› 5w0p

X-ray diffraction
3.01Å resolution

Crystal structure of rhodopsin bound to visual arrestin determined by X-ray free electron laser

Released:
DOI: 10.2210/pdb5w0p/pdb
PDB entry 5w0p coloured by chain, front view.
PDB entry 5w0p coloured by chain, side view.
PDB entry 5w0p coloured by chain, top view.
Source organisms:
Primary publication:
Identification of Phosphorylation Codes for Arrestin Recruitment by G Protein-Coupled Receptors.
Zhou XE, He Y, de Waal PW, Gao X, Kang Y, Van Eps N, Yin Y, Pal K, Goswami D, White TA, Barty A, Latorraca NR, Chapman HN, Hubbell WL, Dror RO, Stevens RC, Cherezov V, Gurevich VV, Griffin PR, Ernst OP, Melcher K, Xu HE
Cell 170 457-469.e13 (2017)
PMID: 28753425

Function and Biology Details

Reaction catalysed: 
Hydrolysis of (1->4)-beta-linkages between N-acetylmuramic acid and N-acetyl-D-glucosamine residues in a peptidoglycan and between N-acetyl-D-glucosamine residues in chitodextrins
Biochemical function:
Biological process:
Cellular component:
Sequence domains:

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-132952 (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (3 distinct):
Endolysin; Rhodopsin; S-arrestin Chains: A, B
Molecule details ›
Chains: A, B
Length: 906 amino acids
Theoretical weight: 101.02 KDa
Source organisms: Expression system: Homo sapiens
UniProt:
  • Canonical: P00720 (Residues: 2-161; Coverage: 98%)
  • Canonical: P08100 (Residues: 1-348; Coverage: 100%)
  • Canonical: P20443 (Residues: 10-392; Coverage: 95%)
Gene names: E, OPN2, RHO, Sag
Sequence domains:
Endolysin; Rhodopsin; S-arrestin Chains: C, D
Molecule details ›
Chains: C, D
Length: 906 amino acids
Theoretical weight: 100.94 KDa
Source organisms: Expression system: Homo sapiens
UniProt:
  • Canonical: P00720 (Residues: 2-161; Coverage: 98%)
  • Canonical: P08100 (Residues: 1-348; Coverage: 100%)
  • Canonical: P20443 (Residues: 10-392; Coverage: 95%)
Gene names: E, OPN2, RHO, Sag
Sequence domains:

Ligands and Environments

Carbohydrate polymer : NEW Components: NAG
Carbohydrate polymer
No bound ligands
2 modified residues:
Ligand TPO 2 x TPO
Ligand SEP 4 x SEP

Experiments and Validation Details

Entry percentile scores
X-ray source: SLAC LCLS BEAMLINE CXI
Spacegroup: P212121
Unit cell:
a: 109.24Å b: 109.24Å c: 452.64Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.237 0.234 0.272
Expression system: Homo sapiens

Quick links

Citations

57 review citations

The Molecular Basis of G Protein-Coupled Receptor Activation.
Weis et al. (2018)
56 more

53 mentions without citation

Structure and dynamics of GPCR signaling complexes.
Hilger et al. (2018)
52 more