SMTL ID : 7ljc.1

Allosteric modulator LY3154207 binding to SKF-81297-bound dopamine receptor 1 in complex with miniGs protein

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

hetero-1-1-1-1-1-mer

Ligands

1 x SK0: (1R)-6-chloro-1-phenyl-2,3,4,5-tetrahydro-1H-3-benzazepine-7,8-diol(Non-covalent)

SK0.1: 13 residues within 4Å: Chain A: V.148, D.151, I.152, S.155, T.156, S.236, L.238, S.246, S.250, F.336, F.337, N.340, F.361 11 PLIP interactions: 11 interactions with chain A Hydrophobic interactions: A:V.148, A:I.152, A:L.238, A:L.238, A:F.361 Hydrogen bonds: A:S.246, A:S.246, A:N.340, A:W.369 pi-Stacking: A:F.336 Halogen bonds: A:S.250

1 x G4C: 2-[2,6-bis(chloranyl)phenyl]-1-[(1S,3R)-3-(hydroxymethyl)-1-methyl-5-(3-methyl-3-oxidanyl-butyl)-3,4-dihydro-1H-isoquinolin-2-yl]ethanone(Non-covalent)

G4C.2: 8 residues within 4Å: Chain A: W.171, S.175, R.178, Y.179, K.182, M.183, K.186, I.190 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:W.171, A:W.171, A:W.171, A:R.178, A:I.190 Hydrogen bonds: A:R.178, A:K.186 pi-Stacking: A:W.171

6 x CLR: CHOLESTEROL(Non-covalent)(Non-functional Binders)

CLR.3: 6 residues within 4Å: Chain A: T.241, I.244, I.249, F.345 Ligands: CLR.4, PLM.10 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.244, A:I.249, A:F.345 CLR.4: 1 residues within 4Å: Ligands: CLR.3 No protein-ligand interaction detected (PLIP) CLR.5: 8 residues within 4Å: Chain A: F.312, T.316, L.319, K.320, S.323, G.327, C.331 Ligands: PLM.13 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:L.319 CLR.6: 3 residues within 4Å: Chain A: I.146, F.204, Q.208 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.204 CLR.7: 4 residues within 4Å: Chain A: Y.252, I.338, C.341, F.345 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.338, A:F.345, A:F.345 CLR.8: 3 residues within 4Å: Chain A: A.256, I.259, T.263 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:A.256, A:I.259, A:T.263

6 x PLM: PALMITIC ACID(Non-covalent)

PLM.9: 5 residues within 4Å: Chain A: S.79, I.82, V.131, I.134 Ligands: PLM.12 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:I.82, A:I.82, A:V.131 PLM.10: 3 residues within 4Å: Chain A: W.211, S.245 Ligands: CLR.3 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:W.211, A:W.211 PLM.11: 4 residues within 4Å: Chain A: T.74, N.359, V.363, W.366 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:T.74, A:V.363, A:W.366 Hydrogen bonds: A:N.359 PLM.12: 2 residues within 4Å: Chain A: F.137 Ligands: PLM.9 1 PLIP interactions: 1 interactions with chain A Hydrophobic interactions: A:F.137 PLM.13: 5 residues within 4Å: Chain A: V.328, F.367, L.374, R.386 Ligands: CLR.5 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:V.328, A:F.367 Salt bridges: A:R.386 PLM.14: 6 residues within 4Å: Chain A: R.103, F.109, I.112, V.116, F.189, W.196 8 PLIP interactions: 8 interactions with chain A Hydrophobic interactions: A:R.103, A:F.109, A:F.109, A:I.112, A:V.116, A:F.189, A:W.196 Salt bridges: A:R.103

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhuang, Y. et al., Mechanism of dopamine binding and allosteric modulation of the human D1 dopamine receptor. Cell Res. (2021)

Release Date

2021-03-03

Peptides

D(1A) dopamine receptor: A
Engineered human Gs alpha subunit: B
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1: C
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2: D
Nanoboy 35: E

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
R

B
A

C
B

D
G

E
N

Membrane

We predict this structure to be a membrane protein.
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D(1A) dopamine receptor

Engineered human Gs alpha subunit

Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1

Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2

Nanoboy 35

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