Research workbench
5'-nucleotidase (E. COLI) with an engineered disulfide bridge (P90C, L424C)
Analyse 5'-nucleotidase (E. COLI) with an engineered disulfide bridge (P90C, L424C) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1OI8
- Type
- protein
- Length
- 1,050 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein usha
- EC
- 3.1.3.5, 3.6.1.45
- UniProt
- P07024
- Ligands
- MN, SO4, CO3
- Pockets
- 8 · best druggability 0.72
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Protein usha (EC 3.1.3.5, 3.6.1.45) | protein | 525 | 30% helix, 30% strand | P07024 |
Ligands and binding sites
- MN · Manganese (II) ion · metal · 4 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- CO3 · Carbonate ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 688 | 0.72 | 0.79 | 71 | SO4, CO3 |
| 2 | 827 | 0.72 | 0.77 | 87 | SO4, CO3 |
| 3 | 381 | 0.69 | 0.81 | 45 | empty |
| 4 | 250 | 0.60 | 0.80 | 35 | empty |
| 5 | 245 | 0.58 | 0.79 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 222 Ų buried · 3 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 4 disulfide (disulfide).
Compared structures
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 P07024
- Elsewhere: RCSB PDB 1OI8 · PDBe 1OI8 · UniProt P07024
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