SMTL ID : 8qtw.1

Structure of human butyrylcholinesterase with (3-(((2-cycloheptylethyl)(methyl)amino)methyl)-1H-indol-7-yl)(methyl)carbamoylated Ser198

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.24 Å

Oligo State

monomer

Ligands

2 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.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

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

NAG-NAG-BMA-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:N.188, A:S.191, A:R.219, A:K.190

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: 7 residues within 4Å: Chain A: Y.237, N.241, N.245, K.248, L.249, F.278, V.280 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:S.338, A:G.336

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

NAG.6: 2 residues within 4Å: Chain A: N.256, T.258 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.258

5 x GOL: GLYCEROL(Non-functional Binders)

GOL.7: 6 residues within 4Å: Chain A: H.77, M.81, S.425, K.427, Y.440, E.443 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.425, A:S.425, A:K.427 GOL.8: 6 residues within 4Å: Chain A: L.18, L.29, Y.61, W.98, D.129, K.131 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.61, A:W.98, A:K.131 Water bridges: A:D.129 GOL.10: 8 residues within 4Å: Chain A: W.231, V.233, T.234, E.238, R.242, L.286, S.287, V.288 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:W.231, A:E.238, A:R.242, A:R.242, A:S.287, A:V.288 GOL.12: 6 residues within 4Å: Chain A: C.66, L.88, S.89, P.269, Q.270, L.273 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Q.270 Water bridges: A:S.89, A:E.90 GOL.15: 2 residues within 4Å: Chain A: R.135, V.136 No protein-ligand interaction detected (PLIP)

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

MES.9: 7 residues within 4Å: Chain A: K.323, Y.420, Y.500, L.514, R.515, A.516, Q.518 7 PLIP interactions: 7 interactions with chain A Hydrogen bonds: A:Y.420, A:R.515, A:R.515, A:A.516 Water bridges: A:K.323, A:Y.500 Salt bridges: A:R.515

1 x GOA: GLYCOLIC ACID(Non-covalent)

GOA.11: 8 residues within 4Å: Chain A: W.82, G.115, G.116, Y.128, E.197, S.198, H.438 Ligands: WXR.14 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:Y.128, A:E.197, A:H.438 Water bridges: A:G.115

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

SIA.13: 3 residues within 4Å: Chain A: K.60, N.63, D.87 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:D.87 Water bridges: A:K.60, A:N.63

1 x WXR: N-[3-[[2-cycloheptylethyl(methyl)amino]methyl]-1H-indol-7-yl]-N-methyl-methanamide(Covalent)

WXR.14: 18 residues within 4Å: Chain A: W.82, G.115, G.116, G.117, S.198, A.199, W.231, P.285, L.286, S.287, V.288, A.328, F.329, Y.332, F.398, W.430, H.438 Ligands: GOA.11 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:L.286, A:V.288, A:A.328, A:Y.332, A:W.430 Hydrogen bonds: A:G.116, A:G.117, A:A.199

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

SO4.16: 4 residues within 4Å: Chain A: 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 SO4.17: 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 SO4.18: 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 SO4.19: 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)-1H-indol-7-yl)(methyl)carbamoylated Ser198. 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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