SMTL ID : 8v86.1

Alpha7-nicotinic acetylcholine receptor bound to GAT107

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-pentamer

Ligands

5 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.23, S.25, Q.26 No protein-ligand interaction detected (PLIP) NAG-NAG.3: 3 residues within 4Å: Chain B: N.23, S.25, Q.26 No protein-ligand interaction detected (PLIP) NAG-NAG.5: 3 residues within 4Å: Chain C: N.23, S.25, Q.26 No protein-ligand interaction detected (PLIP) NAG-NAG.7: 3 residues within 4Å: Chain D: N.23, S.25, Q.26 No protein-ligand interaction detected (PLIP) NAG-NAG.9: 3 residues within 4Å: Chain E: N.23, S.25, Q.26 No protein-ligand interaction detected (PLIP)

5 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.2: 4 residues within 4Å: Chain A: N.110, S.111, S.112, H.114 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.4: 4 residues within 4Å: Chain B: N.110, S.111, S.112, H.114 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.6: 4 residues within 4Å: Chain C: N.110, S.111, S.112, H.114 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.8: 4 residues within 4Å: Chain D: N.110, S.111, S.112, H.114 No protein-ligand interaction detected (PLIP) NAG-NAG-BMA.10: 4 residues within 4Å: Chain E: N.110, S.111, S.112, H.114 No protein-ligand interaction detected (PLIP)

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

POV.11: 17 residues within 4Å: Chain A: Y.128, D.130, R.132, D.265, S.266, V.267, Q.272, A.275, I.279 Chain B: L.208, L.212, I.216, V.219, L.220, D.548, F.549 Ligands: YLI.16 9 PLIP interactions: 6 interactions with chain A, 3 interactions with chain B Hydrophobic interactions: A:V.267, A:V.267, A:V.267, B:L.208, B:I.216, B:F.549 Hydrogen bonds: A:V.267 Salt bridges: A:D.130, A:R.132 POV.15: 19 residues within 4Å: Chain A: L.220, A.223, L.224, L.226, L.227, L.230, R.321, M.322, R.517, L.520, S.524 Chain E: M.278, I.279, G.282, L.283, V.286, I.290, Q.293 Ligands: YLI.14 10 PLIP interactions: 6 interactions with chain A, 4 interactions with chain E Hydrophobic interactions: A:A.223, A:L.224, A:L.227, A:L.230, A:L.520, E:L.283, E:V.286, E:V.286 Hydrogen bonds: A:R.517, E:Q.293 POV.17: 19 residues within 4Å: Chain A: M.278, I.279, G.282, L.283, V.286, I.290, Q.293 Chain B: L.220, A.223, L.224, L.226, L.227, L.230, R.321, M.322, R.517, L.520, S.524 Ligands: YLI.16 10 PLIP interactions: 6 interactions with chain B, 4 interactions with chain A Hydrophobic interactions: B:A.223, B:L.224, B:L.227, B:L.230, B:L.520, A:L.283, A:V.286, A:V.286 Hydrogen bonds: B:R.517, A:Q.293 POV.18: 17 residues within 4Å: Chain B: Y.128, D.130, R.132, D.265, S.266, V.267, Q.272, A.275, I.279 Chain C: L.208, L.212, I.216, V.219, L.220, D.548, F.549 Ligands: YLI.21 9 PLIP interactions: 3 interactions with chain C, 6 interactions with chain B Hydrophobic interactions: C:L.208, C:I.216, C:F.549, B:V.267, B:V.267, B:V.267 Hydrogen bonds: B:V.267 Salt bridges: B:D.130, B:R.132 POV.22: 19 residues within 4Å: Chain B: M.278, I.279, G.282, L.283, V.286, I.290, Q.293 Chain C: L.220, A.223, L.224, L.226, L.227, L.230, R.321, M.322, R.517, L.520, S.524 Ligands: YLI.21 10 PLIP interactions: 6 interactions with chain C, 4 interactions with chain B Hydrophobic interactions: C:A.223, C:L.224, C:L.227, C:L.230, C:L.520, B:L.283, B:V.286, B:V.286 Hydrogen bonds: C:R.517, B:Q.293 POV.23: 17 residues within 4Å: Chain C: Y.128, D.130, R.132, D.265, S.266, V.267, Q.272, A.275, I.279 Chain D: L.208, L.212, I.216, V.219, L.220, D.548, F.549 Ligands: YLI.26 9 PLIP interactions: 6 interactions with chain C, 3 interactions with chain D Hydrophobic interactions: C:V.267, C:V.267, C:V.267, D:L.208, D:I.216, D:F.549 Hydrogen bonds: C:V.267 Salt bridges: C:D.130, C:R.132 POV.27: 19 residues within 4Å: Chain C: M.278, I.279, G.282, L.283, V.286, I.290, Q.293 Chain D: L.220, A.223, L.224, L.226, L.227, L.230, R.321, M.322, R.517, L.520, S.524 Ligands: YLI.26 10 PLIP interactions: 4 interactions with chain C, 6 interactions with chain D Hydrophobic interactions: C:L.283, C:V.286, C:V.286, D:A.223, D:L.224, D:L.227, D:L.230, D:L.520 Hydrogen bonds: C:Q.293, D:R.517 POV.28: 17 residues within 4Å: Chain D: Y.128, D.130, R.132, D.265, S.266, V.267, Q.272, A.275, I.279 Chain E: L.208, L.212, I.216, V.219, L.220, D.548, F.549 Ligands: YLI.31 9 PLIP interactions: 6 interactions with chain D, 3 interactions with chain E Hydrophobic interactions: D:V.267, D:V.267, D:V.267, E:L.208, E:I.216, E:F.549 Hydrogen bonds: D:V.267 Salt bridges: D:D.130, D:R.132 POV.32: 19 residues within 4Å: Chain D: M.278, I.279, G.282, L.283, V.286, I.290, Q.293 Chain E: L.220, A.223, L.224, L.226, L.227, L.230, R.321, M.322, R.517, L.520, S.524 Ligands: YLI.31 10 PLIP interactions: 6 interactions with chain E, 4 interactions with chain D Hydrophobic interactions: E:A.223, E:L.224, E:L.227, E:L.230, E:L.520, D:L.283, D:V.286, D:V.286 Hydrogen bonds: E:R.517, D:Q.293 POV.33: 17 residues within 4Å: Chain A: L.208, L.212, I.216, V.219, L.220, D.548, F.549 Chain E: Y.128, D.130, R.132, D.265, S.266, V.267, Q.272, A.275, I.279 Ligands: YLI.14 9 PLIP interactions: 6 interactions with chain E, 3 interactions with chain A Hydrophobic interactions: E:V.267, E:V.267, E:V.267, A:L.208, A:I.216, A:F.549 Hydrogen bonds: E:V.267 Salt bridges: E:D.130, E:R.132

5 x 9Z9: (3beta,14beta,17beta,25R)-3-[4-methoxy-3-(methoxymethyl)butoxy]spirost-5-en(Non-covalent)

9Z9.12: 10 residues within 4Å: Chain A: W.315, C.316, W.318, F.319, L.320, L.518, M.521, A.522, V.525, F.526 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.315, A:F.319, A:F.319, A:F.319, A:M.521, A:A.522, A:V.525, A:V.525 9Z9.19: 10 residues within 4Å: Chain B: W.315, C.316, W.318, F.319, L.320, L.518, M.521, A.522, V.525, F.526 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:W.315, B:F.319, B:F.319, B:F.319, B:M.521, B:A.522, B:V.525, B:V.525 9Z9.24: 10 residues within 4Å: Chain C: W.315, C.316, W.318, F.319, L.320, L.518, M.521, A.522, V.525, F.526 8 PLIP interactions: 8 interactions with chain C Hydrophobic interactions: C:W.315, C:F.319, C:F.319, C:F.319, C:M.521, C:A.522, C:V.525, C:V.525 9Z9.29: 10 residues within 4Å: Chain D: W.315, C.316, W.318, F.319, L.320, L.518, M.521, A.522, V.525, F.526 8 PLIP interactions: 8 interactions with chain D Hydrophobic interactions: D:W.315, D:F.319, D:F.319, D:F.319, D:M.521, D:A.522, D:V.525, D:V.525 9Z9.34: 10 residues within 4Å: Chain E: W.315, C.316, W.318, F.319, L.320, L.518, M.521, A.522, V.525, F.526 8 PLIP interactions: 8 interactions with chain E Hydrophobic interactions: E:W.315, E:F.319, E:F.319, E:F.319, E:M.521, E:A.522, E:V.525, E:V.525

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

NAG.13: 3 residues within 4Å: Chain A: N.67, S.69, E.70 1 PLIP interactions: 1 interactions with chain A Hydrogen bonds: A:E.70 NAG.20: 3 residues within 4Å: Chain B: N.67, S.69, E.70 1 PLIP interactions: 1 interactions with chain B Hydrogen bonds: B:E.70 NAG.25: 3 residues within 4Å: Chain C: N.67, S.69, E.70 1 PLIP interactions: 1 interactions with chain C Hydrogen bonds: C:E.70 NAG.30: 3 residues within 4Å: Chain D: N.67, S.69, E.70 1 PLIP interactions: 1 interactions with chain D Hydrogen bonds: D:E.70 NAG.35: 3 residues within 4Å: Chain E: N.67, S.69, E.70 1 PLIP interactions: 1 interactions with chain E Hydrogen bonds: E:E.70

5 x YLI: (3aR,4S,9bS)-4-(4-bromophenyl)-3a,4,5,9b-tetrahydro-3H-cyclopenta[c]quinoline-8-sulfonamide(Non-covalent)

YLI.14: 18 residues within 4Å: Chain A: L.212, N.213, I.216, P.217, L.220, I.221, L.224 Chain E: L.246, M.253, M.260, A.271, F.274, A.275, M.278, I.279, G.282 Ligands: POV.15, POV.33 8 PLIP interactions: 3 interactions with chain E, 5 interactions with chain A Hydrophobic interactions: E:A.275, E:M.278, E:I.279, A:I.216, A:P.217, A:L.220, A:L.220, A:I.221 YLI.16: 18 residues within 4Å: Chain A: L.246, M.253, M.260, A.271, F.274, A.275, M.278, I.279, G.282 Chain B: L.212, N.213, I.216, P.217, L.220, I.221, L.224 Ligands: POV.11, POV.17 8 PLIP interactions: 3 interactions with chain A, 5 interactions with chain B Hydrophobic interactions: A:A.275, A:M.278, A:I.279, B:I.216, B:P.217, B:L.220, B:L.220, B:I.221 YLI.21: 18 residues within 4Å: Chain B: L.246, M.253, M.260, A.271, F.274, A.275, M.278, I.279, G.282 Chain C: L.212, N.213, I.216, P.217, L.220, I.221, L.224 Ligands: POV.18, POV.22 8 PLIP interactions: 5 interactions with chain C, 3 interactions with chain B Hydrophobic interactions: C:I.216, C:P.217, C:L.220, C:L.220, C:I.221, B:A.275, B:M.278, B:I.279 YLI.26: 18 residues within 4Å: Chain C: L.246, M.253, M.260, A.271, F.274, A.275, M.278, I.279, G.282 Chain D: L.212, N.213, I.216, P.217, L.220, I.221, L.224 Ligands: POV.23, POV.27 8 PLIP interactions: 3 interactions with chain C, 5 interactions with chain D Hydrophobic interactions: C:A.275, C:M.278, C:I.279, D:I.216, D:P.217, D:L.220, D:L.220, D:I.221 YLI.31: 18 residues within 4Å: Chain D: L.246, M.253, M.260, A.271, F.274, A.275, M.278, I.279, G.282 Chain E: L.212, N.213, I.216, P.217, L.220, I.221, L.224 Ligands: POV.28, POV.32 8 PLIP interactions: 3 interactions with chain D, 5 interactions with chain E Hydrophobic interactions: D:A.275, D:M.278, D:I.279, E:I.216, E:P.217, E:L.220, E:L.220, E:I.221

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Burke, S.M. et al., Structural mechanisms of alpha 7 nicotinic receptor allosteric modulation and activation. Cell (2024)

Release Date

2024-02-21

Peptides

Neuronal acetylcholine receptor subunit alpha-7,Soluble cytochrome b562: ABCDE

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

C
C

D
D

E
E

Membrane

We predict this structure to be a membrane protein.
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Neuronal acetylcholine receptor subunit alpha-7,Soluble cytochrome b562

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