SMTL ID : 4aqd.1 (2 other biounits)

Crystal structure of fully glycosylated human butyrylcholinesterase

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 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: I.6, N.19, T.26 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 4 residues within 4Å: Chain A: K.107, N.108, N.190, K.192 2 PLIP interactions: 2 interactions with chain A Water bridges: A:K.192, A:K.192

6 x NAG- NAG- FUL: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-[beta-L-fucopyranose-(1-6)]2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-FUL.2: 3 residues within 4Å: Chain A: R.16, I.57, N.59 No protein-ligand interaction detected (PLIP) NAG-NAG-FUL.4: 5 residues within 4Å: Chain A: N.243, N.247, K.250, F.280, P.283 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:N.247, A:K.250 NAG-NAG-FUL.6: 6 residues within 4Å: Chain A: E.484, N.488, S.489, T.490, E.508, T.510 3 PLIP interactions: 3 interactions with chain A Water bridges: A:T.510 Hydrogen bonds: A:N.488, A:T.490, A:T.490 NAG-NAG-FUL.29: 8 residues within 4Å: Chain B: Y.239, N.243, N.247, K.250, L.251, F.280, P.283, Y.284 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:N.247, B:N.247 NAG-NAG-FUL.30: 4 residues within 4Å: Chain B: E.257, N.258, T.260, E.261 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.257 NAG-NAG-FUL.31: 3 residues within 4Å: Chain B: K.429, D.456, N.457 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG- MAN: alpha-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-MAN.5: 6 residues within 4Å: Chain A: Y.479, N.481, N.483, E.484, T.485, Q.486 No protein-ligand interaction detected (PLIP)

2 x BAL: BETA-ALANINE(Non-covalent)

BAL.7: 10 residues within 4Å: Chain A: G.118, G.119, S.200, A.201, W.233, L.288, H.440 Ligands: UNX.20, UNX.21, UNX.22 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:G.118, A:G.119, A:S.200, A:A.201 Water bridges: A:L.288 Salt bridges: A:H.440 BAL.32: 8 residues within 4Å: Chain B: G.118, G.119, S.200, A.201, L.288, V.290, H.440 Ligands: UNX.52 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:G.118, B:G.119, B:S.200, B:A.201, B:L.288 Salt bridges: B:H.440

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

NAG.8: 3 residues within 4Å: Chain A: G.338, S.340, N.343 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:G.338, A:S.340, A:N.343 NAG.33: 3 residues within 4Å: Chain B: I.6, N.19, T.26 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.26 NAG.34: 2 residues within 4Å: Chain B: R.16, N.59 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.59 NAG.35: 3 residues within 4Å: Chain B: N.108, N.190, K.192 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:N.108, B:N.190 Water bridges: B:N.108, B:K.192 NAG.36: 5 residues within 4Å: Chain B: G.338, F.339, S.340, N.343, N.344 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.338, B:S.340 NAG.37: 3 residues within 4Å: Chain B: Y.479, N.483, E.484 No protein-ligand interaction detected (PLIP)

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.9: 3 residues within 4Å: Chain A: S.428, N.457, Y.458 No protein-ligand interaction detected (PLIP) PG4.10: 5 residues within 4Å: Chain A: L.309, E.310, K.410, E.413, W.414 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:L.309

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

EDO.11: 5 residues within 4Å: Chain A: N.230, C.402, P.403, E.406, T.525 Ligand excluded by PLIP EDO.12: 4 residues within 4Å: Chain A: F.23, L.452, E.453, R.454 Ligand excluded by PLIP EDO.13: 5 residues within 4Å: Chain A: H.79, S.427, K.429, L.430, E.445 Ligand excluded by PLIP EDO.14: 2 residues within 4Å: Chain A: K.496, T.498 Ligand excluded by PLIP EDO.15: 4 residues within 4Å: Chain A: E.424, H.425, N.506, T.507 Ligand excluded by PLIP EDO.16: 2 residues within 4Å: Chain A: N.481, W.492 Ligand excluded by PLIP EDO.17: 8 residues within 4Å: Chain A: L.31, G.32, W.58, N.59, A.60, K.62, A.64, Y.96 Ligand excluded by PLIP EDO.18: 4 residues within 4Å: Chain A: G.118, G.119, Q.121, T.122 Ligand excluded by PLIP EDO.19: 7 residues within 4Å: Chain A: Y.35, S.50, L.51, L.175, Q.178, W.179, K.182 Ligand excluded by PLIP EDO.40: 6 residues within 4Å: Chain A: S.370, F.373, H.374 Chain B: S.370, F.373, F.527 Ligand excluded by PLIP EDO.41: 6 residues within 4Å: Chain B: Y.35, S.50, L.51, L.175, W.179, K.182 Ligand excluded by PLIP EDO.42: 7 residues within 4Å: Chain B: P.451, E.453, R.454, N.457, Y.458, T.459, E.463 Ligand excluded by PLIP EDO.43: 5 residues within 4Å: Chain B: G.160, P.162, P.165, D.297, G.298 Ligand excluded by PLIP EDO.44: 3 residues within 4Å: Chain B: P.287, Y.334 Ligands: EDO.48 Ligand excluded by PLIP EDO.45: 5 residues within 4Å: Chain B: R.44, R.267, N.268, K.269, D.270 Ligand excluded by PLIP EDO.46: 5 residues within 4Å: Chain B: T.286, L.288, F.359, Y.398, N.399 Ligand excluded by PLIP EDO.47: 8 residues within 4Å: Chain B: Q.37, P.39, L.43, K.46, K.47, P.48, Q.49, R.149 Ligand excluded by PLIP EDO.48: 4 residues within 4Å: Chain B: N.70, D.72, T.122 Ligands: EDO.44 Ligand excluded by PLIP EDO.49: 5 residues within 4Å: Chain B: K.62, Y.63, N.65, T.88, D.89 Ligand excluded by PLIP

10 x UNX: UNKNOWN ATOM OR ION(Non-functional Binders)

UNX.20: 6 residues within 4Å: Chain A: E.199, S.200 Ligands: BAL.7, UNX.21, UNX.22, UNX.23 No protein-ligand interaction detected (PLIP) UNX.21: 5 residues within 4Å: Chain A: W.84 Ligands: BAL.7, UNX.20, UNX.22, UNX.23 No protein-ligand interaction detected (PLIP) UNX.22: 4 residues within 4Å: Ligands: BAL.7, UNX.20, UNX.21, UNX.23 No protein-ligand interaction detected (PLIP) UNX.23: 4 residues within 4Å: Chain A: W.84 Ligands: UNX.20, UNX.21, UNX.22 No protein-ligand interaction detected (PLIP) UNX.27: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP) UNX.50: 6 residues within 4Å: Chain B: G.117, G.118, E.199 Ligands: UNX.51, UNX.52, UNX.53 No protein-ligand interaction detected (PLIP) UNX.51: 4 residues within 4Å: Chain B: W.84 Ligands: UNX.50, UNX.52, UNX.53 No protein-ligand interaction detected (PLIP) UNX.52: 6 residues within 4Å: Chain B: E.199, H.440 Ligands: BAL.32, UNX.50, UNX.51, UNX.53 No protein-ligand interaction detected (PLIP) UNX.53: 4 residues within 4Å: Chain B: W.84 Ligands: UNX.50, UNX.51, UNX.52 No protein-ligand interaction detected (PLIP) UNX.56: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

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

CL.24: 1 residues within 4Å: Chain A: V.138 Ligand excluded by PLIP CL.25: 6 residues within 4Å: Chain A: R.472, P.482, N.483, T.490, S.491, W.492 Ligand excluded by PLIP CL.26: 2 residues within 4Å: Chain A: E.385, R.388 Ligand excluded by PLIP CL.54: 3 residues within 4Å: Chain B: W.233, R.244, V.290 Ligand excluded by PLIP CL.55: 2 residues within 4Å: Chain B: K.460, I.464 Ligand excluded by PLIP CL.57: 1 residues within 4Å: Chain B: D.297 Ligand excluded by PLIP CL.58: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP

2 x GLY: GLYCINE(Non-covalent)

GLY.28: 5 residues within 4Å: Chain A: L.20, Y.63, W.100, D.131, K.133 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:W.100, A:D.131 Salt bridges: A:K.133 GLY.59: 5 residues within 4Å: Chain B: L.20, Y.63, W.100, D.131, K.133 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Y.63, B:W.100 Salt bridges: B:K.133

2 x PEG: DI(HYDROXYETHYL)ETHER(Non-functional Binders)

PEG.38: 9 residues within 4Å: Chain B: H.209, L.210, L.211, S.212, P.213, H.216, Q.313, F.314, K.315 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:H.209, B:H.216, B:Q.313 PEG.39: 10 residues within 4Å: Chain B: H.79, M.83, H.128, S.427, K.429, L.430, P.431, Y.442, E.445, Y.458 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.427, B:S.427

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Brazzolotto, X. et al., Human butyrylcholinesterase produced in insect cells: huprine-based affinity purification and crystal structure. FEBS J. (2012)

Release Date

2012-07-04

Peptides

BUTYRYLCHOLINESTERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

BUTYRYLCHOLINESTERASE

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