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CryoEM structure of beta-2-adrenergic receptor in complex with GTP-bound Gs heterotrimer (transition intermediate #7 of 20)
Analyse CryoEM structure of beta-2-adrenergic receptor in complex with GTP-bound Gs… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8GG1
- Type
- protein
- Length
- 896 residues
- Chains
- 4
- Method
- electron microscopy
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3.0
- Source
- Homo sapiens
- Molecule
- Guanine nucleotide-binding protein G(s) subunit alpha isoforms short; Guanine…
- UniProt
- P63092, P62873, P59768, P07550
- Ligands
- GTP, G1I
- Pockets
- 10 · best druggability 0.82
Structure
electron microscopy · resolution 3.0 · 4 distinct chains · 43% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(s) subunit alpha isoforms short | protein | 231 | 47% helix, 19% strand | P63092 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 331 | 6% helix, 46% strand | P62873 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 52 | 58% helix, 0% strand | P59768 |
| R | Beta-2 adrenergic receptor | protein | 282 | 81% helix, 0% strand | P07550 |
Ligands and binding sites
- GTP · Guanosine-5'-triphosphate · ligand · chains A
- 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
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1015 | 0.82 | 0.83 | 68 | empty |
| 2 | 407 | 0.76 | 0.86 | 41 | G1I |
| 3 | 913 | 0.72 | 0.76 | 88 | empty |
| 4 | 106 | 0.64 | 0.88 | 20 | empty |
| 5 | 52 | 0.52 | 0.88 | 13 | empty |
Interfaces
4 interfaces between chains.
- B–G · 2008 Ų buried · 10 hydrogen bonds · protein-protein
- A–R · 1234 Ų buried · 9 hydrogen bonds · protein-protein
- A–B · 1233 Ų buried · 10 hydrogen bonds · protein-protein
- B–R · 80 Ų buried · 1 hydrogen bond · 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 0.99
- 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 0.93
- 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
- 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 0.83
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 8GG1 · PDBe 8GG1 · UniProt P63092 · UniProt P62873 · UniProt P59768 · UniProt P07550
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