MolNFT v1 · #65761 · protein
Crystal structure of the GLUR6 amino terminal domain dimer assembly
3H6G · Glutamate receptor, ionotropic kainate 2: “Crystal structure of the GLUR6 amino terminal domain dimer assembly”. X-ray diffraction, 2 ligands (NAG, CA), 9 pockets (best druggability 0.81). MolNFT v1 #65761 on GenesisL1: 3D…
- PDB
- 3H6G
- Type
- protein
- Length
- 760 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor, ionotropic kainate 2
- UniProt
- P42260
- Ligands
- NAG, CA
- Pockets
- 9 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 24% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Glutamate receptor, ionotropic kainate 2 | protein | 377 | 36% helix, 24% strand | P42260 |
| B | Glutamate receptor, ionotropic kainate 2 | protein | 383 | 36% helix, 23% strand | P42260 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 8 copies · chains A, B
- CA · Calcium ion · metal · 2 copies · chains A, B
- TLA · L(+)-tartaric acid · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 941 | 0.81 | 0.83 | 96 | TLA |
| 2 | 199 | 0.58 | 0.81 | 38 | empty |
| 3 | 204 | 0.54 | 0.78 | 24 | empty |
| 4 | 138 | 0.46 | 0.77 | 27 | empty |
| 5 | 73 | 0.34 | 0.75 | 20 | empty |
Interfaces
1 interface between chains.
- A–B · 1594 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 glycan, 2 disulfide (N-glycosylation, disulfide).
Compared structures
- 3H6G · Crystal structure of the GluR6 amino terminal domain dimer assembly · the same entry in another collection · chain A against A, TM-score 1.00
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 P42260
- Elsewhere: RCSB PDB 3H6G · PDBe 3H6G · UniProt P42260
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