Research workbench
Crystal structure of somatostatin receptor 2 (SSTR2) with peptide antagonist cyn 154806
Analyse Crystal structure of somatostatin receptor 2 (SSTR2) with peptide antagonist… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7XNA
- Type
- protein
- Length
- 480 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Somatostatin receptor type 2,ENDO-1,4-beta-xylanase; Cyn 154806
- EC
- 3.2.1.8
- UniProt
- P30874, P09850
- Ligands
- ACE, NH2
- Pockets
- 6 · best druggability 0.56
Structure
x-ray diffraction · 2 distinct chains · 47% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Somatostatin receptor type 2,ENDO-1,4-beta-xylanase (EC 3.2.1.8) | protein | 472 | 48% helix, 27% strand | P30874, P09850 |
| B | Cyn 154806 | protein | 8 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 148 | 0.56 | 0.81 | 24 | empty |
| 2 | 189 | 0.47 | 0.75 | 26 | empty |
| 3 | 80 | 0.37 | 0.77 | 19 | empty |
| 4 | 75 | 0.32 | 0.74 | 17 | empty |
| 5 | 57 | 0.29 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 849 Ų buried · 8 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 d-amino, 2 disulfide, 1 covalent, 1 modified (D-amino acid, disulfide, covalent ligand, nonstandard).
Compared structures
- 7XNA · Crystal structure of somatostatin receptor 2 (SSTR2) with peptide antagonist CYN 154806 · the same entry in another collection · chain A against A, TM-score 1.00
- 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 0.60
- P09850 · AlphaFold monomer V2.0 prediction for endo-1,4-beta-xylanase (P09850) · a predicted model of the same protein · chain A against A, TM-score 0.39
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 P09850
- Elsewhere: RCSB PDB 7XNA · PDBe 7XNA · UniProt P30874 · UniProt P09850
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