SMTL ID : 2cek.1

Conformational Flexibility in the Peripheral Site of Torpedo californica Acetylcholinesterase Revealed by the Complex Structure with a Bifunctional Inhibitor

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 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: N.416, L.494 Ligands: PGE.9 No protein-ligand interaction detected (PLIP)

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

NAG.2: 3 residues within 4Å: Chain A: E.455, L.456, N.457 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:L.456 Hydrogen bonds: A:E.455 NAG.3: 2 residues within 4Å: Chain A: N.59, S.61 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.61, A:S.61 NAG.11: 3 residues within 4Å: Chain B: E.455, L.456, N.457 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:L.456 Hydrogen bonds: B:E.455 NAG.12: 2 residues within 4Å: Chain B: N.59, S.61 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.61, B:S.61

2 x N8T: N-[8-(1,2,3,4-TETRAHYDROACRIDIN-9-YLTHIO)OCTYL]-1,2,3,4-TETRAHYDROACRIDIN-9-AMINE(Non-covalent)

N8T.4: 15 residues within 4Å: Chain A: Y.70, W.84, G.118, Y.121, E.199, E.278, W.279, F.330, F.331, Y.334, W.432, I.439, H.440, G.441, Y.442 19 PLIP interactions: 19 interactions with chain A Hydrophobic interactions: A:Y.70, A:Y.121, A:F.330, A:F.331, A:Y.334, A:W.432, A:I.439, A:Y.442 Water bridges: A:Y.121, A:S.122, A:W.279 pi-Stacking: A:Y.70, A:Y.70, A:W.84, A:W.84, A:W.84, A:W.279, A:W.279, A:W.279 N8T.13: 15 residues within 4Å: Chain B: Y.70, W.84, G.118, Y.121, E.199, E.278, W.279, F.330, F.331, Y.334, W.432, I.439, H.440, G.441, Y.442 20 PLIP interactions: 20 interactions with chain B Hydrophobic interactions: B:Y.70, B:Y.121, B:F.330, B:F.331, B:Y.334, B:W.432, B:I.439, B:Y.442 Water bridges: B:D.72, B:Y.121, B:S.122, B:W.279 pi-Stacking: B:Y.70, B:Y.70, B:W.84, B:W.84, B:W.84, B:W.279, B:W.279, B:W.279

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

MES.5: 4 residues within 4Å: Chain A: N.9, T.10, K.11, F.186 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:T.10 MES.6: 8 residues within 4Å: Chain A: P.21, V.22, L.23, N.131, K.133, Y.134, V.453, E.455 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:L.23, A:N.131, A:K.133, A:Y.134, A:E.455 Salt bridges: A:K.133 MES.14: 4 residues within 4Å: Chain B: N.9, T.10, K.11, F.186 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:T.10 MES.15: 8 residues within 4Å: Chain B: P.21, V.22, L.23, N.131, K.133, Y.134, V.453, E.455 6 PLIP interactions: 6 interactions with chain B Hydrogen bonds: B:L.23, B:N.131, B:K.133, B:Y.134, B:E.455 Salt bridges: B:K.133

8 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.7: 4 residues within 4Å: Chain A: E.247, R.250, N.251, N.253 1 PLIP interactions: 1 interactions with chain A Water bridges: A:N.251 PGE.8: 6 residues within 4Å: Chain A: H.159, V.238, I.296, D.297, G.298, P.302 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.304 PGE.9: 5 residues within 4Å: Chain A: K.413, F.414, G.415 Ligands: NAG-NAG.1, NAG-NAG.1 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:F.414 Water bridges: A:N.416 PGE.10: 7 residues within 4Å: Chain A: K.325, D.326, R.388, D.389, D.393, E.434, W.435 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:K.325, A:D.393 Water bridges: A:R.388, A:R.388, A:D.392, A:G.437 PGE.16: 4 residues within 4Å: Chain B: E.247, R.250, N.251, N.253 1 PLIP interactions: 1 interactions with chain B Water bridges: B:N.251 PGE.17: 6 residues within 4Å: Chain B: H.159, V.238, I.296, D.297, G.298, P.302 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.304 PGE.18: 3 residues within 4Å: Chain B: K.413, F.414, G.415 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:F.414 Water bridges: B:N.416 PGE.19: 7 residues within 4Å: Chain B: K.325, D.326, R.388, D.389, D.393, E.434, W.435 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:K.325, B:D.393 Water bridges: B:R.388, B:R.388, B:G.437

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Colletier, J.P. et al., Conformational flexibility in the peripheral site of Torpedo californica acetylcholinesterase revealed by the complex structure with a bifunctional inhibitor. J. Am. Chem. Soc. (2006)

Release Date

2006-04-10

Peptides

ACETYLCHOLINESTERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ACETYLCHOLINESTERASE