SMTL ID : 8qtx.1

Structure of human butyrylcholinesterase with 3-(((2-cycloheptylethyl)(methyl)amino)methyl)-N-methyl-1H-indol-7-amine

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.12 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: 6 residues within 4Å: Chain A: N.106, N.188, K.190, S.191, R.219, K.476 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:R.219, A:K.476, A:N.188 Water bridges: A:T.108, A:R.219, A:R.219 NAG-FUC.5: 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

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.3: 8 residues within 4Å: Chain A: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:N.245, A:K.248, A:L.249 Hydrogen bonds: A:F.278, A:V.280 NAG-NAG-FUC.4: 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

2 x GOL: GLYCEROL(Non-functional Binders)

GOL.6: 6 residues within 4Å: Chain A: L.18, L.29, Y.61, W.98, D.129, K.131 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.98, A:K.131 Water bridges: A:D.129 GOL.9: 7 residues within 4Å: Chain A: H.77, M.81, H.126, V.127, Y.440, E.443, Y.456 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.443

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

NAG.7: 1 residues within 4Å: Chain A: N.256 No protein-ligand interaction detected (PLIP)

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 8 PLIP interactions: 8 interactions with chain A Hydrogen bonds: A:R.515, A:R.515, A:Q.518 Water bridges: A:Y.500, A:K.513, A:A.516, A:A.516 Salt bridges: A:R.515

1 x WXN: 3-(((2-cycloheptylethyl)(methyl)amino)methyl)-N-methyl-1H-indol-7-amine(Non-covalent)

WXN.10: 16 residues within 4Å: Chain A: W.82, G.116, G.117, S.198, W.231, P.285, L.286, S.287, V.288, A.328, F.329, Y.332, F.398, W.430, H.438 Ligands: CO3.11 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.288, A:A.328, A:Y.332, A:W.430 Hydrogen bonds: A:S.198, A:S.198 Water bridges: A:G.116, A:G.116, A:G.116, A:S.198 Salt bridges: A:D.70

1 x CO3: CARBONATE ION(Non-functional Binders)

CO3.11: 6 residues within 4Å: Chain A: W.82, G.115, G.116, E.197, S.198 Ligands: WXN.10 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.198 Water bridges: A:G.116

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

SO4.12: 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:G.413, A:N.415 SO4.13: 3 residues within 4Å: Chain A: R.520, F.521, F.525 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:H.372 SO4.14: 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 SO4.15: 5 residues within 4Å: Chain A: R.470, Q.486, S.487, T.488, T.508 7 PLIP interactions: 7 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 SO4.16: 5 residues within 4Å: Chain A: W.231, R.242, L.286, S.287, V.288 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:V.288, A:V.288 Water bridges: A:R.242, A:R.242 Salt bridges: A:R.242 SO4.17: 2 residues within 4Å: Chain A: T.512, K.513 1 PLIP interactions: 1 interactions with chain A Salt bridges: A:K.513

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brazzolotto, X. et al., Structure of human butyrylcholinesterase with 3-(((2-cycloheptylethyl)(methyl)amino)methyl)-N-methyl-1H-indol-7-amine. To Be Published

Release Date

2024-10-23

Peptides

Cholinesterase: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

Cholinesterase

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