› 4hyj

X-ray diffraction
2.3Å resolution

Crystal structure of Exiguobacterium sibiricum rhodopsin

Released:
DOI: 10.2210/pdb4hyj/pdb
PDB entry 4hyj coloured by chain, front view.
PDB entry 4hyj coloured by chain, side view.
PDB entry 4hyj coloured by chain, top view.
Source organism: Exiguobacterium sibiricum
Primary publication:
Structural insights into the proton pumping by unusual proteorhodopsin from nonmarine bacteria.
Gushchin I, Chervakov P, Kuzmichev P, Popov AN, Round E, Borshchevskiy V, Ishchenko A, Petrovskaya L, Chupin V, Dolgikh DA, Arseniev AS, Kirpichnikov M, Gordeliy V
Proc Natl Acad Sci U S A 110 12631-6 (2013)
PMID: 23872846

Function and Biology Details

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

Structure analysis Details

Assembly composition:
monomeric (preferred)
Assembly name:
PDBe Complex ID:
PDB-CPX-109440 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Rhodopsin Chains: A, B
Molecule details ›
Chains: A, B
Length: 258 amino acids
Theoretical weight: 28.63 KDa
Source organism: Exiguobacterium sibiricum
Expression system: Escherichia coli
UniProt:
  • Canonical: B1YFV8 (Residues: 1-252; Coverage: 100%)
Gene name: Exig_1419
Sequence domains: Bacteriorhodopsin-like protein
Structure domains: Rhodopsin 7-helix transmembrane proteins

Ligands and Environments

2 bound ligands:
Ligand RET 2 x RET
Ligand LFA 30 x LFA
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID23-1
Spacegroup: P321
Unit cell:
a: 96.099Å b: 96.099Å c: 124.38Å
α: 90° β: 90° γ: 120°
R-values:
R R work R free
0.178 0.175 0.215
Expression system: Escherichia coli

Quick links

Citations

6 review citations

Marine Bacterial and Archaeal Ion-Pumping Rhodopsins: Genetic Diversity, Physiology, and Ecology.
Pinhassi et al. (2016)
5 more

14 mentions without citation

A comprehensive review of the lipid cubic phase or in meso method for crystallizing membrane and soluble proteins and complexes.
Caffrey M. (2015)
13 more