SMTL ID : 7ql5.1

Torpedo muscle-type nicotinic acetylcholine receptor - nicotine-bound conformation

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-mer

Ligands

1 x NAG- NAG- BMA- MAN- MAN- MAN- MAN: alpha-D-mannopyranose-(1-3)-[alpha-D-mannopyranose-(1-6)]alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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-MAN-MAN.1: 9 residues within 4Å: Chain A: N.141, T.143, W.184, K.185, H.186, W.187, T.202, H.204, I.206 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:T.202 Hydrogen bonds: A:H.186

3 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: 10 residues within 4Å: Chain B: W.139, N.141, T.143, R.194, N.196, Y.210, I.212, P.467, F.468, A.469 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:R.194, B:N.196 NAG-NAG-BMA-MAN-MAN.3: 9 residues within 4Å: Chain C: W.141, N.143, N.200, Y.218, I.220, P.482, P.485, F.486, E.487 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA-MAN-MAN.4: 3 residues within 4Å: Chain C: N.70, S.72, E.73 No protein-ligand interaction detected (PLIP)

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.5: 3 residues within 4Å: Chain B: G.166 Chain C: F.206, N.208 No protein-ligand interaction detected (PLIP)

2 x NAG- NAG- BMA- MAN- MAN- MAN: alpha-D-mannopyranose-(1-6)-alpha-D-mannopyranose-(1-6)-[alpha-D-mannopyranose-(1-3)]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-MAN.6: 9 residues within 4Å: Chain D: N.141, T.143, W.184, K.185, H.186, W.187, T.202, H.204, I.206 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:H.186 NAG-NAG-BMA-MAN-MAN-MAN.7: 13 residues within 4Å: Chain E: W.139, N.141, K.192, N.194, W.197, I.210, F.212, I.214, P.476, P.479, F.480, P.481, G.482 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:I.210 Hydrogen bonds: E:K.192, E:G.482

2 x NCT: (S)-3-(1-METHYLPYRROLIDIN-2-YL)PYRIDINE(Non-covalent)

NCT.8: 9 residues within 4Å: Chain A: Y.93, W.149, Y.190, C.192, C.193, Y.198 Chain E: W.55, L.109, L.119 3 PLIP interactions: 1 interactions with chain A, 2 interactions with chain E Hydrophobic interactions: A:W.149, E:W.55 Water bridges: E:L.119 NCT.15: 9 residues within 4Å: Chain C: W.57, L.111, L.121 Chain D: Y.93, W.149, Y.190, C.192, C.193, Y.198 5 PLIP interactions: 2 interactions with chain D, 3 interactions with chain C Hydrophobic interactions: D:W.149, D:Y.198, C:W.57, C:L.121 Water bridges: C:L.121

11 x POV: (2S)-3-(hexadecanoyloxy)-2-[(9Z)-octadec-9-enoyloxy]propyl 2-(trimethylammonio)ethyl phosphate(Non-covalent)

POV.9: 14 residues within 4Å: Chain A: S.287, I.290, I.291, V.294, N.297, R.301, H.306 Chain E: S.235, V.238, L.239, F.242, M.335, K.449 Ligands: POV.20 10 PLIP interactions: 5 interactions with chain A, 5 interactions with chain E Hydrophobic interactions: A:I.290, A:I.290, A:I.291, E:V.238, E:L.239, E:F.242, E:F.242 Salt bridges: A:R.301, A:R.301, E:K.449 POV.10: 14 residues within 4Å: Chain A: Y.234, F.325, F.326, S.327, T.328, M.415 Chain B: V.300, L.304, R.307, P.315, W.317, I.318, F.322, F.439 8 PLIP interactions: 1 interactions with chain A, 7 interactions with chain B Hydrophobic interactions: A:Y.234, B:V.300, B:L.304, B:L.304, B:I.318, B:F.322, B:F.439 Salt bridges: B:R.307 POV.11: 9 residues within 4Å: Chain A: K.276, L.279, F.280, I.283, F.284, S.287, I.417, I.420, V.425 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.280, A:F.280, A:I.283, A:I.283, A:F.284, A:I.417 POV.12: 10 residues within 4Å: Chain A: L.212 Chain B: V.277, R.282, F.286, I.289, F.293, F.443, I.446, I.449, G.450 7 PLIP interactions: 7 interactions with chain B Hydrophobic interactions: B:F.286, B:I.289, B:F.293, B:F.293, B:F.443, B:I.446, B:I.449 POV.13: 9 residues within 4Å: Chain B: I.236, L.237, Y.240, R.437, L.440, Y.441 Chain C: I.308, R.315, H.320 8 PLIP interactions: 3 interactions with chain C, 5 interactions with chain B Hydrophobic interactions: C:I.308, B:I.236, B:L.237, B:Y.240, B:L.440 Salt bridges: C:R.315, C:R.315, B:R.437 POV.14: 11 residues within 4Å: Chain B: V.222, I.226 Chain C: A.282, L.283, A.284, V.285, K.290, M.293, F.294, S.297, L.298 7 PLIP interactions: 1 interactions with chain B, 6 interactions with chain C Hydrophobic interactions: B:I.226, C:K.290, C:F.294, C:L.298 Hydrogen bonds: C:V.285 Salt bridges: C:K.290, C:K.290 POV.16: 9 residues within 4Å: Chain C: Y.248, M.340, R.455 Chain D: V.294, R.301, H.306, V.312, W.399, I.406 4 PLIP interactions: 4 interactions with chain D Hydrophobic interactions: D:V.294, D:V.294, D:I.406 Salt bridges: D:R.301 POV.17: 7 residues within 4Å: Chain D: H.134, F.135, F.137, L.273, I.274, K.276, Y.277 6 PLIP interactions: 6 interactions with chain D Hydrophobic interactions: D:F.137, D:L.273, D:I.274, D:K.276, D:Y.277 Salt bridges: D:H.134 POV.19: 6 residues within 4Å: Chain D: Y.234 Chain E: M.299, N.300, I.303, I.321, I.447 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:N.300 Hydrogen bonds: E:R.310 Salt bridges: E:R.310 POV.20: 9 residues within 4Å: Chain A: V.271, I.283, S.287 Chain E: L.220, I.223, I.224, A.228, V.231 Ligands: POV.9 2 PLIP interactions: 1 interactions with chain E, 1 interactions with chain A Hydrophobic interactions: E:V.231, A:I.283 POV.21: 7 residues within 4Å: Chain D: L.212 Chain E: L.278, N.279, V.280, K.285, I.288, F.289 No protein-ligand interaction detected (PLIP)

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

NAG.18: 3 residues within 4Å: Chain E: N.68, S.70, E.71 2 PLIP interactions: 2 interactions with chain E Hydrogen bonds: E:N.68, E:S.70

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zarkadas, E. et al., Conformational transitions and ligand-binding to a muscle-type nicotinic acetylcholine receptor. Neuron (2022)

Release Date

2022-02-09

Peptides

Acetylcholine receptor subunit alpha: AD
Acetylcholine receptor subunit beta: B
Acetylcholine receptor subunit delta: C
Acetylcholine receptor subunit gamma: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

C
C

E
E

Membrane

We predict this structure to be a membrane protein.
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Acetylcholine receptor subunit alpha

Acetylcholine receptor subunit beta

Acetylcholine receptor subunit delta

Acetylcholine receptor subunit gamma

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