Dark-adapted structure of archaerhodopsin-3 obtained from lcp crystals using a thin-film sandwich at room temperature

Structure

x-ray diffraction · 1 distinct chain · 74% helix, 5% strand (DSSP).

Ligands and binding sites

• R16 · Hexadecane · ligand · 4 copies · chains A
• RET · Retinal · ligand · chains A
• CA · Calcium ion · metal · chains A
• NA · Sodium ion · metal · chains A
• CL · Chloride ion · ion · 3 copies · chains A
• DD9 · nonane · additive · 5 copies · 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, 1 modified (retinal Schiff base, cyclization).

Compared structures

• 6S63 · Dark-adapted structure of Archaerhodopsin-3 obtained from LCP crystals using a thin-film… · the same entry in another collection · chain A against A, TM-score 1.00
• P96787 · AlphaFold monomer V2.0 prediction for archaerhodopsin-3 (P96787) · a predicted model of the same protein · chain A against A, TM-score 0.97

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 P96787
• Elsewhere: RCSB PDB 6S63 · PDBe 6S63 · UniProt P96787