Research workbench
Cryo-EM structure of the cholecystokinin receptor cckbr in complex with gastrin-17 and gi
Analyse Cryo-EM structure of the cholecystokinin receptor cckbr 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
- 7F8V
- Type
- protein
- Length
- 848 residues
- Chains
- 5
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I) subunit alpha-2; Guanine nucleotide-binding…
- UniProt
- P04899, P62873, P59768, P32239
- Pockets
- 5 · best druggability 0.81
Structure
electron microscopy · 5 distinct chains · 39% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-2 | protein | 217 | 43% helix, 17% strand | P04899 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 306 | 0% helix, 48% strand | P62873 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 33 | 45% helix, 0% strand | P59768 |
| E | Gastrin-17 | protein | 17 | 0% helix, 0% strand | — |
| R | GASTRIN/CHOLECYSTOKININ type B receptor | protein | 275 | 80% helix, 1% strand | P32239 |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 672 | 0.81 | 0.85 | 70 | empty |
| 2 | 950 | 0.72 | 0.76 | 69 | empty |
| 3 | 225 | 0.51 | 0.76 | 27 | empty |
| 4 | 58 | 0.44 | 0.82 | 11 | empty |
| 5 | 108 | 0.34 | 0.73 | 19 | empty |
Interfaces
5 interfaces between chains.
- E–R · 1324 Ų buried · 20 hydrogen bonds · protein-protein
- A–B · 1276 Ų buried · 15 hydrogen bonds · protein-protein
- B–C · 1157 Ų buried · 5 hydrogen bonds · protein-protein
- A–R · 976 Ų buried · 5 hydrogen bonds · protein-protein
- B–R · 31 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 2 modified, 1 disulfide (disulfide, cyclization, nonstandard).
Compared structures
- 7F8V · Cryo-EM structure of the cholecystokinin receptor CCKBR in complex with gastrin-17 and Gi · the same entry in another collection · chain R against R, TM-score 1.00
- 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
- P32239 · AlphaFold monomer V2.0 prediction for GASTRIN/CHOLECYSTOKININ type B receptor (P32239) · a predicted model of the same protein · chain R against A, TM-score 0.93
- P04899 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain A against A, TM-score 0.84
- 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 C against A, TM-score 0.78
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 P04899
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P32239
- Elsewhere: RCSB PDB 7F8V · PDBe 7F8V · UniProt P04899 · UniProt P62873 · UniProt P59768 · UniProt P32239
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