Hif prolyl hydroxylase 2 (PHD2/ EGLN1) in complex with a SPIRO[4.5]DECANONE inhibitor (jphm-2-167)

Structure

x-ray diffraction · 1 distinct chain · 28% helix, 30% strand (DSSP).

Ligands and binding sites

• J2H · 8-[(3-methylpyridin-2-yl)methyl]-3-(4-phenylphenyl)-1-pyrimidin-2-yl-1,3,8-triazaspiro[4.5]decane-2,4-dione · ligand · chains A
• MN · Manganese (II) ion · metal · chains A
• SO4 · Sulfate ion · ion · 2 copies · chains A
• GOL · Glycerol · additive · chains A
• IPA · Isopropyl alcohol · additive · 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.

Compared structures

• 6QGV · HIF prolyl hydroxylase 2 (PHD2/ EGLN1) in complex with a Spiro[4.5]deca inhibitor… · the same entry in another collection · chain A against A, TM-score 1.00
• Q9GZT9 · AlphaFold monomer V2.0 prediction for egl nine homolog 1 (Q9GZT9) · 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 Q9GZT9
• Elsewhere: RCSB PDB 6QGV · PDBe 6QGV · UniProt Q9GZT9