SMTL ID : 8yjp.1

Cryo-EM structure of human apo GPR156

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

4 x MW9: (21R,24R,27S)-24,27,28-trihydroxy-18,24-dioxo-19,23,25-trioxa-24lambda~5~-phosphaoctacosan-21-yl (9Z)-octadec-9-enoate(Non-covalent)

MW9.1: 20 residues within 4Å: Chain A: S.46, L.49, I.52, F.56, L.266, A.270, L.273, S.283, W.284, P.285, N.286, L.287, L.291, S.293, G.294, G.295, F.297, V.298, C.299 Ligands: CLR.4 14 PLIP interactions: 14 interactions with chain A Hydrophobic interactions: A:L.49, A:L.49, A:I.52, A:F.56, A:F.56, A:F.56, A:L.266, A:A.270, A:L.273, A:F.297, A:F.297 Hydrogen bonds: A:N.286, A:N.286, A:L.287 MW9.2: 23 residues within 4Å: Chain A: T.98, L.124, L.127, C.128, G.130, T.131, V.134, W.183, F.215, A.217, S.218, S.221, I.225, I.228, W.229, K.232, L.267, A.271, L.274, T.278, R.279, C.299 Ligands: CLR.5 21 PLIP interactions: 21 interactions with chain A Hydrophobic interactions: A:T.98, A:L.124, A:L.124, A:L.127, A:L.127, A:T.131, A:V.134, A:V.134, A:I.228, A:I.228, A:W.229, A:K.232, A:L.267, A:L.267, A:A.271, A:L.274, A:T.278 Hydrogen bonds: A:S.218, A:S.218, A:S.221 Salt bridges: A:R.279 MW9.10: 14 residues within 4Å: Chain B: S.46, L.49, I.52, F.56, S.283, W.284, P.285, N.286, L.287, G.290, S.293, G.294, F.297 Ligands: CLR.13 12 PLIP interactions: 12 interactions with chain B Hydrophobic interactions: B:L.49, B:I.52, B:F.56, B:F.56, B:F.56, B:L.287, B:F.297 Hydrogen bonds: B:S.46, B:W.284, B:N.286, B:N.286, B:L.287 MW9.11: 26 residues within 4Å: Chain B: T.98, I.120, L.124, L.127, C.128, T.131, V.134, F.135, W.183, I.189, F.215, A.217, S.218, S.221, I.225, I.228, W.229, K.232, L.267, V.268, A.271, L.274, T.278, R.279, C.299, T.300 18 PLIP interactions: 18 interactions with chain B Hydrophobic interactions: B:T.98, B:L.124, B:V.134, B:F.135, B:W.183, B:I.225, B:I.228, B:W.229, B:W.229, B:K.232, B:L.267, B:L.267, B:L.274, B:T.278 Hydrogen bonds: B:S.218, B:S.221, B:S.221 Salt bridges: B:R.279

9 x CLR: CHOLESTEROL(Non-covalent)

CLR.3: 4 residues within 4Å: Chain A: L.273, L.281, W.284, L.287 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.273, A:L.273, A:L.281, A:L.287 CLR.4: 6 residues within 4Å: Chain A: F.297, V.298, T.301, C.305, F.306 Ligands: MW9.1 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:F.297, A:V.298, A:T.301, A:F.306 CLR.5: 15 residues within 4Å: Chain A: D.222, I.225, A.226, W.229, G.233, L.236, L.237, V.268, F.275 Chain B: W.229, G.230, G.233, L.237, F.275 Ligands: MW9.2 9 PLIP interactions: 3 interactions with chain B, 6 interactions with chain A Hydrophobic interactions: B:W.229, B:L.237, B:F.275, A:W.229, A:L.236, A:L.237, A:V.268, A:F.275, A:F.275 CLR.6: 5 residues within 4Å: Chain A: T.186, Y.220, V.223, L.227 Ligands: CLR.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:T.186, A:Y.220, A:V.223, A:L.227, A:L.227 CLR.7: 2 residues within 4Å: Chain A: Y.241 Ligands: CLR.6 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:Y.241 Hydrogen bonds: A:Y.241, A:Y.241 CLR.8: 4 residues within 4Å: Chain B: T.186, V.223, W.224 Ligands: CLR.9 4 PLIP interactions: 4 interactions with chain B Hydrophobic interactions: B:T.186, B:V.223, B:W.224, B:W.224 CLR.9: 4 residues within 4Å: Chain A: L.258, V.262 Chain B: Y.241 Ligands: CLR.8 3 PLIP interactions: 1 interactions with chain B, 2 interactions with chain A Hydrogen bonds: B:Y.241 Hydrophobic interactions: A:L.258, A:V.262 CLR.12: 3 residues within 4Å: Chain B: L.273, V.277, L.281 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:L.273, B:V.277, B:L.281 CLR.13: 4 residues within 4Å: Chain B: F.56, F.297, F.306 Ligands: MW9.10 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:F.56, B:F.297, B:F.306

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Ma, X. et al., Molecular insights into the activation mechanism of GPR156 in maintaining auditory function. Nat Commun (2024)

Release Date

2025-02-05

Peptides

Probable G-protein coupled receptor 156: AB

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

B
B

Membrane

We predict this structure to be a membrane protein.
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Probable G-protein coupled receptor 156