Iron in PDB 7enb: Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation

Protein crystallography data

The structure of Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation, PDB code: 7enb was solved by T.Mori, I.Abe, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 45.62 / 2.30
Space group P 21 21 21
Cell size a, b, c (Å), α, β, γ (°) 47.747, 79.298, 154.524, 90, 90, 90
R / Rfree (%) 17.8 / 23.5

Iron Binding Sites:

The binding sites of Iron atom in the Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation (pdb code 7enb). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 2 binding sites of Iron where determined in the Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation, PDB code: 7enb:
Jump to Iron binding site number: 1; 2;

Iron binding site 1 out of 2 in 7enb

Go back to Iron Binding Sites List in 7enb
Iron binding site 1 out of 2 in the Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe403

b:17.4
occ:1.00
O2' A:OGA402 2.0 18.5 1.0
OD1 A:ASP137 2.0 20.9 1.0
NE2 A:HIS250 2.0 23.5 1.0
O1 A:OGA402 2.1 21.0 1.0
NE2 A:HIS135 2.1 21.5 1.0
O A:HOH520 2.1 20.4 1.0
C2 A:OGA402 2.7 20.5 1.0
C1 A:OGA402 2.8 22.7 1.0
CD2 A:HIS250 2.9 21.5 1.0
CG A:ASP137 2.9 20.8 1.0
CE1 A:HIS135 3.0 22.4 1.0
CE1 A:HIS250 3.1 20.4 1.0
CD2 A:HIS135 3.1 22.0 1.0
OD2 A:ASP137 3.1 19.6 1.0
O2 A:OGA402 4.0 21.6 1.0
N1 A:OGA402 4.0 24.2 1.0
CG A:HIS250 4.1 22.9 1.0
ND1 A:HIS250 4.2 19.3 1.0
ND1 A:HIS135 4.2 22.1 1.0
OG A:SER167 4.2 21.8 1.0
CG A:HIS135 4.2 22.2 1.0
CAF A:H3X401 4.3 22.4 1.0
CB A:ASP137 4.3 21.9 1.0
NH1 A:ARG271 4.4 21.5 1.0
C4 A:OGA402 4.8 21.8 1.0
CA A:ASP137 4.8 20.7 1.0
CBB A:H3X401 4.8 22.7 1.0
N A:ASP137 4.9 20.5 1.0

Iron binding site 2 out of 2 in 7enb

Go back to Iron Binding Sites List in 7enb
Iron binding site 2 out of 2 in the Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe302

b:18.9
occ:1.00
O1 B:OGA301 1.9 21.5 1.0
NE2 B:HIS250 2.0 20.3 1.0
NE2 B:HIS135 2.0 20.7 1.0
OD1 B:ASP137 2.1 22.7 1.0
O2' B:OGA301 2.2 21.2 1.0
O B:HOH429 2.2 19.9 1.0
C1 B:OGA301 2.7 21.6 1.0
C2 B:OGA301 2.8 18.6 1.0
CE1 B:HIS135 2.9 19.5 1.0
CD2 B:HIS250 2.9 18.0 1.0
CG B:ASP137 3.0 21.3 1.0
CE1 B:HIS250 3.1 18.1 1.0
CD2 B:HIS135 3.1 19.8 1.0
OD2 B:ASP137 3.2 24.1 1.0
O2 B:OGA301 3.9 17.5 1.0
ND1 B:HIS135 4.0 20.2 1.0
CG B:HIS250 4.1 19.9 1.0
N1 B:OGA301 4.1 19.9 1.0
ND1 B:HIS250 4.1 16.7 1.0
CG B:HIS135 4.2 20.1 1.0
OG B:SER167 4.2 22.6 1.0
CB B:ASP137 4.4 20.6 1.0
NH1 B:ARG271 4.4 24.5 1.0
CA B:ASP137 4.8 18.7 1.0
N B:ASP137 4.8 20.4 1.0
C4 B:OGA301 4.8 23.1 1.0
CB B:SER167 5.0 16.8 1.0

Reference:

T.Mori, I.Abe. Iron and Alpha-Ketoglutarate-Dependent Endoperoxidase Nvfi with Different Conformation To Be Published.
Page generated: Sat Aug 21 14:15:15 2021

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