Crystal structure of archaerhodopsin-2 at 1.8 ångström resolution

Structure

x-ray diffraction · 1 distinct chain · 74% helix, 3% strand (DSSP).

Ligands and binding sites

• L4P · 3-[glycerolylphosphonyl]-[1,2-di-phytanyl]glycerol · ligand · 2 copies · chains A
• RET · Retinal · ligand · chains A
• 22B · Bacterioruberin · ligand · chains A
• L2P · 2,3-di-phytanyl-glycerol · ligand · chains A
• L3P · 2,3-di-O-phytanly-3-sn-glycero-1-phosphoryl-3'-sn-glycerol-1'-phosphate · ligand · chains A
• SQL · (6E,10E,14E,18E)-2,6,10,15,19,23-hexamethyltetracosa-2, 6,10,14,18,22-hexaene · ligand · chains A
• SO4 · Sulfate ion · ion · chains A

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Modifications

Observed in the structure: 1 cofactor (retinal Schiff base).

Compared structures

• 3WQJ · Crystal structure of archaerhodopsin-2 at 1.8 angstrom resolution · the same entry in another collection · chain A against A, TM-score 1.00
• P29563 · AlphaFold monomer V2.0 prediction for archaerhodopsin-2 (P29563) · a predicted model of the same protein · chain A against A, TM-score 0.99

Analyse

• Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
• Every structure of UniProt P29563
• Elsewhere: RCSB PDB 3WQJ · PDBe 3WQJ · UniProt P29563