MolNFT v1 · #184024 · protein
Oligopeptidase B from S. proteomaculans with modified hinge
7OB1: “Oligopeptidase B from S. proteomaculans with modified hinge”. X-ray diffraction, 1 ligand (SPM), 7 pockets (best druggability 0.67). MolNFT v1 #184024 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7OB1
- Type
- protein
- Length
- 677 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Oligopeptidase B
- UniProt
- B3VI58
- Ligands
- SPM
- Pockets
- 7 · best druggability 0.67
Structure
x-ray diffraction · 1 distinct chain · 22% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Oligopeptidase B | protein | 677 | 22% helix, 34% strand | B3VI58 |
Ligands and binding sites
- SPM · Spermine · ligand · 5 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 712 | 0.67 | 0.75 | 66 | SPM |
| 2 | 538 | 0.61 | 0.74 | 54 | SPM |
| 3 | 510 | 0.59 | 0.74 | 59 | empty |
| 4 | 200 | 0.43 | 0.72 | 24 | empty |
| 5 | 84 | 0.37 | 0.77 | 13 | empty |
Compared structures
- 7OB1 · Oligopeptidase B from S. proteomaculans with modified hinge · 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 B3VI58
- Elsewhere: RCSB PDB 7OB1 · PDBe 7OB1 · UniProt B3VI58
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