Research workbench
Crystal structure of 3-methyladenine DNA glycosylase I (tag)
Analyse Crystal structure of 3-methyladenine DNA glycosylase I (tag) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2OFK
- Type
- protein
- Length
- 365 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 3-methyladenine DNA glycosylase I, constitutive
- UniProt
- Q8Z2A5
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.69
Structure
x-ray diffraction · 2 distinct chains · 55% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 3-methyladenine DNA glycosylase I, constitutive | protein | 182 | 55% helix, 2% strand | Q8Z2A5 |
| B | 3-methyladenine DNA glycosylase I, constitutive | protein | 183 | 55% helix, 2% strand | Q8Z2A5 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
- PGE · Triethylene glycol · additive · 8 copies · 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, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 172 | 0.69 | 0.88 | 27 | PGE |
| 2 | 129 | 0.48 | 0.79 | 18 | PGE |
| 3 | 60 | 0.42 | 0.82 | 15 | empty |
| 4 | 64 | 0.36 | 0.78 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 625 Ų buried · 11 hydrogen bonds · protein-protein
Compared structures
- 2OFK · Crystal Structure of 3-methyladenine DNA glycosylase I (TAG) · 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 Q8Z2A5
- Elsewhere: RCSB PDB 2OFK · PDBe 2OFK · UniProt Q8Z2A5
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