SMTL ID : 9gcq.1

Human Butyrylcholinesterase in complex with N1,N1-dimethyl-N2-(6-(naphthalen-2-yl)-5-(pyridin-4-yl)pyridazin-3-yl)ethane-1,2-diamine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.62 Å

Oligo State

monomer

Ligands

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

NAG-FUC.1: 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 NAG-FUC.2: 7 residues within 4Å: Chain A: Y.237, N.241, N.245, F.278, V.279, V.280, P.281 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:Y.237 Hydrogen bonds: A:N.245 NAG-FUC.4: 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 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.3: 4 residues within 4Å: Chain A: G.336, S.338, N.341, N.342 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.338

2 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 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.188, A:K.190 NAG.6: 1 residues within 4Å: Chain A: N.256 No protein-ligand interaction detected (PLIP)

1 x 01: N',N'-dimethyl-N-(6-naphthalen-2-yl-5-pyridin-4-yl-pyridazin-3-yl)ethane-1,2-diamine

01.7: 12 residues within 4Å: Chain A: W.82, G.117, E.197, S.198, W.231, P.285, L.286, S.287, V.288, F.329, Y.332, H.438 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:W.231, A:W.231, A:L.286, A:L.286, A:V.288, A:F.329 Water bridges: A:G.117, A:S.198 Salt bridges: A:E.197 pi-Stacking: A:W.231, A:Y.332

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

MES.8: 5 residues within 4Å: Chain A: K.323, Y.420, L.514, R.515, Q.518 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.420, A:R.515, A:R.515, A:A.516, A:Q.518 Salt bridges: A:K.323, A:R.515

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

SO4.9: 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 SO4.10: 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 SO4.11: 5 residues within 4Å: Chain A: W.231, R.242, L.286, S.287, V.288 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:L.286, A:V.288 Salt bridges: A:R.242 SO4.12: 3 residues within 4Å: Chain A: R.347, W.376, Y.385 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Y.385 Water bridges: A:R.347 SO4.13: 2 residues within 4Å: Chain A: R.347, Q.351 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:Q.351 Salt bridges: A:R.347

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brazzolotto, X. et al., Human Butyrylcholinesterase in complex with N1,N1-dimethyl-N2-(6-(naphthalen-2-yl)-5-(pyridin-4-yl)pyridazin-3-yl)ethane-1,2-diamine. To Be Published

Release Date

2025-08-13

Peptides

Cholinesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cholinesterase

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