MolNFT v1 · #102212 · protein
X-ray structure of unliganded uridine phosphorylase from yersinia pseudotuberculosis at 1.4 a resolution
4OF4: “X-ray structure of unliganded uridine phosphorylase from yersinia pseudotuberculosis at 1.4 a resolution”. X-ray diffraction, 1 ligand (NA), 4 pockets (best druggability 0.73). MolNFT v1 #102212 on GenesisL1: 3D structure, binding…
- PDB
- 4OF4
- Type
- protein
- Length
- 502 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uridine phosphorylase
- EC
- 2.4.2.3
- UniProt
- Q7AZX0
- Ligands
- NA
- Pockets
- 4 · best druggability 0.73
Structure
x-ray diffraction · 1 distinct chain · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Uridine phosphorylase (EC 2.4.2.3) | protein | 251 | 32% helix, 28% strand | Q7AZX0 |
Ligands and binding sites
- NA · Sodium ion · metal · chains A, B
- EDO · 1,2-ethanediol · additive · 3 copies · chains A, B
- PEG · Di(hydroxyethyl)ether · additive · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 512 | 0.73 | 0.82 | 49 | EDO |
| 2 | 489 | 0.71 | 0.81 | 50 | empty |
| 3 | 78 | 0.31 | 0.73 | 21 | EDO |
| 4 | 83 | 0.31 | 0.73 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 2080 Ų buried · 32 hydrogen bonds · protein-protein
Compared structures
- 4OF4 · X-ray structure of unliganded uridine phosphorylase from Yersinia pseudotuberculosis at… · the same entry in another collection · chain B against B, 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 Q7AZX0
- Elsewhere: RCSB PDB 4OF4 · PDBe 4OF4 · UniProt Q7AZX0
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.