› 3qdc

X-ray diffraction
2.5Å resolution

Crystal structure of Natronomonas pharaonis sensory rhodopsin II in the active state

Released:
DOI: 10.2210/pdb3qdc/pdb
PDB entry 3qdc coloured by chain, front view.
PDB entry 3qdc coloured by chain, side view.
PDB entry 3qdc coloured by chain, top view.
Source organism: Natronomonas pharaonis
Primary publication:
Active state of sensory rhodopsin II: structural determinants for signal transfer and proton pumping.
Gushchin I, Reshetnyak A, Borshchevskiy V, Ishchenko A, Round E, Grudinin S, Engelhard M, Büldt G, Gordeliy V
J Mol Biol 412 591-600 (2011)
PMID: 21840321

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-154502 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Sensory rhodopsin-2 Chain: A
Molecule details ›
Chain: A
Length: 239 amino acids
Theoretical weight: 25.37 KDa
Source organism: Natronomonas pharaonis
Expression system: Escherichia coli
UniProt:
  • Canonical: P42196 (Residues: 1-239; Coverage: 100%)
Gene names: sop2, sopII
Sequence domains: Bacteriorhodopsin-like protein
Structure domains: Rhodopsin 7-helix transmembrane proteins

Ligands and Environments

4 bound ligands:
Ligand RET 1 x RET
Ligand BOG 1 x BOG
Ligand LFA 29 x LFA
Ligand L2P 2 x L2P
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: ESRF BEAMLINE ID14-1
Spacegroup: C2221
Unit cell:
a: 86.44Å b: 131.09Å c: 51.23Å
α: 90° β: 90° γ: 90°
R-values:
R R work R free
0.245 0.245 0.272
Expression system: Escherichia coli

Quick links

Citations

2 review citations

Transmembrane Signal Transduction in Two-Component Systems: Piston, Scissoring, or Helical Rotation?
Gushchin et al. (2018)
1 more

3 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)
2 more