SMTL ID : 9dml.1

Human muscle nAChR with fab2-bound

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

hetero-2-2-2-1-1-1-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: 9 residues within 4Å: Chain E: 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 E Hydrogen bonds: E:H.206, E:S.207, E:S.207, E:W.204 Hydrophobic interactions: E:W.204 NAG-NAG-BMA-MAN-MAN.2: 10 residues within 4Å: Chain F: 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 F Hydrogen bonds: F:H.206, F:S.207, F:S.207, F:W.204 Hydrophobic interactions: F:W.204 NAG-NAG-BMA-MAN-MAN.3: 14 residues within 4Å: Chain G: 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 4 PLIP interactions: 4 interactions with chain G Hydrophobic interactions: G:I.218, G:F.500 Hydrogen bonds: G:Y.238, G:P.501 NAG-NAG-BMA-MAN-MAN.4: 16 residues within 4Å: Chain H: W.162, N.164, R.219, N.221, V.222, D.223, P.224, R.225, Y.239, I.241, P.498, Q.500, P.501, F.502, P.503, D.505 2 PLIP interactions: 2 interactions with chain H Hydrogen bonds: H:D.223, H:R.225, H:Y.239, H:P.503

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.5: 10 residues within 4Å: Chain I: W.159, N.161, S.163, V.213, R.215, I.231, S.233, I.235, P.483, L.485 No protein-ligand interaction detected (PLIP)

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

NAG.6: 7 residues within 4Å: Chain C: T.39, T.41, S.84, G.85, D.89, F.90, N.91 1 PLIP interactions: 1 interactions with chain C Hydrophobic interactions: C:N.91 NAG.7: 7 residues within 4Å: Chain D: R.37, T.39, T.41, G.85, D.89, F.90, N.91 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:D.89 Hydrogen bonds: D:N.91 NAG.10: 6 residues within 4Å: Chain I: Q.81, N.86, Y.87, S.88, D.91, G.133 2 PLIP interactions: 2 interactions with chain I Hydrogen bonds: I:S.88, I:D.91

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

POV.8: 19 residues within 4Å: Chain G: L.261, I.264, F.265, Y.268, L.472, I.476 Chain H: I.326, I.329, I.333, R.336, H.341, V.342, S.344, V.347, F.351, W.462, V.465, V.469, C.473 9 PLIP interactions: 7 interactions with chain H, 2 interactions with chain G Hydrophobic interactions: H:I.329, H:I.329, H:I.333, H:V.347, G:F.265, G:F.265 Hydrogen bonds: H:H.341 Salt bridges: H:R.336, H:R.336 POV.9: 18 residues within 4Å: Chain G: L.246, L.249, V.250, I.253, A.254, I.257, F.487 Chain H: T.156, M.304, A.305, I.306, K.311, L.314, F.315, V.318, L.319, M.322, I.488 6 PLIP interactions: 5 interactions with chain H, 1 interactions with chain G Hydrophobic interactions: H:K.311, H:L.314, H:V.318, H:L.319, G:A.254 Hydrogen bonds: H:I.306

2 x CLR: CHOLESTEROL(Non-covalent)

CLR.11: 10 residues within 4Å: Chain I: T.153, Y.154, S.300, V.301, R.306, F.310, G.469, L.472, I.473 Ligands: CLR.12 2 PLIP interactions: 2 interactions with chain I Hydrophobic interactions: I:T.153, I:I.473 CLR.12: 11 residues within 4Å: Chain F: L.232, V.236, I.240 Chain I: L.299, S.300, V.301, R.306, I.309, F.310, V.313 Ligands: CLR.11 3 PLIP interactions: 3 interactions with chain I Hydrophobic interactions: I:V.301, I:I.309, I:V.313

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Li, H. et al., Structure of human muscle AChR with fab2-bound. To Be Published

Release Date

2025-04-09

Peptides

Fab2 heavy chain: AB
Fab2 light chain: CD
Acetylcholine receptor subunit alpha: EF
Acetylcholine receptor subunit beta: G
Acetylcholine receptor subunit delta: H
Acetylcholine receptor subunit epsilon: I

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

F
F

G
G

H
H

I
I

Membrane

We predict this structure to be a membrane protein.
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Fab2 heavy chain

Fab2 light chain

Acetylcholine receptor subunit alpha

Acetylcholine receptor subunit beta

Acetylcholine receptor subunit delta

Acetylcholine receptor subunit epsilon

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