MolNFT v1 · #165759 · protein
Ntd of GLUA2 in complex with CNIH3 - with antagonist ZK200775 - in pseudo-symmetric global conformation
6U5S · Glutamate receptor 2: “Ntd of GLUA2 in complex with CNIH3 - with antagonist ZK200775 - in pseudo-symmetric global conformation”. Electron microscopy, 2 ligands (NAG, BMA), 17 pockets (best druggability 0.82). MolNFT v1 #165759 on…
- PDB
- 6U5S
- Type
- protein
- Length
- 1,504 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor 2
- UniProt
- P19491
- Ligands
- NAG, BMA
- Pockets
- 17 · best druggability 0.82
Structure
electron microscopy · 1 distinct chain · 34% helix, 19% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Glutamate receptor 2 | protein | 376 | 34% helix, 19% strand | P19491 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 16 copies · chains A, B, C, D
- BMA · beta-D-mannopyranose · sugar · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 9 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1150 | 0.82 | 0.83 | 99 | empty |
| 2 | 408 | 0.74 | 0.84 | 43 | empty |
| 3 | 426 | 0.73 | 0.83 | 47 | empty |
| 4 | 52 | 0.69 | 0.97 | 17 | empty |
| 5 | 135 | 0.67 | 0.89 | 23 | empty |
Interfaces
3 interfaces between chains.
- A–B · 1220 Ų buried · 5 hydrogen bonds · protein-protein
- C–D · 1196 Ų buried · 4 hydrogen bonds · protein-protein
- B–D · 420 Ų buried · 7 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 glycan, 4 disulfide (N-glycosylation, disulfide).
Compared structures
- 6U5S · NTD of GluA2 in complex with CNIH3 - with antagonist ZK200775 - in pseudo-symmetric… · the same entry in another collection · chain D against D, TM-score 1.00
- P19491 · AlphaFold monomer V2.0 prediction for glutamate receptor 2 (P19491) · a predicted model of the same protein · chain D 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 P19491
- Elsewhere: RCSB PDB 6U5S · PDBe 6U5S · UniProt P19491
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