MolNFT v1 · #190723 · protein
Intracellular subtilisin from bacillus sp.
7Y6M · Intracellular serine protease: “Intracellular subtilisin from bacillus sp.”. X-ray diffraction, 1 ligand (CA), 3 pockets (best druggability 0.60). MolNFT v1 #190723 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7Y6M
- Type
- protein
- Length
- 594 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Intracellular serine protease
- EC
- 3.4.21.-
- Ligands
- CA
- Pockets
- 3 · best druggability 0.60
Structure
x-ray diffraction · 2 distinct chains · 31% helix, 22% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| C, D | Intracellular serine protease (EC 3.4.21.-) | protein | 290 | 31% helix, 21% strand | — |
| A, B | Intracellular serine protease (EC 3.4.21.-) | protein | 7 | 0% helix, 57% strand | — |
Ligands and binding sites
- CA · Calcium ion · metal · 4 copies · chains C, D
- PEG · Di(hydroxyethyl)ether · additive · 2 copies · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 302 | 0.60 | 0.78 | 37 | PEG, CA |
| 2 | 139 | 0.49 | 0.79 | 22 | empty |
| 3 | 148 | 0.48 | 0.78 | 21 | empty |
Interfaces
3 interfaces between chains.
- C–D · 1372 Ų buried · 19 hydrogen bonds · protein-protein
- D–B · 555 Ų buried · 10 hydrogen bonds · protein-protein
- C–A · 522 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 7Y6M · Intracellular Subtilisin from Bacillus sp. · the same entry in another collection · chain C against C, 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
- Elsewhere: RCSB PDB 7Y6M · PDBe 7Y6M
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.