SMTL ID : 5ov9.1

Crystal structure of Acetylcholinesterase in complex with Crystal Violet

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-dimer

Ligands

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

NAG.1: 3 residues within 4Å: Chain A: G.345, S.347, N.350 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:N.350 Hydrogen bonds: A:G.345 Water bridges: A:G.345 NAG.10: 5 residues within 4Å: Chain B: G.345, S.347, N.350, S.352, L.353 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:G.345

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

PG0.2: 5 residues within 4Å: Chain A: W.286, L.289, Q.291, E.292 Ligands: CVI.9 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.293 PG0.3: 7 residues within 4Å: Chain A: H.381, Y.382, D.384, H.393, T.528 Chain B: Q.527 Ligands: PE4.16 No protein-ligand interaction detected (PLIP)

3 x ETX: 2-ETHOXYETHANOL(Non-covalent)

ETX.4: 4 residues within 4Å: Chain A: V.303, D.304, G.305, S.309 No protein-ligand interaction detected (PLIP) ETX.5: 3 residues within 4Å: Chain A: S.57, V.59, L.60 No protein-ligand interaction detected (PLIP) ETX.17: 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:D.396

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

EDO.6: 3 residues within 4Å: Chain A: Q.140, V.141, G.143 1 PLIP interactions: 1 interactions with chain A Water bridges: A:Q.140 EDO.7: 4 residues within 4Å: Chain A: D.333, D.396, L.441, W.442 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:D.333 Water bridges: A:S.399 EDO.18: 2 residues within 4Å: Chain B: Q.291, A.370 No protein-ligand interaction detected (PLIP) EDO.19: 4 residues within 4Å: Chain B: R.11, V.12, E.185, N.186 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.185

4 x CVI: CRYSTAL VIOLET(Non-covalent)

CVI.8: 9 residues within 4Å: Chain A: Y.72, D.74, T.75, L.76, Y.77, T.83, V.340, Y.341 Ligands: CVI.9 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.76, A:Y.341 CVI.9: 8 residues within 4Å: Chain A: Y.72, Y.124, D.283, W.286, H.287, Y.341 Ligands: PG0.2, CVI.8 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:Y.72, A:Y.72, A:W.286, A:W.286 pi-Stacking: A:W.286, A:W.286, A:H.287 CVI.11: 10 residues within 4Å: Chain B: Y.72, D.74, T.75, L.76, Y.77, T.83, V.340, Y.341 Ligands: CVI.12, PGE.14 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.76, B:Y.341, B:Y.341 CVI.12: 9 residues within 4Å: Chain B: Y.72, Y.124, Q.279, D.283, W.286, H.287, Y.341 Ligands: CVI.11, PGE.14 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.72, B:Y.72 pi-Stacking: B:W.286, B:W.286, B:H.287

1 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.13: 3 residues within 4Å: Chain B: D.304, G.305, S.309 No protein-ligand interaction detected (PLIP)

1 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.14: 7 residues within 4Å: Chain B: W.286, L.289, Q.291, E.292, S.293 Ligands: CVI.11, CVI.12 3 PLIP interactions: 3 interactions with chain B Water bridges: B:S.293, B:S.293, B:R.296

1 x AE3: 2-(2-ETHOXYETHOXY)ETHANOL(Non-covalent)

AE3.15: 5 residues within 4Å: Chain A: Q.527 Chain B: H.381, Y.382, T.383, D.384 No protein-ligand interaction detected (PLIP)

1 x PE4: 2-{2-[2-(2-{2-[2-(2-ETHOXY-ETHOXY)-ETHOXY]-ETHOXY}-ETHOXY)-ETHOXY]-ETHOXY}-ETHANOL(Non-functional Binders)

PE4.16: 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: PG0.3 2 PLIP interactions: 1 interactions with chain B, 1 interactions with chain A Hydrogen bonds: B:Q.527, A:Q.527

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Allgardsson, A. et al., An Unusual Dimeric Inhibitor of Acetylcholinesterase: Cooperative Binding of Crystal Violet. Molecules (2017)

Release Date

2017-09-06

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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