MolNFT v1 · #190502 · protein
Structure of somatostatin receptor 2 bound with lanreotide.
7XAV · Somatostatin receptor type 2,LARGEBIT: “Structure of somatostatin receptor 2 bound with lanreotide.”. Electron microscopy, 14 pockets (best druggability 0.81). MolNFT v1 #190502 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 7XAV
- Type
- protein
- Length
- 1,141 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Somatostatin receptor type 2,LARGEBIT; Guanine nucleotide-binding protein G(I) subunit…
- UniProt
- P30874, P63096, P62871, P63212
- Pockets
- 14 · best druggability 0.81
Structure
electron microscopy · 6 distinct chains · 25% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Somatostatin receptor type 2,LARGEBIT | protein | 280 | 53% helix, 1% strand | P30874 |
| B | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 222 | 36% helix, 14% strand | P63096 |
| C | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 342 | 7% helix, 42% strand | P62871 |
| D | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 58 | 45% helix, 0% strand | P63212 |
| E | SCFV16 | protein | 233 | 1% helix, 45% strand | — |
| F | Lanreotide | protein | 6 | 0% helix, 0% strand | — |
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 677 | 0.81 | 0.85 | 66 | empty |
| 2 | 1003 | 0.72 | 0.76 | 76 | empty |
| 3 | 168 | 0.63 | 0.85 | 28 | empty |
| 4 | 252 | 0.53 | 0.76 | 33 | empty |
| 5 | 157 | 0.52 | 0.79 | 30 | empty |
Interfaces
7 interfaces between chains.
- C–D · 2223 Ų buried · 21 hydrogen bonds · protein-protein
- B–C · 1238 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1168 Ų buried · 11 hydrogen bonds · protein-protein
- A–F · 703 Ų buried · 4 hydrogen bonds · protein-protein
- B–E · 573 Ų buried · 6 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 5 disulfide, 1 d-amino (disulfide, D-amino acid).
Compared structures
- 7XAV · Structure of somatostatin receptor 2 bound with lanreotide. · the same entry in another collection · chain F against F, TM-score 1.00
- P62871 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(T)… · a predicted model of the same protein · chain C 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 A against A, TM-score 0.88
- P63096 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I) subunit… · a predicted model of the same protein · chain B against A, TM-score 0.83
- P63212 · AlphaFold monomer V2.0 prediction for guanine nucleotide-binding protein G(I)/G(S)/G(O)… · a predicted model of the same protein · chain D against A, TM-score 0.66
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 P30874
- Every structure of UniProt P63096
- Every structure of UniProt P62871
- Every structure of UniProt P63212
- Elsewhere: RCSB PDB 7XAV · PDBe 7XAV · UniProt P30874 · UniProt P63096 · UniProt P62871 · UniProt P63212
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