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CryoEM structure of beta-2-adrenergic receptor in complex with nucleotide-free Gs heterotrimer (#11 of 20)
Analyse CryoEM structure of beta-2-adrenergic receptor in complex with nucleotide-free… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8GEA
- Type
- protein
- Length
- 902 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.5
- Source
- Homo sapiens
- Molecule
- Guanine nucleotide-binding protein G(s) subunit alpha isoforms short; Guanine…
- UniProt
- P63092, P62873, P59768, P07550
- Ligands
- G1I
- Pockets
- 7 · best druggability 0.81
Structure
electron microscopy · resolution 3.5 · 4 distinct chains · 44% helix, 21% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | protein | 240 | 46% helix, 18% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 330 | 7% helix, 45% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 50 | 46% helix, 0% strand | P59768 |
| R | Beta-2 adrenergic receptor | protein | 282 | 84% helix, 0% strand | P07550 |
Ligands and binding sites
- G1I · (5R,6R)-6-(methylamino)-5,6,7,8-tetrahydronaphthalene-1,2,5-triol · ligand · chains R
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 782 | 0.81 | 0.84 | 67 | empty |
| 2 | 304 | 0.71 | 0.84 | 36 | G1I |
| 3 | 982 | 0.71 | 0.75 | 71 | empty |
| 4 | 158 | 0.45 | 0.75 | 21 | empty |
| 5 | 130 | 0.44 | 0.77 | 32 | empty |
Interfaces
4 interfaces between chains.
- B–G · 1988 Ų buried · 13 hydrogen bonds · protein-protein
- A–B · 1240 Ų buried · 6 hydrogen bonds · protein-protein
- A–R · 1131 Ų buried · 6 hydrogen bonds · protein-protein
- B–R · 73 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- P62873 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain B against A, TM-score 1.00
- P07550 · AlphaFold monomer V2.0 prediction for beta-2 adrenergic receptor (P07550) · a predicted model of the same protein · chain R against A, TM-score 0.95
- P59768 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain G against A, TM-score 0.89
- P63092 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(S) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.85
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 P63092
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P07550
- Elsewhere: RCSB PDB 8GEA · PDBe 8GEA · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P07550
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