Research workbench
Crystal structure of OlmO, a spirocyclase involved in the biosynthesis of oligomycin
Analyse Crystal structure of OlmO, a spirocyclase involved in the biosynthesis of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7SFN
- Type
- protein
- Length
- 301 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.1
- Source
- Streptomyces avermitilis
- Molecule
- OlmO - oligomycin spirocyclase
- UniProt
- Q93HI7
- Ligands
- MLT
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · resolution 2.1 · 2 distinct chains · 11% helix, 61% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | OlmO - oligomycin spirocyclase | protein | 148 | 10% helix, 62% strand | Q93HI7 |
| B | OlmO - oligomycin spirocyclase | protein | 153 | 12% helix, 59% strand | Q93HI7 |
Ligands and binding sites
- MLT · D-malate · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 612 | 0.70 | 0.78 | 59 | empty |
| 2 | 397 | 0.69 | 0.81 | 34 | empty |
| 3 | 51 | 0.32 | 0.78 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 1218 Ų buried · 20 hydrogen bonds · protein-protein
Compared structures
- 7SFN · Crystal structure of olmo, a spirocyclase involved in the biosynthesis of oligomycin · 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 Q93HI7
- Elsewhere: RCSB PDB 7SFN · PDBe 7SFN · UniProt Q93HI7
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