MolNFT v1 · #154980 · protein
Rat GLUD1 RECEPTOR(SPLAYED conformation) in complex with 7-cka and calcium ions
6KSP · Glutamate receptor ionotropic, delta-1: “Rat GLUD1 RECEPTOR(SPLAYED conformation) in complex with 7-cka and calcium ions”. Electron microscopy, 20 pockets (best druggability 0.89). MolNFT v1 #154980 on GenesisL1: 3D structure…
- PDB
- 6KSP
- Type
- protein
- Length
- 3,012 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Glutamate receptor ionotropic, delta-1
- UniProt
- Q62640
- Pockets
- 20 · best druggability 0.89
Structure
electron microscopy · 1 distinct chain · 36% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Glutamate receptor ionotropic, delta-1 | protein | 753 | 36% helix, 16% strand | Q62640 |
Pockets
20 pockets found on a 1 Å grid, 20 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 948 | 0.89 | 0.91 | 114 | empty |
| 2 | 989 | 0.87 | 0.88 | 131 | empty |
| 3 | 908 | 0.86 | 0.87 | 130 | empty |
| 4 | 1043 | 0.84 | 0.85 | 103 | empty |
| 5 | 1073 | 0.84 | 0.85 | 124 | empty |
Interfaces
5 interfaces between chains.
- A–B · 4039 Ų buried · 66 hydrogen bonds · protein-protein
- C–D · 3902 Ų buried · 68 hydrogen bonds · protein-protein
- B–C · 842 Ų buried · 4 hydrogen bonds · protein-protein
- A–D · 814 Ų buried · 3 hydrogen bonds · protein-protein
- A–C · 425 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 14 disulfide (disulfide).
Compared structures
- 6KSP · Rat GluD1 receptor(splayed conformation) in complex with 7-CKA and Calcium ions · the same entry in another collection · chain C against C, TM-score 1.00
- Q62640 · AlphaFold monomer V2.0 prediction for glutamate receptor ionotropic, delta-1 (Q62640) · a predicted model of the same protein · chain A against A, TM-score 0.60
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 Q62640
- Elsewhere: RCSB PDB 6KSP · PDBe 6KSP · UniProt Q62640
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