MolNFT v1 · #139108 · protein
Crystal structure of mimivirus uracil-DNA glycosylase
5X55 · Probable uracil-DNA glycosylase: “Crystal structure of mimivirus uracil-DNA glycosylase”. X-ray diffraction, 3 pockets (best druggability 0.84). MolNFT v1 #139108 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5X55
- Type
- protein
- Length
- 552 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Probable uracil-DNA glycosylase
- EC
- 3.2.2.-
- UniProt
- Q5UPT2
- Pockets
- 3 · best druggability 0.84
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 14% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Probable uracil-DNA glycosylase (EC 3.2.2.-) | protein | 276 | 38% helix, 14% strand | Q5UPT2 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1019 | 0.84 | 0.85 | 117 | empty |
| 2 | 136 | 0.43 | 0.75 | 21 | empty |
| 3 | 64 | 0.30 | 0.75 | 12 | empty |
Interfaces
1 interface between chains.
- A–B · 1468 Ų buried · 11 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 5X55 · Crystal structure of mimivirus uracil-DNA glycosylase · 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 Q5UPT2
- Elsewhere: RCSB PDB 5X55 · PDBe 5X55 · UniProt Q5UPT2
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