› 6lfm

Electron Microscopy
3.5Å resolution

Cryo-EM structure of a class A GPCR

Released:
DOI: 10.2210/pdb6lfm/pdb
PDB entry 6lfm coloured by chain, front view.
PDB entry 6lfm coloured by chain, side view.
PDB entry 6lfm coloured by chain, top view.
Source organism: Homo sapiens
Primary publication:
Structural basis of CXC chemokine receptor 2 activation and signalling.
Liu K, Wu L, Yuan S, Wu M, Xu Y, Sun Q, Li S, Zhao S, Hua T, Liu ZJ
Nature 585 135-140 (2020)
PMID: 32610344
Related structures: EMD-0877

Function and Biology Details

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

Structure analysis Details

Assembly composition:
hetero heptamer (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-210460 (preferred)
Entry contents:
6 distinct polypeptide molecules
Macromolecules (6 distinct):
Guanine nucleotide-binding protein G(i) subunit alpha-1 Chain: A
Molecule details ›
Chain: A
Length: 353 amino acids
Theoretical weight: 40.28 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P63096 (Residues: 2-354; 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: 346 amino acids
Theoretical weight: 38.05 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
Interleukin-8 Chains: D, E
Molecule details ›
Chains: D, E
Length: 72 amino acids
Theoretical weight: 8.4 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P10145 (Residues: 28-99; Coverage: 91%)
Gene names: CXCL8, IL8
Sequence domains: Small cytokines (intecrine/chemokine), interleukin-8 like
C-X-C chemokine receptor type 2 Chain: R
Molecule details ›
Chain: R
Length: 360 amino acids
Theoretical weight: 40.8 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda
UniProt:
  • Canonical: P25025 (Residues: 1-360; Coverage: 100%)
Gene names: CXCR2, IL8RB
Sequence domains: 7 transmembrane receptor (rhodopsin family)
scFv16 Chain: S
Molecule details ›
Chain: S
Length: 259 amino acids
Theoretical weight: 27.78 KDa
Source organism: Homo sapiens
Expression system: Spodoptera frugiperda

Ligands and Environments

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

Experiments and Validation Details

Entry percentile scores
Resolution: 3.5Å
Relevant EMDB volumes: EMD-0877
Expression system: Spodoptera frugiperda

Quick links

Citations

25 review citations

CXCL8 in Tumor Biology and Its Implications for Clinical Translation.
Xiong et al. (2022)
24 more

18 mentions without citation

G protein-coupled receptors: structure- and function-based drug discovery.
Yang et al. (2021)
17 more