MolNFT v1 · #41208 · protein
Crystal structure of mouse acetylcholinesterase inhibited by aged diisopropyl fluorophosphate (dfp)
2JGM: “Crystal structure of mouse acetylcholinesterase inhibited by aged diisopropyl fluorophosphate (dfp)”. X-ray diffraction, 1 ligand (NAG), 14 pockets (best druggability 0.77). MolNFT v1 #41208 on GenesisL1: 3D structure, binding sites…
- PDB
- 2JGM
- Type
- protein
- Length
- 1,065 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Acetylcholinesterase
- EC
- 3.1.1.7
- UniProt
- P21836
- Ligands
- NAG
- Pockets
- 14 · best druggability 0.77
Structure
x-ray diffraction · 2 distinct chains · 38% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Acetylcholinesterase (EC 3.1.1.7) | protein | 535 | 38% helix, 18% strand | P21836 |
| B | Acetylcholinesterase (EC 3.1.1.7) | protein | 530 | 38% helix, 18% strand | P21836 |
Ligands and binding sites
- NAG · 2-acetamido-2-deoxy-beta-D-glucopyranose · sugar · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
14 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 250 | 0.77 | 0.90 | 32 | empty |
| 2 | 227 | 0.76 | 0.90 | 32 | empty |
| 3 | 266 | 0.63 | 0.81 | 43 | empty |
| 4 | 304 | 0.60 | 0.78 | 39 | empty |
| 5 | 282 | 0.57 | 0.77 | 35 | empty |
Interfaces
1 interface between chains.
- A–B · 966 Ų buried · 9 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 disulfide, 2 modified, 1 glycan (disulfide, nonstandard, N-glycosylation).
Compared structures
- 2JGM · Crystal structure of mouse acetylcholinesterase inhibited by aged diisopropyl… · the same entry in another collection · chain A against A, TM-score 1.00
- P21836 · AlphaFold monomer V2.0 prediction for acetylcholinesterase (P21836) · a predicted model of the same protein · chain B 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 P21836
- Elsewhere: RCSB PDB 2JGM · PDBe 2JGM · UniProt P21836
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