SMTL ID : 6pv8.1

Human alpha3beta4 nicotinic acetylcholine receptor in complex with AT-1001

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-3-2-2-mer

Ligands

2 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: 3 residues within 4Å: Chain A: N.24, S.26 Chain B: E.77 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 2 residues within 4Å: Chain D: N.24, S.26 No protein-ligand interaction detected (PLIP)

5 x NAG- NAG- BMA- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]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.2: 7 residues within 4Å: Chain A: N.141, Y.184, K.185, H.186, T.201, S.203, Y.205 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.201 Hydrogen bonds: A:H.186, A:K.185 NAG-NAG-BMA-MAN-MAN.4: 3 residues within 4Å: Chain B: N.145, R.188, D.204 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:R.188 NAG-NAG-BMA-MAN-MAN.6: 5 residues within 4Å: Chain C: N.145, R.188, N.192, D.204, I.206 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:R.188, C:N.192, C:N.192 NAG-NAG-BMA-MAN-MAN.8: 7 residues within 4Å: Chain D: N.141, T.143, Y.184, K.185, H.186, S.203, Y.205 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.186, D:H.186 NAG-NAG-BMA-MAN-MAN.10: 2 residues within 4Å: Chain E: N.145, R.188 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:R.188

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

NAG-NAG-BMA.3: 2 residues within 4Å: Chain B: R.115, N.117 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.5: 1 residues within 4Å: Chain C: N.117 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.9: 2 residues within 4Å: Chain D: E.194 Chain E: N.117 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.194

2 x P1M: (3-endo)-N-(2-bromophenyl)-9-methyl-9-azabicyclo[3.3.1]nonan-3-amine(Non-covalent)

P1M.11: 11 residues within 4Å: Chain A: Y.93, W.149, Y.190, C.192, Y.197 Chain B: W.59, N.111, L.112, I.113, L.121, L.123 7 PLIP interactions: 4 interactions with chain B, 3 interactions with chain A Hydrophobic interactions: B:W.59, B:I.113, B:L.121, B:L.123, A:Y.190, A:Y.197, A:Y.197 P1M.23: 12 residues within 4Å: Chain D: Y.93, W.149, S.150, Y.190, C.192, C.193, Y.197 Chain E: W.59, N.111, I.113, L.121, L.123 8 PLIP interactions: 4 interactions with chain D, 4 interactions with chain E Hydrophobic interactions: D:W.149, D:Y.190, D:Y.197, E:W.59, E:I.113, E:L.121, E:L.123 Hydrogen bonds: D:Y.197

10 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)

Y01.12: 6 residues within 4Å: Chain A: L.286, V.289, I.290, F.293, F.499 Ligands: Y01.16 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:L.286, A:L.286, A:V.289, A:I.290, A:F.293, A:F.293, A:F.499 Y01.13: 4 residues within 4Å: Chain A: F.226, Y.233, L.500, W.501 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:F.226, A:Y.233, A:Y.233, A:L.500, A:W.501 Y01.16: 6 residues within 4Å: Chain B: L.227, I.230, Y.234, R.490, W.494 Ligands: Y01.12 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:L.227, B:I.230, B:Y.234, B:W.494 Y01.17: 4 residues within 4Å: Chain B: T.291, C.294, F.316, F.492 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:F.316, B:F.492 Y01.21: 5 residues within 4Å: Chain C: L.227, I.230, L.231, Y.234, R.490 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:L.227, C:I.230, C:L.231, C:Y.234 Y01.22: 7 residues within 4Å: Chain C: F.287, V.290, T.291, C.294, F.316, F.492 Ligands: Y01.24 4 PLIP interactions: 4 interactions with chain C Hydrophobic interactions: C:F.287, C:F.287, C:V.290, C:F.316 Y01.24: 5 residues within 4Å: Chain C: V.290, C.294 Chain D: Y.233, I.508 Ligands: Y01.22 3 PLIP interactions: 2 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:Y.233, D:I.508, C:V.290 Y01.25: 8 residues within 4Å: Chain D: T.285, L.286, V.289, I.290, F.293, F.315, F.499 Ligands: Y01.28 5 PLIP interactions: 5 interactions with chain D Hydrophobic interactions: D:T.285, D:V.289, D:F.293, D:F.293, D:F.499 Y01.28: 6 residues within 4Å: Chain E: L.227, I.230, Y.234, R.490, L.493 Ligands: Y01.25 5 PLIP interactions: 5 interactions with chain E Hydrophobic interactions: E:L.227, E:L.227, E:I.230, E:Y.234, E:L.493 Y01.29: 7 residues within 4Å: Chain E: F.287, V.290, C.294, W.311, V.312, F.316, F.492 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:F.287, E:V.290, E:F.492

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

NAG.14: 1 residues within 4Å: Chain B: N.15 No protein-ligand interaction detected (PLIP) NAG.15: 3 residues within 4Å: Chain B: N.72, S.74, R.75 No protein-ligand interaction detected (PLIP) NAG.19: 3 residues within 4Å: Chain C: D.11, N.15, T.17 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:N.15, C:T.17 NAG.20: 3 residues within 4Å: Chain C: N.72, S.74, R.75 2 PLIP interactions: 2 interactions with chain C Hydrogen bonds: C:S.74, C:S.74 NAG.26: 2 residues within 4Å: Chain E: N.15, T.17 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:T.17, E:T.17 NAG.27: 2 residues within 4Å: Chain E: N.72, S.74 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.72, E:R.75

1 x NA: SODIUM ION(Non-functional Binders)

NA.18: 2 residues within 4Å: Chain B: E.241 Chain C: E.241 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.241

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Gharpure, A. et al., Agonist Selectivity and Ion Permeation in the alpha 3 beta 4 Ganglionic Nicotinic Receptor. Neuron (2019)

Release Date

2019-09-11

Peptides

Fusion protein of Neuronal acetylcholine receptor subunit alpha-3 and Soluble cytochrome b562: AD
Fusion protein of Neuronal acetylcholine receptor subunit beta-4 and Soluble cytochrome b562: BCE
IgG2b Fab heavy chain: FH
Kappa Fab light chain: GI

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

C
C

E
E

F
F

H
H

G
G

I
I

Membrane

We predict this structure to be a membrane protein.
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Fusion protein of Neuronal acetylcholine receptor subunit alpha-3 and Soluble cytochrome b562

Fusion protein of Neuronal acetylcholine receptor subunit beta-4 and Soluble cytochrome b562

IgG2b Fab heavy chain

Kappa Fab light chain

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