SMTL ID : 6u37.1

Structure of VX-phosphonylated hAChE in complex with oxime reactivator RS194B

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.25 Å

Oligo State

homo-dimer

Ligands

2 x VX: O-ETHYLMETHYLPHOSPHONIC ACID ESTER GROUP(Covalent)

VX.1: 11 residues within 4Å: Chain A: G.123, G.124, G.125, S.206, A.207, W.239, F.298, F.300, F.341, H.450 Ligands: GOL.3 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.341 Hydrogen bonds: A:G.124, A:G.125, A:A.207 VX.8: 12 residues within 4Å: Chain B: G.123, G.124, G.125, S.206, A.207, W.239, F.298, F.300, F.341, H.450 Ligands: PQV.9, GOL.10 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.341 Hydrogen bonds: B:G.124, B:G.125, B:A.207

2 x PQV: (2E)-N-[2-(azepan-1-yl)ethyl]-2-(hydroxyimino)acetamide(Non-covalent)

PQV.2: 8 residues within 4Å: Chain A: Y.75, Y.127, W.289, V.297, F.298, F.300, F.341, Y.344 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:Y.127, A:W.289, A:F.300, A:F.341, A:Y.344, A:Y.344 Water bridges: A:Y.75, A:R.299 PQV.9: 8 residues within 4Å: Chain B: Y.75, Y.127, W.289, F.298, F.300, F.341, Y.344 Ligands: VX.8 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:Y.127, B:W.289, B:F.300, B:F.341 Water bridges: B:R.299

4 x GOL: GLYCEROL(Non-functional Binders)

GOL.3: 6 residues within 4Å: Chain A: W.89, E.205, S.206, Y.340, H.450 Ligands: VX.1 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.205, A:Y.340, A:H.450 GOL.4: 8 residues within 4Å: Chain A: E.84, M.88, T.439, L.440, S.441, Y.452, E.455, Y.468 5 PLIP interactions: 5 interactions with chain A Hydrogen bonds: A:T.439, A:S.441, A:S.441, A:Y.468 Water bridges: A:T.439 GOL.10: 5 residues within 4Å: Chain B: W.89, E.205, Y.340, H.450 Ligands: VX.8 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:E.205 Water bridges: B:G.123 GOL.11: 8 residues within 4Å: Chain B: E.84, M.88, T.439, L.440, S.441, Y.452, E.455, Y.468 5 PLIP interactions: 5 interactions with chain B Hydrogen bonds: B:T.439, B:T.439, B:S.441, B:S.441 Water bridges: B:Y.468

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

NO3.5: 5 residues within 4Å: Chain A: D.336, E.399, L.444, W.445, G.447 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.399 Water bridges: A:V.448, A:V.448 NO3.6: 4 residues within 4Å: Chain A: G.46, P.47, R.277, T.278 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:G.46 Water bridges: A:G.46 NO3.7: 3 residues within 4Å: Chain A: G.322, D.323, F.324 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:D.323

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gorecki, L. et al., Rational design, synthesis, and evaluation of uncharged, "smart" bis-oxime antidotes of organophosphate-inhibited human acetylcholinesterase. J.Biol.Chem. (2020)

Release Date

2020-02-12

Peptides

Acetylcholinesterase: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Acetylcholinesterase

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