Research workbench
Structure of regulator of G protein signaling 8 (RGS8) in complex with AlF4-activated Galpha-q
Analyse Structure of regulator of G protein signaling 8 (RGS8) in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5DO9
- Type
- protein
- Length
- 1,343 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.6
- Source
- Homo sapiens; Mus musculus
- Molecule
- Guanine nucleotide-binding protein G(q) subunit alpha; Regulator of G-protein signaling 8
- UniProt
- P21279, P57771
- Ligands
- GDP, ALF, MG
- Pockets
- 13 · best druggability 0.77
Structure
x-ray diffraction · resolution 2.6 · 3 distinct chains · 53% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, C | Guanine nucleotide-binding protein G(q) subunit alpha | protein | 314 | 50% helix, 13% strand | P21279 |
| B, D, F | Regulator of G-protein signaling 8 | protein | 134 | 67% helix, 0% strand | P57771 |
| E | Guanine nucleotide-binding protein G(q) subunit alpha | protein | 313 | 50% helix, 14% strand | P21279 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 3 copies · chains A, C, E
- ALF · Tetrafluoroaluminate ion · ligand · 3 copies · chains A, C, E
- MG · Magnesium ion · metal · 3 copies · chains A, C, E
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 10 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 690 | 0.77 | 0.82 | 61 | empty |
| 2 | 637 | 0.77 | 0.83 | 71 | GDP, ALF, MG |
| 3 | 615 | 0.77 | 0.83 | 69 | GDP, ALF, MG |
| 4 | 678 | 0.76 | 0.82 | 48 | empty |
| 5 | 617 | 0.76 | 0.83 | 73 | GDP, ALF, MG |
Interfaces
8 interfaces between chains.
- C–D · 1051 Ų buried · 16 hydrogen bonds · protein-protein
- E–F · 1001 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 1000 Ų buried · 15 hydrogen bonds · protein-protein
- C–E · 523 Ų buried · 2 hydrogen bonds · protein-protein
- D–E · 159 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 5DO9 · Structure of regulator of G protein signaling 8 (RGS8) in complex with ALF4-activated… · the same entry in another collection · chain F against F, TM-score 1.00
- P21279 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(Q) subunit… · a predicted model of the same protein · chain E against A, TM-score 0.98
- P57771 · AlphaFold monomer V2.0 prediction for regulator of G-protein signaling 8 (P57771) · a predicted model of the same protein · chain B against A, TM-score 0.93
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 P21279
- Every structure of UniProt P57771
- Elsewhere: RCSB PDB 5DO9 · PDBe 5DO9 · UniProt P21279 · UniProt P57771
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