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The crystal structure of a natural product biosynthetic enzyme from streptomyces sp. CB03234
Analyse The crystal structure of a natural product biosynthetic enzyme from… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5UHJ
- Type
- protein
- Length
- 245 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GLYOXALASE/BLEOMYCIN resisance PROTEIN/DIOXYGENASE
- UniProt
- A0A125SA24
- Pockets
- 3 · best druggability 0.43
Structure
x-ray diffraction · 2 distinct chains · 17% helix, 40% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | GLYOXALASE/BLEOMYCIN resisance PROTEIN/DIOXYGENASE | protein | 123 | 17% helix, 41% strand | A0A125SA24 |
| B | GLYOXALASE/BLEOMYCIN resisance PROTEIN/DIOXYGENASE | protein | 122 | 17% helix, 39% strand | A0A125SA24 |
Ligands and binding sites
- FMT · Formic acid · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 117 | 0.43 | 0.77 | 23 | empty |
| 2 | 77 | 0.37 | 0.77 | 15 | empty |
| 3 | 88 | 0.37 | 0.76 | 17 | empty |
Interfaces
1 interface between chains.
- A–B · 385 Ų buried · 2 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 5UHJ · The crystal structure of a natural product biosynthetic enzyme from Streptomyces sp.… · 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 A0A125SA24
- Elsewhere: RCSB PDB 5UHJ · PDBe 5UHJ · UniProt A0A125SA24
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