SMTL ID : 4ara.1

Mus musculus Acetylcholinesterase in complex with (R)-C5685 at 2.5 A resolution.

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.50 Å

Oligo State

homo-dimer

Ligands

2 x C56: 4-(DIMETHYLAMINO)-N-{[(2R)-1-ETHYLPYRROLIDIN-2-YL]METHYL}-2-METHOXY-5-NITROBENZAMIDE(Non-covalent)

C56.1: 15 residues within 4Å: Chain A: Y.72, D.74, W.86, G.121, G.122, Y.124, W.286, S.293, I.294, F.295, R.296, F.297, Y.337, F.338, Y.341 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:W.86, A:W.86, A:Y.124, A:W.286, A:F.297, A:Y.341, A:Y.341 Hydrogen bonds: A:D.74, A:D.74, A:Y.124, A:R.296 Water bridges: A:S.125 C56.12: 14 residues within 4Å: Chain B: Y.72, D.74, W.86, G.121, G.122, Y.124, W.286, S.293, I.294, F.295, R.296, Y.337, F.338, Y.341 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:W.86, B:W.286, B:Y.341, B:Y.341 Hydrogen bonds: B:Y.124, B:Y.341

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

PEG.2: 5 residues within 4Å: Chain A: V.303, D.304, G.305, S.309, D.310 No protein-ligand interaction detected (PLIP) PEG.4: 2 residues within 4Å: Chain A: D.323 Ligands: PEG.5 No protein-ligand interaction detected (PLIP) PEG.5: 5 residues within 4Å: Chain A: I.213, R.219, F.222, D.323 Ligands: PEG.4 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:I.213 PEG.13: 6 residues within 4Å: Chain B: T.112, P.113, E.142, G.143, A.144, R.485 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.485 PEG.15: 2 residues within 4Å: Chain B: D.323 Ligands: EDO.17 No protein-ligand interaction detected (PLIP) PEG.16: 5 residues within 4Å: Chain A: Q.527 Chain B: H.381, Y.382, D.384 Ligands: 1PE.14 No protein-ligand interaction detected (PLIP) PEG.18: 5 residues within 4Å: Chain B: R.11, V.12, R.13, E.185, A.189 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.11 PEG.19: 5 residues within 4Å: Chain B: K.332, D.333, D.396, L.441, W.442 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:K.332 PEG.22: 4 residues within 4Å: Chain B: V.303, D.304, G.305, S.309 No protein-ligand interaction detected (PLIP)

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

EDO.3: 3 residues within 4Å: Chain A: G.234, T.238, E.313 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:T.238, A:E.313 EDO.6: 1 residues within 4Å: Chain A: E.313 No protein-ligand interaction detected (PLIP) EDO.8: 1 residues within 4Å: Chain A: D.5 1 PLIP interactions: 1 interactions with chain A Water bridges: A:D.5 EDO.9: 2 residues within 4Å: Chain A: S.57, V.59 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:V.59 Water bridges: A:V.59 EDO.10: 2 residues within 4Å: Chain A: I.20, T.63 No protein-ligand interaction detected (PLIP) EDO.17: 2 residues within 4Å: Chain B: R.219 Ligands: PEG.15 No protein-ligand interaction detected (PLIP) EDO.21: 2 residues within 4Å: Chain B: E.313, P.537 No protein-ligand interaction detected (PLIP) EDO.24: 1 residues within 4Å: Chain B: K.516 No protein-ligand interaction detected (PLIP)

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

NAG.7: 3 residues within 4Å: Chain A: S.347, N.350, L.353 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.345 Water bridges: A:G.345 NAG.11: 2 residues within 4Å: Chain A: S.462, N.464 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.462, A:N.464 NAG.20: 4 residues within 4Å: Chain B: G.345, S.347, N.350, L.353 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:G.345, B:N.350 Water bridges: B:G.345

1 x 1PE: PENTAETHYLENE GLYCOL(Non-functional Binders)

1PE.14: 12 residues within 4Å: Chain A: A.377, L.380, H.381, Q.527, F.531, F.535 Chain B: A.377, L.380, H.381, F.531, F.535 Ligands: PEG.16 4 PLIP interactions: 3 interactions with chain B, 1 interactions with chain A Water bridges: B:H.381, B:H.381, B:Q.527 Hydrogen bonds: A:Q.527

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

CL.23: 1 residues within 4Å: Chain B: S.240 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Berg, L. et al., Similar But Different: Thermodynamic and Structural Characterization of a Pair of Enantiomers Binding to Acetylcholinesterase. Angew.Chem.Int.Ed.Engl. (2012)

Release Date

2012-11-28

Peptides

ACETYLCHOLINESTERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

ACETYLCHOLINESTERASE

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