SMTL ID : 6wvo.1

Crystal Structure of Recombinant Human Acetylcholinesterase In Complex with GD and HI-6

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.19 Å

Oligo State

homo-dimer

Ligands

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.1: 5 residues within 4Å: Chain A: P.343, G.344, F.345, S.346, N.349 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.346, A:G.344 NAG-NAG-FUC.2: 6 residues within 4Å: Chain B: A.342, P.343, G.344, F.345, S.346, N.349 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:S.346, B:G.344

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

EDO.3: 8 residues within 4Å: Chain A: Y.381, T.382, D.383, H.386, P.387, R.392, L.393, A.396 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:D.383, A:P.387, A:R.392 EDO.4: 4 residues within 4Å: Chain A: Q.507, A.525, A.529, R.533 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:Q.507, A:R.533 Water bridges: A:Q.507, A:N.532, A:N.532 EDO.10: 5 residues within 4Å: Chain A: W.384 Chain B: Q.507, A.525, A.529, R.533 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:Q.507, B:Q.507, B:R.533 Water bridges: B:N.532, B:N.532

2 x GD8: (1R)-1,2,2-TRIMETHYLPROPYL (S)-METHYLPHOSPHINATE(Covalent)

GD8.5: 12 residues within 4Å: Chain A: W.85, G.119, G.120, G.121, E.201, S.202, A.203, F.294, F.296, Y.336, F.337, H.446 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:W.85, A:W.85, A:Y.336 Hydrogen bonds: A:G.120, A:G.121, A:A.203 GD8.11: 12 residues within 4Å: Chain B: W.85, G.119, G.120, G.121, E.201, S.202, A.203, F.294, F.296, Y.336, F.337, H.446 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:W.85, B:Y.336 Hydrogen bonds: B:G.120, B:G.121, B:A.203

2 x HI6: 4-(AMINOCARBONYL)-1-[({2-[(E)-(HYDROXYIMINO)METHYL]PYRIDINIUM-1-YL}METHOXY)METHYL]PYRIDINIUM(Non-covalent)

HI6.6: 14 residues within 4Å: Chain A: Y.71, D.73, Y.123, V.281, N.282, E.284, W.285, V.293, F.294, R.295, F.296, Y.336, F.337, Y.340 16 PLIP interactions: 16 interactions with chain A Hydrophobic interactions: A:Y.71, A:W.285, A:Y.336, A:F.337 Hydrogen bonds: A:V.281, A:E.284, A:W.285, A:F.294, A:R.295 Water bridges: A:S.292, A:R.295 pi-Stacking: A:Y.71, A:Y.123, A:W.285, A:W.285, A:Y.340 HI6.12: 8 residues within 4Å: Chain B: Y.71, D.73, Y.123, V.281, E.284, W.285, Y.336, Y.340 15 PLIP interactions: 15 interactions with chain B Hydrophobic interactions: B:Y.71, B:W.285, B:Y.336 Hydrogen bonds: B:D.73, B:Y.123, B:V.281, B:E.284, B:W.285 Water bridges: B:Y.71, B:D.73, B:N.86 pi-Stacking: B:Y.71, B:W.285, B:W.285, B:Y.340

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

NAG.7: 2 residues within 4Å: Chain B: N.264, T.266 No protein-ligand interaction detected (PLIP)

1 x NO3: NITRATE ION(Non-functional Binders)

NO3.8: 4 residues within 4Å: Chain B: P.161, M.240, G.241, R.244 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:R.244, B:R.244 Water bridges: B:P.161

1 x PE8: 3,6,9,12,15,18,21-HEPTAOXATRICOSANE-1,23-DIOL(Non-covalent)

PE8.9: 7 residues within 4Å: Chain B: G.162, M.240, D.303, G.304, D.305, S.308, D.309 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:G.162, B:D.309

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

McGuire, J.R. et al., Structural and Biochemical Insights into the Inhibition of Human Acetylcholinesterase by G-Series Nerve Agents and Subsequent Reactivation by HI-6. Chem.Res.Toxicol. (2021)

Release Date

2021-03-31

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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