MolNFT v1 · #190129 · protein
Cryo-EM structure of the ss-14-bound human SSTR2-GI1 complex
7WIC · Somatostatin-14: “Cryo-EM structure of the ss-14-bound human SSTR2-GI1 complex”. Electron microscopy, 11 pockets (best druggability 0.83). MolNFT v1 #190129 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7WIC
- Type
- protein
- Length
- 1,158 residues
- Chains
- 6
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Somatostatin-14; Somatostatin receptor type 2; Guanine nucleotide-binding protein G(I)…
- UniProt
- P30874, P63096, P54311, P63212
- Pockets
- 11 · best druggability 0.83
Structure
electron microscopy · 6 distinct chains · 33% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| L | Somatostatin-14 | protein | 14 | 0% helix, 14% strand | — |
| R | Somatostatin receptor type 2 | protein | 288 | 78% helix, 1% strand | P30874 |
| A | Guanine nucleotide-binding protein G(I) subunit alpha-1 | protein | 225 | 43% helix, 18% strand | P63096 |
| B | Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 | protein | 339 | 7% helix, 47% strand | P54311 |
| G | Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 | protein | 58 | 53% helix, 0% strand | P63212 |
| S | Single Fab chain (SVFV16) | protein | 234 | 4% helix, 47% strand | — |
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 857 | 0.83 | 0.85 | 67 | empty |
| 2 | 1085 | 0.73 | 0.76 | 85 | empty |
| 3 | 106 | 0.57 | 0.85 | 31 | empty |
| 4 | 230 | 0.54 | 0.77 | 29 | empty |
| 5 | 199 | 0.52 | 0.78 | 29 | empty |
Interfaces
7 interfaces between chains.
- B–G · 2255 Ų buried · 11 hydrogen bonds · protein-protein
- R–A · 1296 Ų buried · 7 hydrogen bonds · protein-protein
- A–B · 1179 Ų buried · 13 hydrogen bonds · protein-protein
- L–R · 1142 Ų buried · 9 hydrogen bonds · protein-protein
- A–S · 572 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
- 7WIC · Cryo-EM structure of the SS-14-bound human SSTR2-Gi1 complex · the same entry in another collection · chain S against S, TM-score 1.00
- P54311 · 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
- 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 0.90
- P63096 · 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 0.83
- 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 G 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 P54311
- Every structure of UniProt P63212
- Elsewhere: RCSB PDB 7WIC · PDBe 7WIC · UniProt P30874 · UniProt P63096 · UniProt P54311 · UniProt P63212
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