Research workbench
Solution structure and base perturbation studies reveal a novel mode of alkylated base recognition by 3-methyladenine DNA glycosylase I
Analyse Solution structure and base perturbation studies reveal a novel mode of… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1P7M
- Type
- protein
- Length
- 187 residues
- Chains
- 1
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA-3-methyladenine glycosylase I
- EC
- 3.2.2.20
- UniProt
- P05100
- Ligands
- ADK, ZN
- Pockets
- 4 · best druggability 0.63
Structure
solution nmr · 1 distinct chain · 55% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA-3-methyladenine glycosylase I (EC 3.2.2.20) | protein | 187 | 55% helix, 2% strand | P05100 |
Ligands and binding sites
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 | 192 | 0.63 | 0.83 | 24 | empty |
| 2 | 105 | 0.46 | 0.79 | 17 | ADK |
| 3 | 54 | 0.42 | 0.82 | 15 | empty |
| 4 | 54 | 0.34 | 0.78 | 17 | empty |
Compared structures
- 1P7M · Solution structure and base perturbation studies reveal a novel mode of alkylated base… · the same entry in another collection · chain A against A, TM-score 1.00
- P05100 · AlphaFold monomer V2.0 prediction for DNA-3-methyladenine glycosylase 1 (P05100) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 P05100
- Elsewhere: RCSB PDB 1P7M · PDBe 1P7M · UniProt P05100
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