SMTL ID : 6cnj.1

Structure of the 2alpha3beta stiochiometry of the human Alpha4Beta2 nicotinic receptor

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY 3.70 Å

Oligo State

hetero-2-3-3-3-mer

Ligands

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.1: 7 residues within 4Å: Chain B: N.143, R.186, I.204 Chain H: N.52, N.54 Chain I: Y.121, Y.122 2 PLIP interactions: 1 interactions with chain H, 1 interactions with chain B Hydrogen bonds: H:N.54, B:R.186 NAG-NAG-BMA.2: 6 residues within 4Å: Chain C: N.143, R.186, N.188 Chain F: N.52, N.54 Chain G: Y.122 3 PLIP interactions: 2 interactions with chain C, 1 interactions with chain F Hydrogen bonds: C:R.186, C:N.188, F:N.54 NAG-NAG-BMA.3: 7 residues within 4Å: Chain E: N.143, R.186, N.188 Chain J: N.52, N.54 Chain K: Y.121, Y.122 1 PLIP interactions: 1 interactions with chain J Hydrogen bonds: J:N.54

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

NAG.4: 2 residues within 4Å: Chain A: N.148, V.212 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:V.212 NAG.13: 2 residues within 4Å: Chain D: N.148, V.212 2 PLIP interactions: 2 interactions with chain D Hydrophobic interactions: D:V.212 Hydrogen bonds: D:N.148

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

NCT.5: 8 residues within 4Å: Chain A: Y.100, W.156, C.199, C.200, Y.204 Chain B: W.57, F.119, L.121 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:W.57, B:F.119, B:L.121, B:L.121 NCT.14: 9 residues within 4Å: Chain D: Y.100, W.156, T.157, C.199, C.200, Y.204 Chain E: W.57, F.119, L.121 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:W.57, E:F.119, E:L.121

10 x Y01: CHOLESTEROL HEMISUCCINATE(Non-covalent)(Covalent)

Y01.6: 7 residues within 4Å: Chain A: C.233, V.236, Y.240, I.366, C.369 Chain E: V.288 Ligands: Y01.17 3 PLIP interactions: 1 interactions with chain E, 2 interactions with chain A Hydrophobic interactions: E:V.288, A:Y.240 Hydrogen bonds: A:Y.240 Y01.7: 4 residues within 4Å: Chain A: L.293, I.297, F.300 Ligands: Y01.10 4 PLIP interactions: 3 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:I.297, A:F.300, A:F.300 Hydrogen bonds: B:Y.232 Y01.9: 6 residues within 4Å: Chain B: F.285, V.288, C.292, R.299, F.353 Ligands: Y01.11 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:F.285, B:V.288, B:F.353 Hydrogen bonds: B:R.299 Y01.10: 6 residues within 4Å: Chain B: S.225, I.228, Y.232, R.351, W.355 Ligands: Y01.7 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:I.228, B:Y.232, B:W.355 Hydrogen bonds: B:R.351 Y01.11: 7 residues within 4Å: Chain B: V.288 Chain C: S.225, L.229, Y.232, R.351, L.354 Ligands: Y01.9 5 PLIP interactions: 4 interactions with chain C, 1 interactions with chain B Hydrophobic interactions: C:L.229, C:Y.232, C:Y.232, C:L.354, B:V.288 Y01.12: 6 residues within 4Å: Chain C: F.285, V.288, C.292, V.296, F.353 Ligands: Y01.15 5 PLIP interactions: 5 interactions with chain C Hydrophobic interactions: C:F.285, C:F.285, C:V.288, C:V.296, C:F.353 Y01.15: 5 residues within 4Å: Chain C: V.288 Chain D: C.233, Y.240, I.366 Ligands: Y01.12 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain C Hydrophobic interactions: D:Y.240, D:I.366, C:V.288 Hydrogen bonds: D:Y.240 Y01.16: 5 residues within 4Å: Chain D: L.293, I.297, F.300 Chain E: Y.232 Ligands: Y01.18 4 PLIP interactions: 3 interactions with chain D, 1 interactions with chain E Hydrophobic interactions: D:L.293, D:I.297, D:F.300 Hydrogen bonds: E:Y.232 Y01.17: 6 residues within 4Å: Chain E: F.285, C.292, V.296, F.314, F.353 Ligands: Y01.6 3 PLIP interactions: 3 interactions with chain E Hydrophobic interactions: E:F.285, E:F.314, E:F.353 Y01.18: 7 residues within 4Å: Chain E: S.225, I.228, Y.232, R.351, L.354, W.355 Ligands: Y01.16 4 PLIP interactions: 4 interactions with chain E Hydrophobic interactions: E:I.228, E:Y.232, E:W.355 Hydrogen bonds: E:R.351

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

NA.8: 0 residues within 4Å: (No contacts) No protein-ligand interaction detected (PLIP)

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Walsh, R.M. et al., Structural principles of distinct assemblies of the human alpha 4 beta 2 nicotinic receptor. Nature (2018)

Release Date

2018-05-02

Peptides

Neuronal acetylcholine receptor subunit alpha-4: AD
Neuronal acetylcholine receptor subunit beta-2: BCE
IgG1 Kappa Light Chain: FHJ
IgG1 Heavy Chain: GIK

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

D
D

B
B

C
C

E
E

F
F

H
H

J
J

G
G

I
I

K
K

Membrane

We predict this structure to be a membrane protein.
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Neuronal acetylcholine receptor subunit alpha-4

Neuronal acetylcholine receptor subunit beta-2

IgG1 Kappa Light Chain

IgG1 Heavy Chain

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