› 3ddl

X-ray diffraction
1.9Å resolution

Crystallographic Structure of Xanthorhodopsin, a Light-Driven Ion Pump with Dual Chromophore

Released:
DOI: 10.2210/pdb3ddl/pdb
PDB entry 3ddl coloured by chain, front view.
PDB entry 3ddl coloured by chain, side view.
PDB entry 3ddl coloured by chain, top view.
Source organism: Salinibacter ruber
Primary publication:
Crystallographic structure of xanthorhodopsin, the light-driven proton pump with a dual chromophore.
Luecke H, Schobert B, Stagno J, Imasheva ES, Wang JM, Balashov SP, Lanyi JK
Proc Natl Acad Sci U S A 105 16561-5 (2008)
PMID: 18922772

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-173931 (preferred)
Entry contents:
1 distinct polypeptide molecule
Macromolecule:
Xanthorhodopsin Chains: A, B
Molecule details ›
Chains: A, B
Length: 273 amino acids
Theoretical weight: 30.11 KDa
Source organism: Salinibacter ruber
UniProt:
  • Canonical: Q2S2F8 (Residues: 1-273; Coverage: 100%)
Gene name: SRU_1500
Sequence domains: Bacteriorhodopsin-like protein
Structure domains: Rhodopsin 7-helix transmembrane proteins

Ligands and Environments

5 bound ligands:
Ligand SXN 2 x SXN
Ligand UNL 21 x UNL
Ligand RET 2 x RET
Ligand PX4 1 x PX4
Ligand PCW 1 x PCW
No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: SSRL BEAMLINE BL9-1
Spacegroup: P1
Unit cell:
a: 52.74Å b: 59.49Å c: 59.72Å
α: 76.35° β: 74.93° γ: 64.08°
R-values:
R R work R free
0.247 0.247 0.265

Quick links

Citations

20 review citations

Microbial and animal rhodopsins: structures, functions, and molecular mechanisms.
Ernst et al. (2014)
19 more

30 mentions without citation

Structural snapshots of conformational changes in a seven-helix membrane protein: lessons from bacteriorhodopsin.
Hirai et al. (2009)
29 more