SMTL ID : 7r02.1

Mus musculus acetylcholinesterase in complex with N-(3-(diethylamino)propyl)-4-methyl-3-nitrobenzamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.30 Å

Oligo State

homo-dimer

Ligands

2 x I62: ~{N}-[(~{E})-3-(diethylamino)prop-2-enyl]-4-methyl-3-nitro-benzamide(Non-covalent)

I62.1: 11 residues within 4Å: Chain A: Y.72, D.74, Y.124, E.285, W.286, R.296, F.297, S.298, Y.337, F.338, Y.341 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:Y.72, A:E.285, A:W.286, A:Y.337, A:F.338, A:Y.341 Hydrogen bonds: A:E.285 Water bridges: A:Y.124 pi-Stacking: A:Y.72, A:Y.124, A:W.286, A:W.286 I62.10: 9 residues within 4Å: Chain B: Y.72, Y.124, E.285, W.286, F.297, S.298, Y.337, F.338, Y.341 13 PLIP interactions: 13 interactions with chain B Hydrophobic interactions: B:Y.72, B:Y.72, B:E.285, B:W.286, B:F.297, B:Y.337, B:Y.337, B:F.338, B:Y.341 Hydrogen bonds: B:E.285 pi-Stacking: B:Y.124, B:W.286, B:W.286

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

NAG.2: 4 residues within 4Å: Chain A: G.345, S.347, N.350, L.353 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.345, A:S.347 NAG.3: 2 residues within 4Å: Chain A: S.462, N.464 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.462, A:N.464 NAG.11: 4 residues within 4Å: Chain B: G.345, S.347, N.350, L.353 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.345, B:S.347 NAG.12: 3 residues within 4Å: Chain B: S.462, L.463, N.464 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.462, B:N.464

11 x PG0: 2-(2-METHOXYETHOXY)ETHANOL(Non-functional Binders)

PG0.4: 4 residues within 4Å: Chain A: D.304, G.305, S.309, D.310 No protein-ligand interaction detected (PLIP) PG0.5: 6 residues within 4Å: Chain A: I.20, L.33, T.63, T.64, F.65, R.90 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:F.65, A:R.90, A:R.90 PG0.6: 2 residues within 4Å: Chain A: Q.140, V.141 No protein-ligand interaction detected (PLIP) PG0.7: 6 residues within 4Å: Chain A: H.381, Y.382, T.383, D.384, H.393 Chain B: Q.527 No protein-ligand interaction detected (PLIP) PG0.8: 4 residues within 4Å: Chain A: D.333, D.396, L.441, W.442 No protein-ligand interaction detected (PLIP) PG0.13: 5 residues within 4Å: Chain A: Q.527 Chain B: H.381, Y.382, D.384 Ligands: 9YU.19 No protein-ligand interaction detected (PLIP) PG0.14: 5 residues within 4Å: Chain B: K.332, D.333, D.396, L.441, W.442 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.332 PG0.15: 6 residues within 4Å: Chain B: T.112, P.113, E.142, G.143, A.144, R.485 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.485 PG0.16: 3 residues within 4Å: Chain B: D.304, G.305, S.309 No protein-ligand interaction detected (PLIP) PG0.17: 5 residues within 4Å: Chain B: R.11, R.13, E.185, A.188, A.189 No protein-ligand interaction detected (PLIP) PG0.18: 3 residues within 4Å: Chain B: R.224, Q.325, T.486 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:Q.325

1 x EDO: 1,2-ETHANEDIOL(Non-functional Binders)

EDO.9: 2 residues within 4Å: Chain A: R.245, D.266 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.266

1 x 9YU: 2-[2-[2-[2-[2-[2-(2-methoxyethoxy)ethoxy]ethoxy]ethoxy]ethoxy]ethoxy]ethanol(Non-covalent)

9YU.19: 14 residues within 4Å: Chain A: A.377, L.380, H.381, Q.527, F.531, F.535 Chain B: A.377, L.380, H.381, Q.527, T.528, F.531, F.535 Ligands: PG0.13 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.527, A:H.381

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Lindgren, C. et al., Broad-Spectrum Antidote Discovery by Untangling the Reactivation Mechanism of Nerve-Agent-Inhibited Acetylcholinesterase. Chemistry (2022)

Release Date

2022-04-27

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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