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Iron in PDB 8rut: Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA)

Enzymatic activity of Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA)

All present enzymatic activity of Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA):
1.14.11.29;

Protein crystallography data

The structure of Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA), PDB code: 8rut was solved by G.Fiorini, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.98 / 1.62
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 131.24, 38.34, 42.98, 90, 90, 90
R / Rfree (%) 19 / 21.9

Iron Binding Sites:

The binding sites of Iron atom in the Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA) (pdb code 8rut). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total only one binding site of Iron was determined in the Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA), PDB code: 8rut:

Iron binding site 1 out of 1 in 8rut

Go back to Iron Binding Sites List in 8rut
Iron binding site 1 out of 1 in the Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA)


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Hif Prolyl-Hydroxylase-2 (PHD2) T387V Variant Bound to Fe(III), 2- Oxoglutarate (2OG) and Hypoxia-Inducible Factor-2ALPHA (Hif-2ALPHA) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe803

b:20.7
occ:1.00
 O2 A:AKG802 1.9 23.1 1.0
NE2 A:HIS374 2.1 21.7 1.0
OD1 A:ASP315 2.1 22.1 1.0
O A:HOH907 2.2 25.0 1.0
NE2 A:HIS313 2.2 21.6 1.0
O5 A:AKG802 2.2 25.6 1.0
C1 A:AKG802 2.7 28.2 1.0
C2 A:AKG802 2.7 29.3 1.0
CE1 A:HIS313 3.0 24.8 1.0
CE1 A:HIS374 3.0 22.0 1.0
CG A:ASP315 3.1 22.4 1.0
HE1 A:HIS313 3.1 29.8 1.0
CD2 A:HIS374 3.1 23.4 1.0
HE1 A:HIS374 3.2 26.4 1.0
CD2 A:HIS313 3.3 22.1 1.0
HD2 A:HIS374 3.3 28.1 1.0
OD2 A:ASP315 3.3 24.0 1.0
HD2 A:HIS313 3.5 26.5 1.0
HG3 B:PRO531 3.5 25.9 1.0
O1 A:AKG802 3.9 29.4 1.0
HZ A:PHE366 4.0 26.8 1.0
C3 A:AKG802 4.1 31.0 1.0
ND1 A:HIS313 4.2 23.0 1.0
ND1 A:HIS374 4.2 20.9 1.0
HD3 B:PRO531 4.2 26.7 1.0
CG A:HIS374 4.2 20.4 1.0
HZ2 A:TRP389 4.2 27.0 1.0
HA A:ASP315 4.3 25.6 1.0
CG A:HIS313 4.3 22.0 1.0
CG B:PRO531 4.4 21.5 1.0
H42 A:AKG802 4.4 38.5 1.0
CB A:ASP315 4.5 19.6 1.0
H32 A:AKG802 4.5 37.2 1.0
H41 A:AKG802 4.6 38.5 1.0
C4 A:AKG802 4.7 32.0 1.0
HE2 A:TYR310 4.7 27.1 1.0
CD B:PRO531 4.7 22.2 1.0
H31 A:AKG802 4.7 37.2 1.0
CA A:ASP315 4.8 21.3 1.0
HG21 A:THR325 4.8 23.3 1.0
CE2 A:TYR310 4.8 22.5 1.0
CZ A:PHE366 4.8 22.3 1.0
HD1 A:HIS313 4.9 27.6 1.0
HD2 B:PRO531 4.9 26.7 1.0
HG2 B:PRO531 4.9 25.9 1.0
HB2 A:ASP315 4.9 23.6 1.0
HD1 A:HIS374 4.9 25.1 1.0
H A:ASP315 4.9 25.7 1.0
HE1 A:PHE366 5.0 27.8 1.0
N A:ASP315 5.0 21.4 1.0
HE1 A:TRP389 5.0 24.6 1.0
HB3 B:PRO531 5.0 27.2 1.0

Reference:

G.Fiorini, C.J.Schofield. Hif Prolyl Hydroxylase 2 (PHD2) T387V Variant Bound to Hypoxia-Inducible Factor 2ALPHA (Hif-2ALPHA To Be Published.
Page generated: Thu Aug 7 22:36:55 2025

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