand binding core complex with glycine at 1.58… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2RCA
- Type
- protein
- Length
- 564 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate [NMDA] receptor subunit 3B
- UniProt
- Q8VHN2
- Ligands
- GLY
- Pockets
- 2 · best druggability 0.78
Structure
x-ray diffraction · 1 distinct chain · 36% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Glutamate [NMDA] receptor subunit 3B | protein | 282 | 36% helix, 26% strand | Q8VHN2 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1126 | 0.78 | 0.80 | 106 | empty |
| 2 | 188 | 0.61 | 0.83 | 30 | empty |
Interfaces
1 interface between chains.
- A–B · 877 Ų buried · 12 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide (disulfide).
Compared structures
- 2RCA · Crystal structure of the NR3B ligand binding core complex with glycine at 1.58 Angstrom… · the same entry in another collection · chain A against A, TM-score 1.00
- Q8VHN2 · AlphaFold monomer V2.0 prediction for glutamate receptor ionotropic, NMDA 3B (Q8VHN2) · a predicted model of the same protein · chain A against A, TM-score 0.99
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 Q8VHN2
- Elsewhere: RCSB PDB 2RCA · PDBe 2RCA · UniProt Q8VHN2
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