Research workbench
Structural and catalytic analysis of two diverse uridine phosphorylases in the oomycete phytophthora capsici.
Analyse Structural and catalytic analysis of two diverse uridine phosphorylases in the… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6KD3
- Type
- protein
- Length
- 588 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uridine phosphorylase
- EC
- 2.4.2.3
- Pockets
- 5 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 30% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Uridine phosphorylase (EC 2.4.2.3) | protein | 294 | 30% helix, 17% strand | — |
Pockets
5 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 899 | 0.83 | 0.85 | 127 | empty |
| 2 | 430 | 0.72 | 0.83 | 45 | empty |
| 3 | 422 | 0.71 | 0.82 | 39 | empty |
| 4 | 65 | 0.36 | 0.77 | 18 | empty |
| 5 | 51 | 0.35 | 0.79 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 2397 Ų buried · 22 hydrogen bonds · protein-protein
Compared structures
- 6KD3 · Structural and catalytic analysis of two diverse uridine phosphorylases in the oomycete… · 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
- Elsewhere: RCSB PDB 6KD3 · PDBe 6KD3
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