SMTL ID : 5e4j.1

Acetylcholinesterase Methylene Blue no PEG

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.54 Å

Oligo State

homo-dimer

Ligands

2 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-2)-alpha-D-mannopyranose-(1-3)-beta-D-mannopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose

NAG-NAG-BMA-MAN-MAN.1: 3 residues within 4Å: Chain A: E.452, L.453, N.454 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.15: 3 residues within 4Å: Chain B: E.452, L.453, N.454 No protein-ligand interaction detected (PLIP)

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

NAG.2: 2 residues within 4Å: Chain A: N.56, S.58 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.56, A:N.56, A:S.58 NAG.3: 1 residues within 4Å: Chain A: N.413 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:N.413 NAG.16: 2 residues within 4Å: Chain B: N.56, S.58 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.56, B:N.56, B:S.58 NAG.17: 1 residues within 4Å: Chain B: N.413 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:N.413

2 x DME: DECAMETHONIUM ION(Non-covalent)

DME.4: 11 residues within 4Å: Chain A: Y.67, W.81, G.115, Y.118, E.196, W.276, F.327, F.328, Y.331, H.437, G.438 10 PLIP interactions: 10 interactions with chain A Hydrophobic interactions: A:W.81, A:F.327, A:F.327, A:F.327, A:F.328, A:Y.331 Salt bridges: A:E.196 pi-Cation interactions: A:W.81, A:W.81, A:W.276 DME.18: 11 residues within 4Å: Chain B: Y.67, W.81, G.115, Y.118, E.196, W.276, F.327, F.328, Y.331, H.437, G.438 10 PLIP interactions: 10 interactions with chain B Hydrophobic interactions: B:W.81, B:F.327, B:F.327, B:F.327, B:F.328, B:Y.331 Salt bridges: B:E.196 pi-Cation interactions: B:W.81, B:W.81, B:W.276

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

SO4.5: 3 residues within 4Å: Chain A: H.403, N.522, Q.523 Ligand excluded by PLIP SO4.6: 5 residues within 4Å: Chain A: N.421, H.422, N.503, T.504, E.505 Ligand excluded by PLIP SO4.7: 5 residues within 4Å: Chain A: P.18, V.19, L.20, K.130, Y.131 Ligand excluded by PLIP SO4.8: 6 residues within 4Å: Chain A: R.286, S.356, V.357, P.358, H.359, H.395 Ligand excluded by PLIP SO4.9: 4 residues within 4Å: Chain A: S.234, A.236, E.237, R.240 Ligand excluded by PLIP SO4.10: 3 residues within 4Å: Chain A: V.509, H.510, Q.511 Ligand excluded by PLIP SO4.11: 4 residues within 4Å: Chain A: K.343, N.379, N.380, G.381 Ligand excluded by PLIP SO4.12: 3 residues within 4Å: Chain A: N.254, S.255, D.256 Ligand excluded by PLIP SO4.13: 4 residues within 4Å: Chain A: Q.65, S.88, E.89, P.268 Ligand excluded by PLIP SO4.14: 3 residues within 4Å: Chain A: D.339, S.340, E.341 Ligand excluded by PLIP SO4.19: 3 residues within 4Å: Chain B: H.403, N.522, Q.523 Ligand excluded by PLIP SO4.20: 5 residues within 4Å: Chain B: N.421, H.422, N.503, T.504, E.505 Ligand excluded by PLIP SO4.21: 5 residues within 4Å: Chain B: P.18, V.19, L.20, K.130, Y.131 Ligand excluded by PLIP SO4.22: 6 residues within 4Å: Chain B: R.286, S.356, V.357, P.358, H.359, H.395 Ligand excluded by PLIP SO4.23: 4 residues within 4Å: Chain B: S.234, A.236, E.237, R.240 Ligand excluded by PLIP SO4.24: 3 residues within 4Å: Chain B: V.509, H.510, Q.511 Ligand excluded by PLIP SO4.25: 4 residues within 4Å: Chain B: K.343, N.379, N.380, G.381 Ligand excluded by PLIP SO4.26: 3 residues within 4Å: Chain B: N.254, S.255, D.256 Ligand excluded by PLIP SO4.27: 4 residues within 4Å: Chain B: Q.65, S.88, E.89, P.268 Ligand excluded by PLIP SO4.28: 3 residues within 4Å: Chain B: D.339, S.340, E.341 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Dym, O. et al., The impact of crystallization conditions on structure-based drug design: A case study on the methylene blue/acetylcholinesterase complex. Protein Sci. (2016)

Release Date

2016-03-30

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

Acetylcholinesterase

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