› 7ew2

Electron Microscopy
3.1Å resolution

Cryo-EM structure of pFTY720-bound Sphingosine 1-phosphate receptor 3 in complex with Gi protein

Released:
DOI: 10.2210/pdb7ew2/pdb
PDB entry 7ew2 coloured by chain, front view.
PDB entry 7ew2 coloured by chain, side view.
PDB entry 7ew2 coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural insights into sphingosine-1-phosphate recognition and ligand selectivity of S1PR3-Gi signaling complexes.
Zhao C, Cheng L, Wang W, Wang H, Luo Y, Feng Y, Wang X, Fu H, Cai Y, Yang S, Fu P, Yan W, Shao Z
Cell Res 32 218-221 (2022)
PMID: 34545189
Related structures: EMD-31345

Function and Biology Details

Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
hetero pentamer (preferred)
PDBe Complex ID:
PDB-CPX-211378 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Guanine nucleotide-binding protein G(i) subunit alpha-1 Chain: A
Molecule details ›
Chain: A
Length: 354 amino acids
Theoretical weight: 40.42 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P63096 (Residues: 1-354; Coverage: 100%)
Gene name: GNAI1
Sequence domains: G-protein alpha subunit
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 Chain: B
Molecule details ›
Chain: B
Length: 356 amino acids
Theoretical weight: 39.14 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P62873 (Residues: 2-340; Coverage: 100%)
Gene name: GNB1
Sequence domains: WD domain, G-beta repeat
Guanine nucleotide-binding protein G(I)/G(S)/G(O) subunit gamma-2 Chain: C
Molecule details ›
Chain: C
Length: 71 amino acids
Theoretical weight: 7.86 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P59768 (Residues: 1-71; Coverage: 100%)
Gene name: GNG2
Sequence domains: GGL domain
scFV16 Chain: S
Molecule details ›
Chain: S
Length: 266 amino acids
Theoretical weight: 28.64 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
Sphingosine 1-phosphate receptor 3 Chain: R
Molecule details ›
Chain: R
Length: 412 amino acids
Theoretical weight: 46.44 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: Q99500 (Residues: 1-378; Coverage: 100%)
Gene names: C9orf108, C9orf47, EDG3, S1PR3
Sequence domains: 7 transmembrane receptor (rhodopsin family)

Ligands and Environments

1 bound ligand:
Ligand J89 1 x J89
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.1Å
Relevant EMDB volumes: EMD-31345
Expression system: Spodoptera frugiperda

Quick links

Citations

18 citation in other articles

Differential activation mechanisms of lipid GPCRs by lysophosphatidic acid and sphingosine 1-phosphate.
Liu et al. (2022)
17 more

4 mentions without citation

G protein-coupled receptors in neurodegenerative diseases and psychiatric disorders.
Wong et al. (2023)
3 more