SMTL ID : 6g4m.1

Torpedo californica acetylcholinesterase bound to uncharged hybrid reactivator 1

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.63 Å

Oligo State

homo-dimer

Ligands

4 x DQ5: 2-[(~{E})-hydroxyiminomethyl]-6-[4-(1,2,3,4-tetrahydroacridin-9-ylamino)butyl]pyridin-3-ol(Non-covalent)

DQ5.1: 5 residues within 4Å: Chain A: Y.70, W.279, Y.334, G.335 Ligands: DQ5.2 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:Y.70, A:Y.70, A:W.279, A:W.279, A:Y.334 Hydrogen bonds: A:W.279 Water bridges: A:D.285 pi-Stacking: A:W.279, A:W.279 DQ5.2: 17 residues within 4Å: Chain A: W.84, G.118, Y.121, E.199, S.286, I.287, F.288, R.289, F.290, F.330, F.331, Y.334, W.432, I.439, H.440, Y.442 Ligands: DQ5.1 15 PLIP interactions: 15 interactions with chain A Hydrophobic interactions: A:F.330, A:F.331, A:Y.334, A:W.432, A:I.439, A:Y.442 Hydrogen bonds: A:Y.121, A:S.286, A:F.288, A:R.289, A:F.331 Water bridges: A:W.84 pi-Stacking: A:W.84, A:W.84, A:F.330 DQ5.6: 5 residues within 4Å: Chain B: Y.70, W.279, Y.334, G.335 Ligands: DQ5.7 9 PLIP interactions: 9 interactions with chain B Hydrophobic interactions: B:Y.70, B:W.279 Hydrogen bonds: B:Y.70, B:Y.70 Water bridges: B:Q.74, B:S.286 pi-Stacking: B:W.279, B:W.279, B:W.279 DQ5.7: 16 residues within 4Å: Chain B: D.72, W.84, G.118, Y.121, E.199, F.288, F.290, F.330, F.331, Y.334, W.432, I.439, H.440, G.441, Y.442 Ligands: DQ5.6 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:D.72, B:F.330, B:F.330, B:Y.334, B:Y.334, B:W.432, B:I.439, B:Y.442 Hydrogen bonds: B:F.288 pi-Stacking: B:W.84, B:W.84, B:F.330, B:F.330

4 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG.3: 1 residues within 4Å: Chain A: N.416 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.318 NAG.4: 1 residues within 4Å: Chain A: N.59 No protein-ligand interaction detected (PLIP) NAG.8: 3 residues within 4Å: Chain B: N.416, G.417, L.494 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.494 Water bridges: B:N.416, B:N.416 NAG.9: 2 residues within 4Å: Chain B: N.59, S.61 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.59, B:S.61

1 x CL: CHLORIDE ION(Non-functional Binders)

CL.5: 3 residues within 4Å: Chain A: V.246, L.256, D.259 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Santoni, G. et al., Structure-Based Optimization of Nonquaternary Reactivators of Acetylcholinesterase Inhibited by Organophosphorus Nerve Agents. J. Med. Chem. (2018)

Release Date

2018-08-29

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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