Research workbench
Cryoem structure of somatostatin receptor 2 in complex with octreotide and GI3.
Analyse Cryoem structure of somatostatin receptor 2 in complex with octreotide and GI3. in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7T11
- Type
- protein
- Length
- 1,134 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Guanine nucleotide-binding protein G(I) subunit alpha-3; Guanine nucleotide-binding…
- UniProt
- P08754, P62873, P59768, P30874, P41145
- Pockets
- 15 · best druggability 0.82
Structure
electron microscopy · 6 distinct chains · 34% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Guanine nucleotide-binding protein G(I) subunit alpha-3 | protein | 218 | 46% helix, 17% strand | P08754 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 338 | 8% helix, 47% strand | P62873 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 57 | 56% helix, 0% strand | P59768 |
| S | SCFV16 | protein | 228 | 3% helix, 45% strand | — |
| P | Octreotide | protein | 8 | 0% helix, 50% strand | — |
| R | Somatostatin receptor type 2,KAPPA-type opioid receptor | protein | 285 | 76% helix, 3% strand | P30874, P41145 |
Pockets
15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1099 | 0.82 | 0.83 | 80 | empty |
| 2 | 135 | 0.72 | 0.91 | 27 | empty |
| 3 | 209 | 0.64 | 0.83 | 44 | empty |
| 4 | 260 | 0.62 | 0.80 | 29 | empty |
| 5 | 204 | 0.55 | 0.79 | 28 | empty |
Interfaces
6 interfaces between chains.
- B–C · 1960 Ų buried · 2 hydrogen bonds · protein-protein
- A–B · 976 Ų buried · 6 hydrogen bonds · protein-protein
- A–R · 890 Ų buried · 2 hydrogen bonds · protein-protein
- P–R · 854 Ų buried · 5 hydrogen bonds · protein-protein
- A–S · 436 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide, 2 d-amino, 1 modified (disulfide, D-amino acid, nonstandard).
Compared structures
- 7T11 · CryoEM structure of somatostatin receptor 2 in complex with Octreotide and Gi3. · the same entry in another collection · chain S against S, 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 0.98
- P30874 · AlphaFold monomer V2.0 prediction for somatostatin receptor type 2 (P30874) · a predicted model of the same protein · chain R against A, TM-score 0.87
- P41145 · AlphaFold monomer V2.0 prediction for kappa-type opioid receptor (P41145) · a predicted model of the same protein · chain R against A, TM-score 0.86
- 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 0.82
- P08754 · 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 0.82
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 P08754
- Every structure of UniProt P62873
- Every structure of UniProt P59768
- Every structure of UniProt P30874
- Every structure of UniProt P41145
- Elsewhere: RCSB PDB 7T11 · PDBe 7T11 · UniProt P08754 · UniProt P62873 · UniProt P59768 · UniProt P30874 · UniProt P41145
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