SMTL ID : 7qbr.1

Human butyrylcholinesterase in complex with (Z)-N-tert-butyl-1-(8-(3-(4-(prop-2-yn-1-yl)piperazin-1-yl)propoxy)quinolin-2-yl)methanimine oxide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.13 Å

Oligo State

monomer

Ligands

3 x NAG- NAG- FUC: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[alpha-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUC.1: 5 residues within 4Å: Chain A: P.335, G.336, S.338, N.341, N.342 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.336 NAG-NAG-FUC.3: 4 residues within 4Å: Chain A: N.106, N.188, K.190, S.191 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:N.188, A:S.191, A:R.219 Water bridges: A:T.108 NAG-NAG-FUC.4: 8 residues within 4Å: Chain A: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.249 Hydrogen bonds: A:K.248, A:F.278, A:V.280

1 x NAG- FUC: alpha-L-fucopyranose-(1-6)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-FUC.2: 2 residues within 4Å: Chain A: R.14, N.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.14, A:N.57

3 x GOL: GLYCEROL(Non-functional Binders)

GOL.5: 5 residues within 4Å: Chain A: L.18, Y.61, W.98, D.129, K.131 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:W.98, A:K.131, A:K.131 Water bridges: A:D.129 GOL.11: 2 residues within 4Å: Chain A: K.45, Q.47 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:K.45, A:K.45, A:Q.47 GOL.12: 2 residues within 4Å: Chain A: N.85, H.126 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.85 Water bridges: A:H.126

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

NAG.6: 1 residues within 4Å: Chain A: N.256 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.256 NAG.7: 4 residues within 4Å: Chain A: R.465, K.469, E.482, N.485 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:K.469 Hydrogen bonds: A:R.465, A:N.485

1 x AI6: N-tert-butyl-1-[8-[3-(4-prop-2-ynylpiperazin-1-yl)propoxy]quinolin-2-yl]methanimine oxide(Non-covalent)

AI6.8: 14 residues within 4Å: Chain A: W.82, G.115, G.116, G.117, T.120, E.197, S.198, P.285, L.286, S.287, V.288, F.329, Y.332, H.438 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:W.82, A:T.120, A:V.288 Water bridges: A:D.70, A:G.116, A:T.120 Salt bridges: A:D.70 pi-Stacking: A:F.329 pi-Cation interactions: A:Y.332

1 x SIA: N-acetyl-alpha-neuraminic acid(Non-covalent)

SIA.9: 3 residues within 4Å: Chain A: K.60, N.63, D.87 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:D.87 Water bridges: A:N.63, A:N.63, A:D.87 Salt bridges: A:K.60

1 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.10: 6 residues within 4Å: Chain A: K.323, Y.420, Y.500, L.514, R.515, Q.518 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:R.515, A:R.515 Water bridges: A:Y.500 Salt bridges: A:K.323, A:R.515

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

CL.13: 4 residues within 4Å: Chain A: F.371, H.372, F.521 Ligands: CL.16 Ligand excluded by PLIP CL.14: 2 residues within 4Å: Chain A: G.39, R.40 Ligand excluded by PLIP CL.15: 2 residues within 4Å: Chain A: W.376, Y.385 Ligand excluded by PLIP CL.16: 1 residues within 4Å: Ligands: CL.13 Ligand excluded by PLIP

4 x SO4: SULFATE ION(Non-functional Binders)

SO4.17: 4 residues within 4Å: Chain A: Q.316, G.413, N.414, N.415 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.316, A:N.414, A:N.415 SO4.18: 3 residues within 4Å: Chain A: W.231, R.242, V.288 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:V.288 Water bridges: A:W.231, A:V.288 Salt bridges: A:R.242 SO4.19: 2 residues within 4Å: Chain A: R.347, Q.351 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.351 Salt bridges: A:R.347, A:K.348 SO4.20: 5 residues within 4Å: Chain A: R.470, Q.486, S.487, T.488, T.508 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.470, A:T.488, A:T.488, A:T.508, A:T.508, A:T.508 Water bridges: A:S.466, A:S.487

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Knez, D. et al., 8-Hydroxyquinolylnitrones as multifunctional ligands for the therapy of neurodegenerative diseases. Acta Pharm Sin B (2023)

Release Date

2022-11-30

Peptides

Cholinesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cholinesterase

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