Crystal structure of S. pombe RAI1 in complex with 3'-fadp

Structure

x-ray diffraction · 1 distinct chain · 26% helix, 30% strand (DSSP).

Ligands and binding sites

• UBG · [(2R,3S,4R,5R)-5-(6-amino-9H-purin-9-yl)-4-hydroxy-3-(phosphonooxy)tetrahydrofuran-2-yl]methyl (2R,3S,4S)-5-(7,8-dimethyl-2,4-dioxo-3,4-dihydrobenzo[g]pteridin-10(2H)-yl)-2,3,4-trihydroxypentyl dihydrogen diphosphate (non-preferred name) · ligand · chains A
• MG · Magnesium ion · metal · 2 copies · chains A
• EDO · 1,2-ethanediol · additive · chains A

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

Pockets

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

Compared structures

• 6WUG · Crystal Structure of S. pombe Rai1 in complex with 3'-FADP · the same entry in another collection · chain A against A, TM-score 1.00
• O13836 · AlphaFold monomer V2.0 prediction for decapping nuclease DIN1 (O13836) · 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 O13836
• Elsewhere: RCSB PDB 6WUG · PDBe 6WUG · UniProt O13836