SMTL ID : 2wil.1

AGED FORM OF HUMAN BUTYRYLCHOLINESTERASE INHIBITED BY TABUN ANALOGUE TA5

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.10 Å

Oligo State

homo-octamer

Ligands

16 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.1: 8 residues within 4Å: Chain A: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:N.245, A:K.248, A:L.249 Hydrogen bonds: A:V.280 NAG-NAG-FUC.2: 3 residues within 4Å: Chain A: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.338, A:G.336 NAG-NAG-FUC.3: 7 residues within 4Å: Chain B: Y.237, N.241, N.245, K.248, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:N.245, B:K.248 Hydrogen bonds: B:F.278, B:V.280 NAG-NAG-FUC.4: 3 residues within 4Å: Chain B: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.338 NAG-NAG-FUC.17: 8 residues within 4Å: Chain C: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:N.245, C:K.248, C:L.249 Hydrogen bonds: C:V.280 NAG-NAG-FUC.18: 3 residues within 4Å: Chain C: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:S.338, C:G.336 NAG-NAG-FUC.19: 7 residues within 4Å: Chain D: Y.237, N.241, N.245, K.248, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:N.245, D:K.248 Hydrogen bonds: D:F.278, D:V.280 NAG-NAG-FUC.20: 3 residues within 4Å: Chain D: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:S.338 NAG-NAG-FUC.33: 8 residues within 4Å: Chain E: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:N.245, E:K.248, E:L.249 Hydrogen bonds: E:V.280 NAG-NAG-FUC.34: 3 residues within 4Å: Chain E: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:S.338, E:G.336 NAG-NAG-FUC.35: 7 residues within 4Å: Chain F: Y.237, N.241, N.245, K.248, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain F Hydrophobic interactions: F:N.245, F:K.248 Hydrogen bonds: F:F.278, F:V.280 NAG-NAG-FUC.36: 3 residues within 4Å: Chain F: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain F Hydrogen bonds: F:S.338 NAG-NAG-FUC.49: 8 residues within 4Å: Chain G: Y.237, N.241, N.245, K.248, L.249, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:N.245, G:K.248, G:L.249 Hydrogen bonds: G:V.280 NAG-NAG-FUC.50: 3 residues within 4Å: Chain G: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain G Hydrogen bonds: G:S.338, G:G.336 NAG-NAG-FUC.51: 7 residues within 4Å: Chain H: Y.237, N.241, N.245, K.248, F.278, V.280, P.281 4 PLIP interactions: 4 interactions with chain H Hydrophobic interactions: H:N.245, H:K.248 Hydrogen bonds: H:F.278, H:V.280 NAG-NAG-FUC.52: 3 residues within 4Å: Chain H: G.336, S.338, N.341 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:S.338

8 x TCX: ethylphosphoramidic acid(Covalent)

TCX.5: 10 residues within 4Å: Chain A: G.115, G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.231, A:L.286, A:V.288 Hydrogen bonds: A:G.116, A:G.117, A:A.199 TCX.12: 9 residues within 4Å: Chain B: G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:W.231, B:L.286, B:V.288 Hydrogen bonds: B:G.116, B:G.117, B:A.199, B:H.438 TCX.21: 10 residues within 4Å: Chain C: G.115, G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 6 PLIP interactions: 6 interactions with chain C Hydrophobic interactions: C:W.231, C:L.286, C:V.288 Hydrogen bonds: C:G.116, C:G.117, C:A.199 TCX.28: 9 residues within 4Å: Chain D: G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 7 PLIP interactions: 7 interactions with chain D Hydrophobic interactions: D:W.231, D:L.286, D:V.288 Hydrogen bonds: D:G.116, D:G.117, D:A.199, D:H.438 TCX.37: 10 residues within 4Å: Chain E: G.115, G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 6 PLIP interactions: 6 interactions with chain E Hydrophobic interactions: E:W.231, E:L.286, E:V.288 Hydrogen bonds: E:G.116, E:G.117, E:A.199 TCX.44: 9 residues within 4Å: Chain F: G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 7 PLIP interactions: 7 interactions with chain F Hydrophobic interactions: F:W.231, F:L.286, F:V.288 Hydrogen bonds: F:G.116, F:G.117, F:A.199, F:H.438 TCX.53: 10 residues within 4Å: Chain G: G.115, G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 6 PLIP interactions: 6 interactions with chain G Hydrophobic interactions: G:W.231, G:L.286, G:V.288 Hydrogen bonds: G:G.116, G:G.117, G:A.199 TCX.60: 9 residues within 4Å: Chain H: G.116, G.117, S.198, A.199, W.231, L.286, V.288, F.398, H.438 7 PLIP interactions: 7 interactions with chain H Hydrophobic interactions: H:W.231, H:L.286, H:V.288 Hydrogen bonds: H:G.116, H:G.117, H:A.199, H:H.438

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

NAG.6: 2 residues within 4Å: Chain A: N.106, N.188 Ligand excluded by PLIP NAG.7: 2 residues within 4Å: Chain A: R.14, N.57 Ligand excluded by PLIP NAG.8: 4 residues within 4Å: Chain A: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.13: 2 residues within 4Å: Chain B: N.106, N.188 Ligand excluded by PLIP NAG.14: 2 residues within 4Å: Chain B: R.14, N.57 Ligand excluded by PLIP NAG.15: 4 residues within 4Å: Chain B: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.22: 2 residues within 4Å: Chain C: N.106, N.188 Ligand excluded by PLIP NAG.23: 2 residues within 4Å: Chain C: R.14, N.57 Ligand excluded by PLIP NAG.24: 4 residues within 4Å: Chain C: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.29: 2 residues within 4Å: Chain D: N.106, N.188 Ligand excluded by PLIP NAG.30: 2 residues within 4Å: Chain D: R.14, N.57 Ligand excluded by PLIP NAG.31: 4 residues within 4Å: Chain D: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.38: 2 residues within 4Å: Chain E: N.106, N.188 Ligand excluded by PLIP NAG.39: 2 residues within 4Å: Chain E: R.14, N.57 Ligand excluded by PLIP NAG.40: 4 residues within 4Å: Chain E: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.45: 2 residues within 4Å: Chain F: N.106, N.188 Ligand excluded by PLIP NAG.46: 2 residues within 4Å: Chain F: R.14, N.57 Ligand excluded by PLIP NAG.47: 4 residues within 4Å: Chain F: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.54: 2 residues within 4Å: Chain G: N.106, N.188 Ligand excluded by PLIP NAG.55: 2 residues within 4Å: Chain G: R.14, N.57 Ligand excluded by PLIP NAG.56: 4 residues within 4Å: Chain G: R.465, K.469, E.482, N.485 Ligand excluded by PLIP NAG.61: 2 residues within 4Å: Chain H: N.106, N.188 Ligand excluded by PLIP NAG.62: 2 residues within 4Å: Chain H: R.14, N.57 Ligand excluded by PLIP NAG.63: 4 residues within 4Å: Chain H: R.465, K.469, E.482, N.485 Ligand excluded by PLIP

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

SO4.9: 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 SO4.10: 4 residues within 4Å: Chain A: L.514, R.515, Q.518 Chain B: R.509 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrogen bonds: A:R.515, A:Q.518 Salt bridges: B:R.509 SO4.16: 4 residues within 4Å: Chain B: Q.316, G.413, N.414, N.415 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:Q.316, B:G.413, B:N.415 SO4.25: 4 residues within 4Å: Chain C: Q.316, G.413, N.414, N.415 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:Q.316, C:N.415 SO4.26: 4 residues within 4Å: Chain C: L.514, R.515, Q.518 Chain D: R.509 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain D Hydrogen bonds: C:R.515, C:Q.518 Salt bridges: D:R.509 SO4.32: 4 residues within 4Å: Chain D: Q.316, G.413, N.414, N.415 3 PLIP interactions: 3 interactions with chain D Hydrogen bonds: D:Q.316, D:G.413, D:N.415 SO4.41: 4 residues within 4Å: Chain E: Q.316, G.413, N.414, N.415 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:Q.316, E:N.415 SO4.42: 4 residues within 4Å: Chain E: L.514, R.515, Q.518 Chain F: R.509 3 PLIP interactions: 2 interactions with chain E, 1 interactions with chain F Hydrogen bonds: E:R.515, E:Q.518 Salt bridges: F:R.509 SO4.48: 4 residues within 4Å: Chain F: Q.316, G.413, N.414, N.415 3 PLIP interactions: 3 interactions with chain F Hydrogen bonds: F:Q.316, F:G.413, F:N.415 SO4.57: 4 residues within 4Å: Chain G: Q.316, G.413, N.414, N.415 2 PLIP interactions: 2 interactions with chain G Hydrogen bonds: G:Q.316, G:N.415 SO4.58: 4 residues within 4Å: Chain G: L.514, R.515, Q.518 Chain H: R.509 3 PLIP interactions: 1 interactions with chain H, 2 interactions with chain G Salt bridges: H:R.509 Hydrogen bonds: G:R.515, G:Q.518 SO4.64: 4 residues within 4Å: Chain H: Q.316, G.413, N.414, N.415 3 PLIP interactions: 3 interactions with chain H Hydrogen bonds: H:Q.316, H:G.413, H:N.415

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

CL.11: 2 residues within 4Å: Chain A: Y.420 Chain B: R.509 Ligand excluded by PLIP CL.27: 2 residues within 4Å: Chain C: Y.420 Chain D: R.509 Ligand excluded by PLIP CL.43: 2 residues within 4Å: Chain E: Y.420 Chain F: R.509 Ligand excluded by PLIP CL.59: 2 residues within 4Å: Chain G: Y.420 Chain H: R.509 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Carletti, E. et al., Structure-Activity Analysis of Aging and Reactivation of Human Butyrylcholinesterase Inhibited by Analogues of Tabun. Biochem.J. (2009)

Release Date

2009-05-26

Peptides

CHOLINESTERASE: ABCDEFGH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
A

D
B

E
A

F
B

G
A

H
B

CHOLINESTERASE