SMTL ID : 5bp0.1 (1 other biounit)

X-ray crystal structure of Lymnaea stagnalis acetylcholine binding protein (Ls-AChBP) in complex with 5-Fluoronicotine (TI-4650)

Coordinates

PDB Format

Method

X-RAY DIFFRACTION 2.40 Å

Oligo State

homo-pentamer

Ligands

5 x PO4: PHOSPHATE ION(Non-functional Binders)

PO4.1: 10 residues within 4Å: Chain A: R.11, L.15, V.82, S.83, R.112 Chain E: D.25, V.26, I.27, W.90, H.153 6 PLIP interactions: 4 interactions with chain A, 2 interactions with chain E Hydrogen bonds: A:S.83, A:S.83, A:S.83, E:I.27 Salt bridges: A:R.11, E:H.153 PO4.4: 9 residues within 4Å: Chain A: D.25, V.26, I.27, W.90, H.153 Chain B: R.11, V.82, S.83, R.112 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:S.83, B:S.83, B:S.83, A:I.27 Salt bridges: B:R.11, A:H.153 PO4.5: 10 residues within 4Å: Chain B: D.25, V.26, I.27, W.90, H.153 Chain C: R.11, L.15, V.82, S.83, R.112 6 PLIP interactions: 4 interactions with chain B, 2 interactions with chain C Hydrogen bonds: B:D.25, B:D.25, B:I.27, C:S.83 Salt bridges: B:H.153, C:R.11 PO4.7: 9 residues within 4Å: Chain C: D.25, V.26, I.27, W.90, H.153 Chain D: R.11, L.15, V.82, S.83 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain D Hydrogen bonds: C:D.25, C:I.27, D:S.83 Water bridges: C:W.90 Salt bridges: C:H.153, D:R.11 PO4.10: 10 residues within 4Å: Chain D: D.25, V.26, I.27, W.90, H.153 Chain E: R.11, L.15, V.82, S.83, R.112 4 PLIP interactions: 2 interactions with chain E, 2 interactions with chain D Hydrogen bonds: E:S.83, D:I.27 Salt bridges: E:R.11, D:H.153

5 x FN1: 5-fluoronicotine(Non-covalent)

FN1.2: 13 residues within 4Å: Chain A: Y.97, S.150, W.151, T.152, Y.193, C.195, C.196, Y.200 Chain B: W.61, A.111, R.112, L.120, M.122 6 PLIP interactions: 2 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:W.61, A:W.151 Water bridges: B:M.122 Hydrogen bonds: A:Y.97, A:W.151 pi-Cation interactions: A:Y.193 FN1.6: 9 residues within 4Å: Chain B: Y.97, S.150, W.151, T.152, Y.193, Y.200 Chain C: W.61, R.112, M.122 5 PLIP interactions: 2 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:W.61, B:Y.193 Water bridges: C:M.122 Hydrogen bonds: B:W.151 pi-Stacking: B:W.151 FN1.8: 13 residues within 4Å: Chain C: Y.97, S.150, W.151, T.152, Y.193, C.195, C.196, Y.200 Chain D: W.61, A.111, R.112, L.120, M.122 6 PLIP interactions: 4 interactions with chain C, 2 interactions with chain D Hydrophobic interactions: C:W.151, D:W.61 Hydrogen bonds: C:W.151 pi-Stacking: C:W.151 pi-Cation interactions: C:Y.193 Water bridges: D:M.122 FN1.11: 12 residues within 4Å: Chain D: Y.97, S.150, W.151, T.152, Y.193, C.195, C.196, Y.200 Chain E: W.61, R.112, L.120, M.122 6 PLIP interactions: 3 interactions with chain E, 3 interactions with chain D Hydrophobic interactions: E:W.61, E:W.61, D:W.151 Water bridges: E:M.122 Hydrogen bonds: D:W.151 pi-Stacking: D:W.151 FN1.12: 12 residues within 4Å: Chain A: W.61, R.112, L.120, M.122 Chain E: Y.97, S.150, W.151, T.152, Y.193, C.195, C.196, Y.200 6 PLIP interactions: 5 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:Y.97, E:W.151, E:W.151 Hydrogen bonds: E:Y.200 pi-Stacking: E:W.151 Water bridges: A:M.122

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

NAG.3: 2 residues within 4Å: Chain A: N.74, S.76 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:N.74, A:S.76 NAG.9: 3 residues within 4Å: Chain C: N.74, S.76, H.77 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.74, C:H.77

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Bobango, J. et al., Comparisons of Binding Affinities for Neuronal Nicotinic Receptors (NNRs) and AChBPs. To Be Published

Release Date

2015-06-24

Peptides

Acetylcholine-binding protein: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Acetylcholine-binding protein

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