PDBe 5las

X-ray diffraction
2.1Å resolution

HIF prolyl hydroxylase 2 (PHD2-R281C/P317C/R396T) cross-linked to HIF-1alpha NODD-L397C/D412C and N-oxalylglycine (NOG) (complex-3)


Function and Biology Details

Reaction catalysed:
Hypoxia-inducible factor-L-proline + 2-oxoglutarate + O(2) = hypoxia-inducible factor-trans-4-hydroxy-L-proline + succinate + CO(2)

Structure analysis Details

Assembly composition:
hetero tetramer (preferred)
Entry contents:
2 distinct polypeptide molecules
Macromolecules (2 distinct):
Egl nine homolog 1 Chains: A, B
Molecule details ›
Chains: A, B
Length: 252 amino acids
Theoretical weight: 27.87 KDa
Source organism: Homo sapiens
Expression system: Escherichia coli BL21(DE3)
  • Canonical: Q9GZT9 (Residues: 181-426; Coverage: 58%)
Gene names: C1orf12, EGLN1, PNAS-118, PNAS-137
Sequence domains: 2OG-Fe(II) oxygenase superfamily
Structure domains: q2cbj1_9rhob like domain
Hypoxia-inducible factor 1-alpha Chains: C, D
Molecule details ›
Chains: C, D
Length: 19 amino acids
Theoretical weight: 1.9 KDa
Source organism: Homo sapiens
Expression system: Not provided
  • Canonical: Q16665 (Residues: 395-413; Coverage: 2%)
Gene names: BHLHE78, HIF1A, MOP1, PASD8

Ligands and Environments

2 bound ligands:

No modified residues

Experiments and Validation Details

Entry percentile scores
X-ray source: DIAMOND BEAMLINE I04
Spacegroup: P21
Unit cell:
a: 43.579Å b: 73.642Å c: 70.146Å
α: 90° β: 91.25° γ: 90°
R R work R free
0.187 0.185 0.221
Expression systems:
  • Escherichia coli BL21(DE3)
  • Not provided