Research workbench
Active state of GLUA1/2 in complex with tarp gamma 8, L-glutamate and ctz
Analyse Active state of GLUA1/2 in complex with tarp gamma 8, L-glutamate and ctz in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7QHB
- Type
- protein
- Length
- 1,962 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Isoform flip of glutamate receptor 1; Isoform flip of glutamate receptor 2…
- UniProt
- P19490, P19491, Q8VHW5
- Ligands
- PAM, GLU, CYZ, 79N
- Pockets
- 20 · best druggability 0.77
Structure
electron microscopy · 3 distinct chains · 50% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Isoform flip of glutamate receptor 1 | protein | 398 | 48% helix, 12% strand | P19490 |
| B, D | Isoform flip of glutamate receptor 2 | protein | 398 | 48% helix, 14% strand | P19491 |
| I, J | Voltage-dependent calcium channel gamma-8 subunit | protein | 185 | 61% helix, 8% strand | Q8VHW5 |
Ligands and binding sites
- PAM · Palmitoleic acid · ligand · 14 copies · chains A, B, I, C, D, J
- GLU · Glutamic acid · ligand · 4 copies · chains A, B, C, D
- CYZ · Cyclothiazide · ligand · 4 copies · chains A, B, C, D
- 79N · (2S)-2,3-dihydroxypropyl (7Z)-hexadec-7-enoate · ligand · 4 copies · chains A, D, B, C
- OLC · (2R)-2,3-dihydroxypropyl (9Z)-octadec-9-enoate · additive · 2 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 478 | 0.77 | 0.85 | 46 | empty |
| 2 | 505 | 0.76 | 0.84 | 57 | CYZ |
| 3 | 198 | 0.75 | 0.91 | 48 | empty |
| 4 | 509 | 0.75 | 0.83 | 58 | CYZ |
| 5 | 55 | 0.71 | 0.98 | 16 | GLU |
Interfaces
8 interfaces between chains.
- C–D · 2775 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 2772 Ų buried · 17 hydrogen bonds · protein-protein
- A–D · 1821 Ų buried · 5 hydrogen bonds · protein-protein
- B–C · 1819 Ų buried · 5 hydrogen bonds · protein-protein
- A–J · 753 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 7QHB · Active state of GluA1/2 in complex with TARP gamma 8, L-glutamate and CTZ · the same entry in another collection · chain J against J, TM-score 1.00
- Q8VHW5 · AlphaFold monomer V2.0 prediction for voltage-dependent calcium channel gamma-8 subunit… · a predicted model of the same protein · chain I against A, TM-score 0.94
- P19491 · AlphaFold monomer V2.0 prediction for glutamate receptor 2 (P19491) · a predicted model of the same protein · chain B against A, TM-score 0.87
- P19490 · AlphaFold monomer V2.0 prediction for glutamate receptor 1 (P19490) · a predicted model of the same protein · chain A against A, TM-score 0.68
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 P19490
- Every structure of UniProt P19491
- Every structure of UniProt Q8VHW5
- Elsewhere: RCSB PDB 7QHB · PDBe 7QHB · UniProt P19490 · UniProt P19491 · UniProt Q8VHW5
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