Research workbench
Structure of synthetic nanobody-stabilized angiotensin II type 1 receptor bound to angiotensin II
Analyse Structure of synthetic nanobody-stabilized angiotensin II type 1 receptor bound… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OS0
- Type
- protein
- Length
- 529 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Type-1 angiotensin II RECEPTOR,SOLUBLE cytochrome B562 bril fusion protein; Nanobody…
- UniProt
- P30556, P0ABE7, P01019
- Ligands
- NAG, CL
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 3 distinct chains · 56% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Type-1 angiotensin II RECEPTOR,SOLUBLE cytochrome B562 bril fusion protein | protein | 395 | 74% helix, 4% strand | P30556, P0ABE7 |
| D | Nanobody NB.AT110I1 | protein | 126 | 2% helix, 49% strand | — |
| B | Angiotensinogen | protein | 8 | 0% helix, 38% strand | P01019 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
- CL · Chloride ion · ion · 2 copies · chains A, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 819 | 0.75 | 0.79 | 63 | CL |
| 2 | 113 | 0.40 | 0.75 | 23 | empty |
| 3 | 54 | 0.36 | 0.79 | 11 | empty |
| 4 | 70 | 0.30 | 0.74 | 14 | empty |
Interfaces
2 interfaces between chains.
- A–D · 1552 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1019 Ų buried · 17 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 3 disulfide, 1 glycan (disulfide, N-glycosylation).
Compared structures
- 6OS0 · Structure of synthetic nanobody-stabilized angiotensin II type 1 receptor bound to… · the same entry in another collection · chain A against A, TM-score 1.00
- P30556 · AlphaFold monomer V2.0 prediction for type-1 angiotensin II receptor (P30556) · a predicted model of the same protein · chain A against A, TM-score 0.70
- P01019 · AlphaFold monomer V2.0 prediction for angiotensinogen (P01019) · a predicted model of the same protein · chain B against A, TM-score 0.30
- P0ABE7 · AlphaFold monomer V2.0 prediction for soluble cytochrome B562 (P0ABE7) · a predicted model of the same protein · chain A against A, TM-score 0.26
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 P30556
- Every structure of UniProt P0ABE7
- Every structure of UniProt P01019
- Elsewhere: RCSB PDB 6OS0 · PDBe 6OS0 · UniProt P30556 · UniProt P0ABE7 · UniProt P01019
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