SMTL ID : 6zwe.1

Crystal structure of human acetylcholinesterase in complex with ((6-((2E,4E)-5-(benzo[d][1,3]dioxol-5-yl)penta-2,4-dienamido)hexyl)triphenylphosphonium bromide)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 3.00 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: 7 residues within 4Å: Chain A: A.342, P.343, G.344, F.345, S.346, N.349, L.352 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:S.346, A:S.346, A:G.344 NAG-NAG-FUC.3: 3 residues within 4Å: Chain B: G.344, S.346, N.349 No protein-ligand interaction detected (PLIP)

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-3)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.2: 4 residues within 4Å: Chain A: R.164, N.264, T.266, E.267 No protein-ligand interaction detected (PLIP)

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

NAG.4: 2 residues within 4Å: Chain A: S.461, N.463 No protein-ligand interaction detected (PLIP)

1 x QRH: (2~{E},4~{E})-5-(1,3-benzodioxol-5-yl)-~{N}-[6-(triphenyl-$l^{5}-phosphanyl)hexyl]penta-2,4-dienamide(Non-covalent)

QRH.5: 20 residues within 4Å: Chain A: Y.71, D.73, L.75, W.85, G.120, Y.123, E.201, S.202, W.285, L.288, E.291, S.292, V.293, F.294, F.296, Y.336, F.337, Y.340, G.341, H.446 17 PLIP interactions: 17 interactions with chain A Hydrophobic interactions: A:Y.71, A:Y.71, A:L.75, A:Y.123, A:W.285, A:W.285, A:L.288, A:F.296, A:Y.336, A:F.337, A:F.337, A:Y.340 Hydrogen bonds: A:S.202, A:F.294, A:Y.340 Water bridges: A:A.203 pi-Stacking: A:W.85

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

SO4.6: 3 residues within 4Å: Chain A: T.465, A.466, E.467 Ligand excluded by PLIP SO4.7: 3 residues within 4Å: Chain A: Q.412, R.416, N.532 Ligand excluded by PLIP SO4.8: 3 residues within 4Å: Chain A: R.355, L.359 Chain B: R.533 Ligand excluded by PLIP SO4.9: 3 residues within 4Å: Chain A: T.503, G.505, A.506 Ligand excluded by PLIP SO4.10: 1 residues within 4Å: Chain A: H.321 Ligand excluded by PLIP SO4.11: 3 residues within 4Å: Chain A: G.239, M.240, G.241 Ligand excluded by PLIP SO4.12: 4 residues within 4Å: Chain A: R.524, A.525, Q.526, A.527 Ligand excluded by PLIP SO4.13: 2 residues within 4Å: Chain A: R.533 Chain B: E.375 Ligand excluded by PLIP SO4.14: 4 residues within 4Å: Chain A: K.331, E.430, R.520, R.524 Ligand excluded by PLIP SO4.15: 3 residues within 4Å: Chain A: L.21, K.22, R.135 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain B: T.503, G.505, A.506 Ligand excluded by PLIP SO4.29: 4 residues within 4Å: Chain A: R.533 Chain B: R.355, L.359, W.384 Ligand excluded by PLIP SO4.30: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP SO4.31: 3 residues within 4Å: Chain B: G.239, M.240, G.241 Ligand excluded by PLIP SO4.32: 4 residues within 4Å: Chain B: Q.412, R.416, N.532, R.533 Ligand excluded by PLIP SO4.33: 3 residues within 4Å: Chain B: E.93, P.276, A.277 Ligand excluded by PLIP SO4.34: 3 residues within 4Å: Chain B: G.42, P.43, R.273 Ligand excluded by PLIP SO4.35: 2 residues within 4Å: Chain B: K.22, R.135 Ligand excluded by PLIP

2 x BR: BROMIDE ION(Non-covalent)

BR.16: 2 residues within 4Å: Chain A: H.386, D.389 Ligand excluded by PLIP BR.36: 1 residues within 4Å: Chain B: R.218 Ligand excluded by PLIP

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

CL.17: 0 residues within 4Å: (No contacts) Ligand excluded by PLIP CL.18: 1 residues within 4Å: Chain A: R.423 Ligand excluded by PLIP CL.19: 1 residues within 4Å: Chain A: L.440 Ligand excluded by PLIP CL.20: 2 residues within 4Å: Chain A: R.15, G.57 Ligand excluded by PLIP CL.21: 3 residues within 4Å: Chain A: T.108, S.109, R.142 Ligand excluded by PLIP CL.22: 1 residues within 4Å: Chain A: D.371 Ligand excluded by PLIP CL.23: 2 residues within 4Å: Chain A: H.386, R.392 Ligand excluded by PLIP CL.24: 2 residues within 4Å: Chain A: F.79, K.347 Ligand excluded by PLIP CL.25: 3 residues within 4Å: Chain A: N.232, T.310, E.312 Ligand excluded by PLIP CL.26: 1 residues within 4Å: Chain A: R.416 Ligand excluded by PLIP CL.27: 2 residues within 4Å: Chain A: R.520, R.521 Ligand excluded by PLIP CL.37: 2 residues within 4Å: Chain B: P.161, R.244 Ligand excluded by PLIP CL.38: 1 residues within 4Å: Chain B: R.392 Ligand excluded by PLIP CL.39: 1 residues within 4Å: Chain B: R.524 Ligand excluded by PLIP CL.40: 1 residues within 4Å: Chain B: K.52 Ligand excluded by PLIP CL.41: 2 residues within 4Å: Chain B: H.386, D.389 Ligand excluded by PLIP CL.42: 2 residues within 4Å: Chain B: H.386, R.392 Ligand excluded by PLIP CL.43: 2 residues within 4Å: Chain B: R.15, G.57 Ligand excluded by PLIP CL.44: 3 residues within 4Å: Chain B: R.524, Q.526, A.527 Ligand excluded by PLIP CL.45: 2 residues within 4Å: Chain B: P.439, L.440 Ligand excluded by PLIP CL.46: 3 residues within 4Å: Chain B: G.241, E.242, R.245 Ligand excluded by PLIP CL.47: 3 residues within 4Å: Chain B: P.107, T.108, R.142 Ligand excluded by PLIP CL.48: 4 residues within 4Å: Chain B: G.120, G.121, S.202, H.446 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Chavarria, D. et al., Fine-Tuning the Biological Profile of Multitarget Mitochondriotropic Antioxidants for Neurodegenerative Diseases. Antioxidants (Basel) (2021)

Release Date

2021-06-09

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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