SMTL ID : 7jvp.1

Cryo-EM structure of SKF-83959-bound dopamine receptor 1 in complex with Gs protein

Coordinates

PDB Format

Method

ELECTRON MICROSCOPY

Oligo State

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

Ligands

1 x SK9: (1R)-6-chloro-3-methyl-1-(3-methylphenyl)-2,3,4,5-tetrahydro-1H-3-benzazepine-7,8-diol(Non-covalent)

SK9.1: 16 residues within 4Å: Chain A: V.148, D.151, I.152, S.155, T.156, S.236, L.238, S.246, S.247, S.250, F.336, F.337, N.340, F.361, V.365, W.369 12 PLIP interactions: 12 interactions with chain A Hydrophobic interactions: A:V.148, A:I.152, A:I.152, A:L.238, A:L.238, A:F.361 Hydrogen bonds: A:S.246, A:S.246, A:S.246, A:S.250, A:N.340 Salt bridges: A:D.151

6 x CLR: CHOLESTEROL(Non-covalent)

CLR.2: 3 residues within 4Å: Chain A: C.331, I.338, I.356 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.338, A:I.356 CLR.3: 4 residues within 4Å: Chain A: V.248, Y.252, C.341, F.345 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:V.248, A:Y.252, A:Y.252, A:F.345 CLR.4: 6 residues within 4Å: Chain A: L.319, K.320, S.323, V.324, V.328, C.331 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.319, A:K.320, A:V.324, A:V.328 CLR.5: 6 residues within 4Å: Chain A: L.124, S.142, F.143, I.146 Ligands: CLR.6, PLM.11 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:L.124, A:F.143, A:F.143, A:I.146 Hydrogen bonds: A:S.142 CLR.6: 6 residues within 4Å: Chain A: I.146, V.200, F.204, Q.208 Ligands: CLR.5, CLR.7 5 PLIP interactions: 5 interactions with chain A Hydrophobic interactions: A:I.146, A:V.200, A:V.200, A:F.204, A:F.204 CLR.7: 9 residues within 4Å: Chain A: R.103, F.109, I.112, V.116, L.120, F.189, I.192, W.196 Ligands: CLR.6 9 PLIP interactions: 9 interactions with chain A Hydrophobic interactions: A:R.103, A:F.109, A:I.112, A:V.116, A:L.120, A:F.189, A:I.192, A:W.196, A:W.196

5 x PLM: PALMITIC ACID(Non-covalent)

PLM.8: 2 residues within 4Å: Chain A: I.202, W.211 2 PLIP interactions: 2 interactions with chain A Hydrophobic interactions: A:I.202, A:W.211 PLM.9: 4 residues within 4Å: Chain A: R.240, T.241, I.244, I.249 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:I.249 Hydrogen bonds: A:T.241, A:T.241 Salt bridges: A:R.240 PLM.10: 5 residues within 4Å: Chain A: S.84, L.374, I.377, S.390, L.393 3 PLIP interactions: 3 interactions with chain A Hydrophobic interactions: A:L.374, A:L.393 Hydrogen bonds: A:S.390 PLM.11: 7 residues within 4Å: Chain A: V.123, L.124, W.128, F.140, S.142, F.143 Ligands: CLR.5 7 PLIP interactions: 7 interactions with chain A Hydrophobic interactions: A:V.123, A:L.124, A:W.128, A:F.140, A:F.143, A:F.143 Hydrogen bonds: A:S.142 PLM.12: 4 residues within 4Å: Chain A: L.81, E.133, N.359, W.366 4 PLIP interactions: 4 interactions with chain A Hydrophobic interactions: A:L.81, A:W.366 Hydrogen bonds: A:N.359, A:N.359

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Zhuang, Y. et al., Structural insights into the human D1 and D2 dopamine receptor signaling complexes. Cell (2021)

Release Date

2021-02-24

Peptides

D(1A) dopamine receptor: A
Guanine nucleotide-binding protein G(s) subunit alpha isoforms short: 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
nanobody 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

Guanine nucleotide-binding protein G(s) subunit alpha isoforms short

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

nanobody 35

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