SMTL ID : 9dmj.1

Human muscle nAChR with two fab1b-bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-1-1-1-2-2-mer

Ligands

4 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.1: 10 residues within 4Å: Chain A: N.161, S.163, E.200, W.204, K.205, H.206, S.207, T.222, H.224, V.226 2 PLIP interactions: 2 interactions with chain A Hydrogen bonds: A:S.207, A:W.204, A:H.206 NAG-NAG-BMA-MAN-MAN.2: 9 residues within 4Å: Chain B: N.161, S.163, W.204, K.205, H.206, S.207, T.222, H.224, V.226 2 PLIP interactions: 2 interactions with chain B Hydrogen bonds: B:K.205, B:W.204, B:H.206 NAG-NAG-BMA-MAN-MAN.3: 15 residues within 4Å: Chain C: Q.154, W.162, N.164, T.166, R.216, I.218, I.236, Y.238, I.240, P.496, P.499, F.500, P.501, S.502, R.503 3 PLIP interactions: 3 interactions with chain C Hydrophobic interactions: C:I.218 Hydrogen bonds: C:Y.238, C:F.500 NAG-NAG-BMA-MAN-MAN.5: 14 residues within 4Å: Chain D: W.162, N.164, R.219, N.221, D.223, P.224, R.225, Y.239, I.241, P.498, Q.500, P.501, F.502, P.503 2 PLIP interactions: 2 interactions with chain D Hydrogen bonds: D:D.223, D:R.225, D:Y.239, D:P.503

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.4: 6 residues within 4Å: Chain D: E.93, N.97, S.99 Chain H: T.51, K.52, G.53 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 5 residues within 4Å: Chain G: D.20, I.21, V.22, N.45, Q.46 2 PLIP interactions: 2 interactions with chain G Hydrophobic interactions: G:D.20 Hydrogen bonds: G:D.20

1 x NAG- NAG- BMA- MAN: 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.6: 10 residues within 4Å: Chain E: W.159, N.161, S.163, V.213, R.215, I.231, S.233, I.235, P.483, L.485 1 PLIP interactions: 1 interactions with chain E Hydrophobic interactions: E:I.231

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

POV.8: 18 residues within 4Å: Chain A: T.153, A.290, V.291, K.296, L.299, F.300, V.303, F.304, A.307, I.311, V.433, F.434, V.437 Chain E: L.241, V.244, I.245, V.249, L.253 9 PLIP interactions: 8 interactions with chain A, 1 interactions with chain E Hydrophobic interactions: A:V.291, A:K.296, A:F.300, A:V.303, A:F.304, A:F.434, A:F.434, A:V.437, E:I.245 POV.10: 18 residues within 4Å: Chain C: L.261, F.265, Y.268, R.469, L.472, W.473 Chain D: M.322, V.325, I.326, I.329, I.333, R.336, H.341, V.347, F.351, W.462, V.465, V.469 9 PLIP interactions: 7 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:V.325, D:I.329, D:F.351, D:F.351, D:V.469, C:F.265 Salt bridges: D:R.336, D:H.341, C:R.469 POV.12: 16 residues within 4Å: Chain C: L.246, L.249, V.250, I.253, A.254, I.257, F.487 Chain D: T.156, A.305, I.306, K.311, L.314, F.315, V.318, L.319, M.322 8 PLIP interactions: 6 interactions with chain D, 2 interactions with chain C Hydrophobic interactions: D:K.311, D:L.314, D:F.315, D:V.318, D:L.319, C:A.254, C:I.257 Hydrogen bonds: D:I.306 POV.16: 25 residues within 4Å: Chain A: I.306, I.310, V.313, I.314, N.317, R.321, H.326 Chain E: V.252, L.253, G.256, L.257, L.259, L.260, Y.262, F.263, L.264, P.265, A.266, K.272, N.452, D.455, F.459, W.460, L.463, F.466 11 PLIP interactions: 8 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:L.259, E:L.260, E:F.263, E:F.263, E:F.263, E:F.459, E:F.466, A:I.310 Salt bridges: E:D.455, A:H.326 Hydrogen bonds: A:N.317

4 x CLR: CHOLESTEROL(Non-covalent)

CLR.9: 10 residues within 4Å: Chain A: L.232, V.236, I.240 Chain C: L.303, S.304, V.305, K.310, M.313, F.314, V.317 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain A Hydrophobic interactions: C:K.310, C:K.310, C:M.313, C:F.314, A:L.232 CLR.11: 10 residues within 4Å: Chain B: L.299, V.303, I.306, A.307, I.310 Chain D: L.247, I.250, I.251, V.255, L.259 4 PLIP interactions: 2 interactions with chain D, 2 interactions with chain B Hydrophobic interactions: D:I.250, D:I.251, B:L.299, B:V.303 CLR.14: 10 residues within 4Å: Chain E: T.153, Y.154, S.300, V.301, R.306, F.310, G.469, L.472, I.473 Ligands: CLR.15 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:T.153, E:I.473 CLR.15: 11 residues within 4Å: Chain B: L.232, V.236, I.240 Chain E: L.299, S.300, V.301, R.306, I.309, F.310, V.313 Ligands: CLR.14 4 PLIP interactions: 3 interactions with chain E, 1 interactions with chain B Hydrophobic interactions: E:V.301, E:I.309, E:V.313, B:L.232

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

NAG.13: 4 residues within 4Å: Chain E: Y.83, N.86, G.133, G.134 2 PLIP interactions: 2 interactions with chain E Hydrophobic interactions: E:N.86 Hydrogen bonds: E:N.86 NAG.17: 4 residues within 4Å: Chain H: D.20, V.22, N.45, Q.46 1 PLIP interactions: 1 interactions with chain H Hydrogen bonds: H:N.45

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Structure of human muscle AChR with two fab1b-bound. To Be Published

Release Date

2025-04-09

Peptides

Acetylcholine receptor subunit alpha: AB
Acetylcholine receptor subunit beta: C
Acetylcholine receptor subunit delta: D
Acetylcholine receptor subunit epsilon: E
Fab1b heavy chain: FI
Fab1b light chain: GH

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
C

C
E

D
D

E
B

F
F

I
I

G
G

H
H

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 epsilon

Fab1b heavy chain

Fab1b light chain

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