› 7yu6

Electron Microscopy
3.9Å resolution

Human Lysophosphatidic Acid Receptor 1-Gi complex bound to ONO-0740556, state2

Released:
DOI: 10.2210/pdb7yu6/pdb
PDB entry 7yu6 coloured by chain, front view.
PDB entry 7yu6 coloured by chain, side view.
PDB entry 7yu6 coloured by chain, top view.
Source organisms:
Primary publication:
Structure of the active Gi-coupled human lysophosphatidic acid receptor 1 complexed with a potent agonist.
Akasaka H, Tanaka T, Sano FK, Matsuzaki Y, Shihoya W, Nureki O
OpenAccess logo Nat Commun 13 5417 (2022)
PMID: 36109516
Related structures: EMD-34100

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-547335 (preferred)
Entry contents:
5 distinct polypeptide molecules
Macromolecules (5 distinct):
Guanine nucleotide-binding protein G(I)/G(S)/G(T) subunit beta-1 Chain: B
Molecule details ›
Chain: B
Length: 351 amino acids
Theoretical weight: 38.74 KDa
Source organism: Rattus norvegicus
Expression system: Baculovirus expression vector pFastBac1-HM
UniProt:
  • Canonical: P54311 (Residues: 2-340; Coverage: 100%)
Gene name: Gnb1
Sequence domains: WD domain, G-beta repeat
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: Baculovirus expression vector pFastBac1-HM
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(O) subunit gamma-2 Chain: G
Molecule details ›
Chain: G
Length: 68 amino acids
Theoretical weight: 7.55 KDa
Source organism: Bos taurus
Expression system: Baculovirus expression vector pFastBac1-HM
UniProt:
  • Canonical: P63212 (Residues: 1-67; Coverage: 94%)
Gene name: GNG2
Sequence domains: GGL domain
Lysophosphatidic acid receptor 1 Chain: R
Molecule details ›
Chain: R
Length: 379 amino acids
Theoretical weight: 42.94 KDa
Source organism: Homo sapiens
Expression system: Baculovirus expression vector pFastBac1-HM
UniProt:
  • Canonical: Q92633 (Residues: 2-364; Coverage: 100%)
Gene names: EDG2, LPA1, LPAR1
Sequence domains: 7 transmembrane receptor (rhodopsin family)
scFv16 Chain: S
Molecule details ›
Chain: S
Length: 260 amino acids
Theoretical weight: 27.72 KDa
Source organism: Mus musculus
Expression system: Baculovirus expression vector pFastBac1-HM

Ligands and Environments

1 bound ligand:
Ligand K6L 1 x K6L
No modified residues

Experiments and Validation Details

Entry percentile scores
Resolution: 3.9Å
Relevant EMDB volumes: EMD-34100
Expression system: Baculovirus expression vector pFastBac1-HM

Quick links

Citations

1 review citation

Detecting and measuring of GPCR signaling - comparison of human induced pluripotent stem cells and immortal cell lines.
Chen et al. (2023)
11 other articles

1 mention without citation

Structure of the active Gi-coupled human lysophosphatidic acid receptor 1 complexed with a potent agonist.
Akasaka et al. (2022)