SMTL ID : 2wg0.1

AGED CONJUGATE OF TORPEDO CALIFORNICA ACETYLCHOLINESTERASE WITH SOMAN (OBTAINED BY IN CRYSTALLO AGING)

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.20 Å

Oligo State

homo-dimer

Ligands

1 x NAG- NAG: 2-acetamido-2-deoxy-beta-D-glucopyranose-(1-4)-2-acetamido-2-deoxy-beta-D-glucopyranose(Post Translational Modification)

NAG-NAG.1: 2 residues within 4Å: Chain A: N.416, L.494 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: E.455, N.457 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.455 NAG.3: 3 residues within 4Å: Chain A: N.59, S.61, T.62 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.61 Water bridges: A:N.59, A:N.59 NAG.22: 2 residues within 4Å: Chain B: E.455, N.457 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.455 NAG.23: 3 residues within 4Å: Chain B: N.59, S.61, T.62 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:S.61 Water bridges: B:N.59, B:N.59

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

CL.4: 3 residues within 4Å: Chain A: L.23, K.133, Y.134 Ligand excluded by PLIP CL.24: 3 residues within 4Å: Chain B: L.23, K.133, Y.134 Ligand excluded by PLIP

2 x GB: METHYLPHOSPHONIC ACID ESTER GROUP(Covalent)

GB.5: 9 residues within 4Å: Chain A: G.117, G.118, G.119, S.200, A.201, F.288, F.290, H.440 Ligands: PEG.14 4 PLIP interactions: 4 interactions with chain A Hydrogen bonds: A:G.118, A:G.119, A:A.201 Water bridges: A:H.440 GB.25: 9 residues within 4Å: Chain B: G.117, G.118, G.119, S.200, A.201, F.288, F.290, H.440 Ligands: PEG.34 4 PLIP interactions: 4 interactions with chain B Hydrogen bonds: B:G.118, B:G.119, B:A.201 Water bridges: B:H.440

2 x MES: 2-(N-MORPHOLINO)-ETHANESULFONIC ACID(Non-covalent)

MES.6: 7 residues within 4Å: Chain A: R.243, E.247, N.280, V.281, L.282, P.283, D.285 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:N.280 Water bridges: A:R.243 Salt bridges: A:R.243 MES.26: 7 residues within 4Å: Chain B: R.243, E.247, N.280, V.281, L.282, P.283, D.285 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:N.280 Water bridges: B:E.247 Salt bridges: B:R.243

2 x PG4: TETRAETHYLENE GLYCOL(Non-functional Binders)

PG4.7: 7 residues within 4Å: Chain A: Y.70, Y.121, W.279, F.330, F.331, Y.334 Ligands: PEG.14 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:Y.121 Water bridges: A:D.276, A:W.279 PG4.27: 7 residues within 4Å: Chain B: Y.70, Y.121, W.279, F.330, F.331, Y.334 Ligands: PEG.34 2 PLIP interactions: 2 interactions with chain B Water bridges: B:D.276, B:W.279

8 x PGE: TRIETHYLENE GLYCOL(Non-functional Binders)

PGE.8: 4 residues within 4Å: Chain A: H.159, I.296, D.297, G.298 1 PLIP interactions: 1 interactions with chain A Water bridges: A:S.304 PGE.9: 5 residues within 4Å: Chain A: S.4, E.5, R.105, K.107 Ligands: PEG.15 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.4, A:S.4, A:R.105 PGE.10: 4 residues within 4Å: Chain A: E.499, K.501, V.512, Q.514 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:E.499, A:K.501 Water bridges: A:Q.514 PGE.11: 4 residues within 4Å: Chain A: K.11, G.13, P.53, W.54 No protein-ligand interaction detected (PLIP) PGE.28: 4 residues within 4Å: Chain B: H.159, I.296, D.297, G.298 1 PLIP interactions: 1 interactions with chain B Water bridges: B:S.304 PGE.29: 5 residues within 4Å: Chain B: S.4, E.5, R.105, K.107 Ligands: PEG.35 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:S.4, B:R.105 PGE.30: 4 residues within 4Å: Chain B: E.499, K.501, V.512, Q.514 3 PLIP interactions: 3 interactions with chain B Hydrogen bonds: B:E.499, B:K.501 Water bridges: B:Q.514 PGE.31: 4 residues within 4Å: Chain B: K.11, G.13, P.53, W.54 No protein-ligand interaction detected (PLIP)

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

PEG.12: 3 residues within 4Å: Chain A: T.138, R.467, R.468 Ligand excluded by PLIP PEG.13: 6 residues within 4Å: Chain A: R.242, V.246, L.256, N.257, S.258, D.259 Ligand excluded by PLIP PEG.14: 8 residues within 4Å: Chain A: W.84, G.117, G.118, E.199, F.330, H.440 Ligands: GB.5, PG4.7 Ligand excluded by PLIP PEG.15: 7 residues within 4Å: Chain A: V.8, N.9, R.105, P.106, Q.185, F.186 Ligands: PGE.9 Ligand excluded by PLIP PEG.16: 8 residues within 4Å: Chain A: M.405, H.406, N.409, R.515, L.516, V.518, C.521, N.525 Ligand excluded by PLIP PEG.17: 7 residues within 4Å: Chain A: V.20, L.31, Y.63, R.88, W.100, N.131, K.133 Ligand excluded by PLIP PEG.18: 3 residues within 4Å: Chain A: Q.374, T.376, D.377 Ligand excluded by PLIP PEG.19: 3 residues within 4Å: Chain A: S.55, V.57, W.58 Ligand excluded by PLIP PEG.20: 7 residues within 4Å: Chain A: S.79, G.80, M.83, N.429, L.430, V.431, Y.442 Ligand excluded by PLIP PEG.21: 6 residues within 4Å: Chain A: K.325, D.326, D.389, E.434, W.435, G.437 Ligand excluded by PLIP PEG.32: 3 residues within 4Å: Chain B: T.138, R.467, R.468 Ligand excluded by PLIP PEG.33: 6 residues within 4Å: Chain B: R.242, V.246, L.256, N.257, S.258, D.259 Ligand excluded by PLIP PEG.34: 8 residues within 4Å: Chain B: W.84, G.117, G.118, E.199, F.330, H.440 Ligands: GB.25, PG4.27 Ligand excluded by PLIP PEG.35: 7 residues within 4Å: Chain B: V.8, N.9, R.105, P.106, Q.185, F.186 Ligands: PGE.29 Ligand excluded by PLIP PEG.36: 8 residues within 4Å: Chain B: M.405, H.406, N.409, R.515, L.516, V.518, C.521, N.525 Ligand excluded by PLIP PEG.37: 7 residues within 4Å: Chain B: V.20, L.31, Y.63, R.88, W.100, N.131, K.133 Ligand excluded by PLIP PEG.38: 3 residues within 4Å: Chain B: Q.374, T.376, D.377 Ligand excluded by PLIP PEG.39: 3 residues within 4Å: Chain B: S.55, V.57, W.58 Ligand excluded by PLIP PEG.40: 7 residues within 4Å: Chain B: S.79, G.80, M.83, N.429, L.430, V.431, Y.442 Ligand excluded by PLIP PEG.41: 6 residues within 4Å: Chain B: K.325, D.326, D.389, E.434, W.435, G.437 Ligand excluded by PLIP

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Sanson, B. et al., Crystallographic Snapshots of Nonaged and Aged Conjugates of Soman with Acetylcholinesterase, and of a Ternary Complex of the Aged Conjugate with Pralidoxime. J.Med.Chem. (2009)

Release Date

2009-08-11

Peptides

ACETYLCHOLINESTERASE: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
A

ACETYLCHOLINESTERASE

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