Research workbench
Structures of vaccinia virus uracil-DNA glycosylase in new crystal forms
Analyse Structures of vaccinia virus uracil-DNA glycosylase in new crystal forms in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4DOF
- Type
- protein
- Length
- 872 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uracil-DNA glycosylase
- EC
- 3.2.2.27
- UniProt
- Q91UM2
- Pockets
- 12 · best druggability 0.83
Structure
x-ray diffraction · 1 distinct chain · 38% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | Uracil-DNA glycosylase (EC 3.2.2.27) | protein | 218 | 38% helix, 17% strand | Q91UM2 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 915 | 0.83 | 0.85 | 83 | empty |
| 2 | 147 | 0.56 | 0.82 | 25 | empty |
| 3 | 178 | 0.54 | 0.79 | 30 | empty |
| 4 | 104 | 0.51 | 0.82 | 26 | empty |
| 5 | 87 | 0.50 | 0.83 | 16 | empty |
Interfaces
6 interfaces between chains.
- C–D · 669 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 547 Ų buried · 0 hydrogen bonds · protein-protein
- B–C · 275 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 242 Ų buried · 7 hydrogen bonds · protein-protein
- A–C · 229 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 4DOF · Structures of Vaccinia Virus Uracil-DNA Glycosylase in New Crystal Forms · 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 Q91UM2
- Elsewhere: RCSB PDB 4DOF · PDBe 4DOF · UniProt Q91UM2
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