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Manganese in PDB 7q5x: Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542)

Enzymatic activity of Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542)

All present enzymatic activity of Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542):
1.14.11.29;

Protein crystallography data

The structure of Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542), PDB code: 7q5x was solved by W.D.Figg Jr, M.A.Mcdonough, R.Chowdhury, Y.Nakashima, C.J.Schofield, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 42.75 / 1.21
Space group P 21 21 2
Cell size a, b, c (Å), α, β, γ (°) 130.454, 38.175, 42.751, 90, 90, 90
R / Rfree (%) 15.7 / 17.6

Other elements in 7q5x:

The structure of Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542) also contains other interesting chemical elements:

Chlorine (Cl) 3 atoms
Magnesium (Mg) 3 atoms

Manganese Binding Sites:

The binding sites of Manganese atom in the Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542) (pdb code 7q5x). This binding sites where shown within 5.0 Angstroms radius around Manganese atom.
In total only one binding site of Manganese was determined in the Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542), PDB code: 7q5x:

Manganese binding site 1 out of 1 in 7q5x

Go back to Manganese Binding Sites List in 7q5x
Manganese binding site 1 out of 1 in the Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542)


Mono view


Stereo pair view

A full contact list of Manganese with other atoms in the Mn binding site number 1 of Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2-Oxoglutarate (2OG) and Hif-2 Alpha Codd (523-542) within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Mn501

b:9.8
occ:1.00
 O1 A:AKG502 2.1 15.0 1.0
NE2 A:HIS374 2.1 10.1 1.0
OD1 A:ASP315 2.1 10.1 1.0
O5 A:AKG502 2.1 13.2 1.0
NE2 A:HIS313 2.2 10.8 1.0
O A:HOH630 2.2 13.1 1.0
C2 A:AKG502 2.8 20.8 1.0
C1 A:AKG502 2.8 20.0 1.0
CE1 A:HIS313 3.1 10.0 1.0
CE1 A:HIS374 3.1 10.0 1.0
CG A:ASP315 3.1 9.6 1.0
CD2 A:HIS374 3.2 9.1 1.0
HE1 A:HIS313 3.2 12.0 1.0
CD2 A:HIS313 3.2 9.8 1.0
HE1 A:HIS374 3.2 12.0 1.0
HD2 A:HIS374 3.3 11.0 1.0
HD2 A:HIS313 3.4 11.8 1.0
OD2 A:ASP315 3.4 10.2 1.0
HG3 B:PRO531 3.5 16.4 1.0
O2 A:AKG502 4.0 22.5 1.0
HZ A:PHE366 4.0 13.2 1.0
HD3 B:PRO531 4.2 16.3 1.0
O A:HOH655 4.2 18.2 1.0
C3 A:AKG502 4.2 23.2 1.0
HZ2 A:TRP389 4.2 14.2 1.0
ND1 A:HIS313 4.2 10.7 1.0
ND1 A:HIS374 4.2 9.8 1.0
CG A:HIS374 4.3 9.7 1.0
HA A:ASP315 4.3 12.6 1.0
CG A:HIS313 4.3 10.9 1.0
CG B:PRO531 4.4 13.6 1.0
H42 A:AKG502 4.5 25.5 1.0
CB A:ASP315 4.5 9.9 1.0
H41 A:AKG502 4.6 25.5 1.0
H32 A:AKG502 4.6 27.9 1.0
C4 A:AKG502 4.7 21.2 1.0
CD B:PRO531 4.7 13.6 1.0
HE2 A:TYR310 4.7 15.7 1.0
H31 A:AKG502 4.8 27.9 1.0
CE2 A:TYR310 4.8 13.1 1.0
CA A:ASP315 4.8 10.5 1.0
HG21 A:THR325 4.9 12.3 1.0
CZ A:PHE366 4.9 11.0 1.0
HB3 B:PRO531 4.9 15.1 1.0
HD2 B:PRO531 4.9 16.3 1.0
HE1 A:PHE366 5.0 12.8 1.0
HD1 A:HIS313 5.0 12.8 1.0
HG2 B:PRO531 5.0 16.4 1.0
H A:ASP315 5.0 12.2 1.0
N A:ASP315 5.0 10.2 1.0
HD1 A:HIS374 5.0 11.8 1.0
HB3 A:ASP315 5.0 11.9 1.0
HB2 A:ASP315 5.0 11.9 1.0

Reference:

W.D.Figg Jr, M.A.Mcdonough, R.Chowdhury, Y.Nakashima, C.J.Schofield. Hif Prolyl Hydroxylase 2 (PHD2/EGLN1) in Complex with 2_OXOGLUTARATE (2OG) and Hif-2 Alpha Codd (523-542) To Be Published.
Page generated: Sat Aug 16 23:31:55 2025

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