SMTL ID : 7q1m.1

Crystal structure of human butyrylcholinesterase in complex with N-[(2S)-3-[(cyclohexylmethyl)amino]-2-hydroxypropyl]-2,2-diphenylacetamide

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.79 Å

Oligo State

monomer

Ligands

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

NAG-FUC.1: 3 residues within 4Å: Chain A: D.3, R.14, N.57 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:R.14, A:N.57

2 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.2: 7 residues within 4Å: Chain A: Y.237, N.241, N.245, L.249, F.278, V.280, P.281 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.245 NAG-NAG-FUC.3: 3 residues within 4Å: Chain A: G.336, F.337, N.341 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:G.336

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

SO4.4: 3 residues within 4Å: Chain A: R.347, K.348, Q.351 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.351 Salt bridges: A:R.347, A:K.348 SO4.10: 5 residues within 4Å: Chain A: R.470, Q.486, S.487, T.488, T.508 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:R.470, A:T.488, A:T.488, A:T.508 SO4.11: 4 residues within 4Å: Chain A: Q.316, G.413, N.414, N.415 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.316, A:N.415

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

NAG.5: 3 residues within 4Å: Chain A: N.106, N.188, K.190 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.188 NAG.6: 1 residues within 4Å: Chain A: N.256 No protein-ligand interaction detected (PLIP) NAG.7: 4 residues within 4Å: Chain A: R.465, K.469, E.482, N.485 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:K.469, A:E.482 Hydrogen bonds: A:R.465, A:N.485

1 x 8IS: N-[(2S)-3-(cyclohexylmethylamino)-2-oxidanyl-propyl]-2,2-diphenyl-ethanamide(Non-covalent)

8IS.8: 15 residues within 4Å: Chain A: D.70, W.82, G.115, G.116, G.117, T.120, E.197, S.198, W.231, P.285, L.286, A.328, F.329, Y.332, F.398 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.82, A:W.82, A:L.286, A:F.329, A:F.329, A:F.398 Water bridges: A:D.70 pi-Stacking: A:W.231, A:W.231, A:Y.332

1 x GOL: GLYCEROL(Non-functional Binders)

GOL.9: 8 residues within 4Å: Chain A: W.231, V.233, T.234, E.238, R.242, L.286, S.287, V.288 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:T.234, A:R.242, A:S.287, A:V.288

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

CL.12: 1 residues within 4Å: Chain A: Y.385 Ligand excluded by PLIP CL.13: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.14: 3 residues within 4Å: Chain A: K.323, Y.420, R.515 Ligand excluded by PLIP CL.15: 1 residues within 4Å: Chain A: R.515 Ligand excluded by PLIP CL.16: 4 residues within 4Å: Chain A: H.77, M.81, H.126 Ligands: CL.17 Ligand excluded by PLIP CL.17: 3 residues within 4Å: Chain A: K.427, E.443 Ligands: CL.16 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Panek, D. et al., Discovery of new, highly potent and selective inhibitors of BuChE - design, synthesis, in vitro and in vivo evaluation and crystallography studies. Eur.J.Med.Chem. (2023)

Release Date

2022-11-16

Peptides

Cholinesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cholinesterase

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