SMTL ID : 7she.1

Cryo-EM structure of human GPR158

Coordinates

PDB Format Compare

Method

ELECTRON MICROSCOPY

Oligo State

homo-dimer

Ligands

1 x PEE: 1,2-dioleoyl-sn-glycero-3-phosphoethanolamine(Non-covalent)

PEE.1: 23 residues within 4Å: Chain A: L.489, F.492, R.525, M.529, V.532, I.533, L.535, V.536, W.539, A.585, E.586 Chain B: L.489, H.504, K.508, M.529, V.536, V.537, F.540, A.585, L.588, F.589 Ligands: EIJ.2, CLR.3 20 PLIP interactions: 10 interactions with chain A, 10 interactions with chain B Hydrophobic interactions: A:L.489, A:F.492, A:V.532, A:I.533, A:L.535, A:W.539, A:W.539, A:A.585, A:E.586, B:L.489, B:V.536, B:V.537, B:F.540, B:A.585, B:L.588, B:F.589 Salt bridges: A:R.525, B:H.504 Hydrogen bonds: B:K.508, B:K.508

1 x EIJ: (2S)-1-{[(S)-hydroxy{[(1s,2R,3R,4R,5S,6S)-2,3,4,5,6-pentahydroxycyclohexyl]oxy}phosphoryl]oxy}-3-(octadecanoyloxy)propan-2-yl (5E,8E,11E,14E)-icosa-5,8,11,14-tetraenoate(Non-covalent)

EIJ.2: 21 residues within 4Å: Chain A: L.489, H.504, K.508, M.529, V.536, F.540, T.582, F.589, W.592 Chain B: L.489, F.492, R.528, M.529, V.532, I.533, L.535, V.536, W.539, A.585 Ligands: PEE.1, CLR.8 17 PLIP interactions: 8 interactions with chain A, 9 interactions with chain B Hydrophobic interactions: A:L.489, A:V.536, A:F.540, A:T.582, A:F.589, B:L.489, B:F.492, B:V.532, B:I.533, B:L.535, B:V.536, B:W.539, B:W.539 Hydrogen bonds: A:H.504, B:R.528 Salt bridges: A:H.504, A:K.508

22 x CLR: CHOLESTEROL(Non-covalent)(Covalent)

CLR.3: 6 residues within 4Å: Chain A: R.528, A.531, F.538 Ligands: PEE.1, CLR.4, CLR.14 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:R.528, A:A.531, A:F.538 CLR.4: 5 residues within 4Å: Chain A: G.524, R.528 Ligands: CLR.3, CLR.5, CLR.7 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:R.528 Hydrogen bonds: A:R.528 CLR.5: 6 residues within 4Å: Chain A: I.453, E.456, T.457, F.460, M.527 Ligands: CLR.4 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.453, A:I.453, A:E.456, A:F.460, A:F.460 CLR.6: 5 residues within 4Å: Chain A: T.545, C.549 Chain B: R.577 Ligands: CLR.7, CLR.19 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:T.545 CLR.7: 7 residues within 4Å: Chain A: F.479, I.482, L.483, W.486, F.538 Ligands: CLR.4, CLR.6 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:F.479, A:F.479, A:I.482, A:L.483, A:W.486, A:F.538 CLR.8: 6 residues within 4Å: Chain A: L.588, W.592, Y.595 Ligands: EIJ.2, CLR.10, CLR.20 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.588, A:Y.595 Hydrogen bonds: A:W.592 CLR.9: 6 residues within 4Å: Chain A: Y.580, V.584, A.625, T.629, F.632, V.633 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:Y.580, A:V.584, A:A.625, A:F.632, A:V.633 CLR.10: 8 residues within 4Å: Chain A: R.577, Y.580, M.581, L.588 Chain B: F.538, I.542 Ligands: CLR.8, CLR.23 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:Y.580, A:L.588, B:F.538 CLR.11: 5 residues within 4Å: Chain A: R.601, R.611, V.615, H.618 Ligands: CLR.12 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:V.615, A:H.618 CLR.12: 7 residues within 4Å: Chain A: R.611, V.615, L.653, V.657, L.661 Ligands: CLR.11, CLR.13 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:V.615, A:L.653, A:V.657, A:L.661 Hydrogen bonds: A:R.611 CLR.13: 8 residues within 4Å: Chain A: H.652, L.653, V.657, G.660, L.661, I.664, P.665 Ligands: CLR.12 6 PLIP interactions: 6 interactions with chain A Hydrophobic interactions: A:L.653, A:V.657, A:L.661, A:I.664, A:I.664, A:P.665 CLR.14: 6 residues within 4Å: Chain B: L.588, L.591, W.592, Y.595 Ligands: CLR.3, CLR.19 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:L.588, B:L.591, B:W.592, B:Y.595, B:Y.595 Hydrogen bonds: B:Y.595 CLR.15: 7 residues within 4Å: Chain B: R.601, V.615, H.618, N.619, I.622, I.623 Ligands: CLR.16 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:V.615, B:H.618, B:I.622, B:I.622, B:I.623 Hydrogen bonds: B:R.601 CLR.16: 6 residues within 4Å: Chain B: R.611, V.615, N.619, L.653 Ligands: CLR.15, CLR.17 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:V.615, B:N.619, B:L.653 CLR.17: 7 residues within 4Å: Chain B: H.652, V.657, G.660, L.661, I.664, H.669 Ligands: CLR.16 5 PLIP interactions: 5 interactions with chain B Hydrophobic interactions: B:H.652, B:V.657, B:L.661, B:I.664, B:I.664 CLR.18: 6 residues within 4Å: Chain B: Y.580, A.583, F.587, A.625, F.632, V.633 6 PLIP interactions: 6 interactions with chain B Hydrophobic interactions: B:Y.580, B:Y.580, B:F.587, B:A.625, B:F.632, B:V.633 CLR.19: 6 residues within 4Å: Chain A: W.539, I.542 Chain B: R.577, M.581 Ligands: CLR.6, CLR.14 3 PLIP interactions: 2 interactions with chain A, 1 interactions with chain B Hydrophobic interactions: A:W.539, A:I.542 Hydrogen bonds: B:R.577 CLR.20: 5 residues within 4Å: Chain B: R.528, A.531, F.538 Ligands: CLR.8, CLR.21 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:A.531, B:F.538 CLR.21: 5 residues within 4Å: Chain B: I.453, G.524, M.527, A.531 Ligands: CLR.20 1 PLIP interactions: 1 interactions with chain B Hydrophobic interactions: B:A.531 CLR.22: 5 residues within 4Å: Chain B: I.453, E.456, T.457, F.460, L.464 2 PLIP interactions: 2 interactions with chain B Hydrophobic interactions: B:E.456, B:L.464 CLR.23: 5 residues within 4Å: Chain B: W.486, I.542, S.546, C.549 Ligands: CLR.10 3 PLIP interactions: 3 interactions with chain B Hydrophobic interactions: B:W.486, B:W.486, B:I.542 CLR.24: 5 residues within 4Å: Chain B: F.479, I.482, L.483, W.486, T.545 8 PLIP interactions: 8 interactions with chain B Hydrophobic interactions: B:F.479, B:F.479, B:I.482, B:L.483, B:W.486, B:W.486, B:W.486, B:T.545

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Patil, D.N. et al., Cryo-EM structure of human GPR158 receptor coupled to the RGS7-G beta 5 signaling complex. Science (2022)

Release Date

2021-12-01

Peptides

G-protein coupled receptor 158: 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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G-protein coupled receptor 158

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