Research workbench
Ntd of GLUA2 in complex with CNIH3 - with antagonist ZK200775 - in asymmetric global conformation
Analyse Ntd of GLUA2 in complex with CNIH3 - with antagonist ZK200775 - in asymmetric… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6U6I
- Type
- protein
- Length
- 1,496 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor 2
- UniProt
- P19491
- Ligands
- NAG, BMA
- Pockets
- 16 · best druggability 0.79
Structure
electron microscopy · 1 distinct chain · 34% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, A, B, D | Glutamate receptor 2 | protein | 374 | 34% helix, 22% strand | P19491 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 9 copies · chains C, A, B, D
- BMA · beta-D-mannopyranose · sugar · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
16 pockets found on a 1 Å grid, 12 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1110 | 0.79 | 0.81 | 106 | empty |
| 2 | 111 | 0.75 | 0.94 | 25 | empty |
| 3 | 635 | 0.73 | 0.80 | 65 | empty |
| 4 | 62 | 0.70 | 0.96 | 21 | empty |
| 5 | 50 | 0.66 | 0.95 | 19 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1264 Ų buried · 5 hydrogen bonds · protein-protein
- A–B · 1210 Ų buried · 6 hydrogen bonds · protein-protein
- B–D · 407 Ų buried · 5 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 glycan, 4 disulfide (N-glycosylation, disulfide).
Compared structures
- 6U6I · NTD of GluA2 in complex with CNIH3 - with antagonist ZK200775 - in asymmetric global… · 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 6U6I · PDBe 6U6I · UniProt P19491
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