Research workbench
X-ray structure of the unliganded uridine phosphorylase from salmonella typhimurium in homodimeric form at 1.76A resolution
Analyse X-ray structure of the unliganded uridine phosphorylase from salmonella… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OXF
- Type
- protein
- Length
- 475 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uridine phosphorylase
- EC
- 2.4.2.3
- UniProt
- P0A1F6
- Pockets
- 3 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 34% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uridine phosphorylase (EC 2.4.2.3) | protein | 250 | 34% helix, 28% strand | P0A1F6 |
| F | Uridine phosphorylase (EC 2.4.2.3) | protein | 225 | 34% helix, 32% strand | P0A1F6 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, F
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 | 465 | 0.70 | 0.80 | 41 | empty |
| 2 | 290 | 0.57 | 0.77 | 32 | empty |
| 3 | 57 | 0.28 | 0.74 | 23 | empty |
Interfaces
1 interface between chains.
- A–F · 1587 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 2OXF · X-ray structure of the unliganded uridine phosphorylase from Salmonella typhimurium in… · 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 P0A1F6
- Elsewhere: RCSB PDB 2OXF · PDBe 2OXF · UniProt P0A1F6
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