SMTL ID : 4tpk.2 (1 other biounit)

Human butyrylcholinesterase in complex with N-((1-(2,3-dihydro-1H-inden-2-yl)piperidin-3-yl)methyl)-N-(2-methoxyethyl)-2-naphthamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.70 Å

Oligo State

monomer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 3 residues within 4Å: Chain A: N.134, N.216, K.218 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:K.218

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

NAG-FUL.2: 7 residues within 4Å: Chain A: Y.265, N.269, N.273, K.276, L.277, F.306 Ligands: NAG.5 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:Y.265 Hydrogen bonds: A:N.269, A:N.273, A:N.273

6 x NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)(Non-functional Binders)

NAG.3: 2 residues within 4Å: Chain A: N.45, T.52 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.45 NAG.4: 4 residues within 4Å: Chain A: R.42, D.82, I.83, N.85 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.42, A:N.85, A:N.85 NAG.5: 2 residues within 4Å: Ligands: NAG-FUL.2, NAG-FUL.2 No protein-ligand interaction detected (PLIP) NAG.6: 2 residues within 4Å: Chain A: N.284, E.287 No protein-ligand interaction detected (PLIP) NAG.7: 4 residues within 4Å: Chain A: G.364, S.366, N.369, N.370 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.364 Water bridges: A:N.369 NAG.8: 5 residues within 4Å: Chain A: Y.505, N.507, N.509, E.510, T.511 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.509

1 x 3F9: N-{[(3R)-1-(2,3-dihydro-1H-inden-2-yl)piperidin-3-yl]methyl}-N-(2-methoxyethyl)naphthalene-2-carboxamide(Non-covalent)

3F9.9: 13 residues within 4Å: Chain A: I.97, D.98, W.110, G.144, G.145, S.226, W.259, L.314, A.356, F.357, Y.360, H.466, G.467 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:D.98, A:F.357, A:F.357, A:Y.360, A:Y.360 Water bridges: A:T.148, A:S.226 Salt bridges: A:D.98 pi-Stacking: A:W.259, A:W.259, A:F.357, A:F.357

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.10: 5 residues within 4Å: Chain A: L.46, Y.89, W.126, D.157, K.159 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.126, A:K.159, A:K.159 GOL.11: 7 residues within 4Å: Chain A: H.400, Y.401, T.402, D.403, W.404, Q.545, Q.546 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.403, A:D.403, A:Q.546 GOL.12: 3 residues within 4Å: Chain A: I.97, Q.99, S.100 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:I.97, A:Q.99 Water bridges: A:Q.99 GOL.13: 5 residues within 4Å: Chain A: H.105, M.109, K.455, P.457, E.471 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.471

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

EDO.14: 3 residues within 4Å: Chain A: R.70, R.293, K.295 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:R.70, A:K.295 Water bridges: A:G.67

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brus, B. et al., Discovery, biological evaluation, and crystal structure of a novel nanomolar selective butyrylcholinesterase inhibitor. J.Med.Chem. (2014)

Release Date

2014-10-22

Peptides

Cholinesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
B

Cholinesterase

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