SMTL ID : 3c79.1

Crystal structure of Aplysia californica AChBP in complex with the neonicotinoid imidacloprid

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 2.48 Å

Oligo State

homo-pentamer

Ligands

4 x IM4: (2E)-1-[(6-chloropyridin-3-yl)methyl]-N-nitroimidazolidin-2-imine(Non-covalent)

IM4.1: 12 residues within 4Å: Chain A: W.155, V.156, Y.196, S.197, C.198, Y.203 Chain E: Y.63, Q.65, V.116, M.124, F.125, I.126 5 PLIP interactions: 4 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:V.116 Hydrogen bonds: E:Y.63 Water bridges: E:I.126 Halogen bonds: E:M.124 pi-Stacking: A:Y.196 IM4.3: 13 residues within 4Å: Chain A: Y.63, I.114, V.116, M.124, F.125, I.126 Chain B: Y.101, W.155, V.156, Y.196, S.197, C.198, Y.203 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:V.116 Water bridges: A:I.126 Halogen bonds: A:M.124 pi-Stacking: B:Y.196 IM4.4: 14 residues within 4Å: Chain B: Y.63, Q.65, I.114, A.115, V.116, M.124, F.125, I.126 Chain C: W.155, V.156, Y.196, S.197, C.198, Y.203 7 PLIP interactions: 6 interactions with chain B, 1 interactions with chain C Hydrophobic interactions: B:V.116, B:I.126 Hydrogen bonds: B:Y.63, B:Y.63 Water bridges: B:I.126 Halogen bonds: B:M.124 pi-Stacking: C:Y.196 IM4.6: 13 residues within 4Å: Chain C: Y.63, Q.65, I.114, A.115, V.116, M.124, F.125, I.126 Chain D: W.155, V.156, Y.196, C.198, Y.203 4 PLIP interactions: 3 interactions with chain C, 1 interactions with chain D Hydrophobic interactions: C:V.116 Water bridges: C:I.126 Halogen bonds: C:M.124 pi-Stacking: D:Y.196

3 x IPA: ISOPROPYL ALCOHOL(Non-functional Binders)

IPA.2: 8 residues within 4Å: Chain A: T.99, Y.101, K.151, G.153, S.154, W.155, Y.196, D.205 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.101, A:Y.101, A:K.151, A:W.155 Hydrogen bonds: A:Y.196 IPA.5: 4 residues within 4Å: Chain C: G.159, R.191, P.202, I.204 2 PLIP interactions: 2 interactions with chain C Hydrophobic interactions: C:P.202 Hydrogen bonds: C:R.191 IPA.7: 5 residues within 4Å: Chain D: M.124, F.125, I.126 Chain E: W.155, V.156 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:I.126 Hydrogen bonds: D:I.126 Water bridges: D:I.114, D:I.126

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Talley, T.T. et al., Atomic interactions of neonicotinoid agonists with AChBP: molecular recognition of the distinctive electronegative pharmacophore. Proc.Natl.Acad.Sci.Usa (2008)

Release Date

2008-05-20

Peptides

Soluble acetylcholine receptor: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Soluble acetylcholine receptor

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