MolNFT v1 · #92788 · protein
Crystal structure of renin in complex with PKF909-724 (compound 3)
4GJ8: “Crystal structure of renin in complex with PKF909-724 (compound 3)”. X-ray diffraction, 4 ligands (0LU, 0LW, NAG), 1 pocket (best druggability 0.85). MolNFT v1 #92788 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4GJ8
- Type
- protein
- Length
- 669 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Renin
- EC
- 3.4.23.15
- UniProt
- P00797
- Ligands
- 0LU, 0LW, NAG, SO4
- Pockets
- 1 · best druggability 0.85
Structure
x-ray diffraction · 2 distinct chains · 15% helix, 45% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Renin (EC 3.4.23.15) | protein | 334 | 15% helix, 45% strand | P00797 |
| B | Renin (EC 3.4.23.15) | protein | 335 | 15% helix, 44% strand | P00797 |
Ligands and binding sites
- 0LU · (2S)-1-(pyrrolidin-1-yl)-3-(9H-thioxanthen-9-yl)propan-2-ol · ligand · 2 copies · chains A, B
- 0LW · (2R)-1-(pyrrolidin-1-yl)-3-(9H-thioxanthen-9-yl)propan-2-ol · ligand · chains B
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 845 | 0.85 | 0.87 | 100 | 0LU, SO4, 0LW |
Interfaces
1 interface between chains.
- A–B · 720 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 2 glycan (disulfide, N-glycosylation).
Compared structures
- 4GJ8 · Crystal structure of renin in complex with PKF909-724 (compound 3) · the same entry in another collection · chain A against A, TM-score 1.00
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 P00797
- Elsewhere: RCSB PDB 4GJ8 · PDBe 4GJ8 · UniProt P00797
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.