Research workbench
Family 4 uracil-DNA glycosylase from sulfolobus tokodaii (uracil complex form)
Analyse Family 4 uracil-DNA glycosylase from sulfolobus tokodaii (uracil complex form) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4ZBY
- Type
- protein
- Length
- 194 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Uracil-DNA glycosylase
- EC
- 3.2.2.27
- UniProt
- Q96YD0
- Ligands
- SF4, URA
- Pockets
- 1 · best druggability 0.48
Structure
x-ray diffraction · 1 distinct chain · 49% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Uracil-DNA glycosylase (EC 3.2.2.27) | protein | 194 | 49% helix, 15% strand | Q96YD0 |
Ligands and binding sites
- SF4 · Iron/sulfur cluster · ligand · chains A
- URA · Uracil · ligand · chains A
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 181 | 0.48 | 0.76 | 30 | URA, MES |
Compared structures
- 4ZBY · Family 4 uracil-DNA glycosylase from Sulfolobus tokodaii (uracil complex form) · the same entry in another collection · chain A against A, TM-score 1.00
- Q96YD0 · AlphaFold monomer V2.0 prediction for type-4 uracil-DNA glycosylase (Q96YD0) · a predicted model of the same protein · 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 Q96YD0
- Elsewhere: RCSB PDB 4ZBY · PDBe 4ZBY · UniProt Q96YD0
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