Atomistry » Iron » PDB 1ofj-1ozl » 1oj6
Atomistry »
  Iron »
    PDB 1ofj-1ozl »
      1oj6 »

Iron in PDB 1oj6: Human Brain Neuroglobin Three-Dimensional Structure

Protein crystallography data

The structure of Human Brain Neuroglobin Three-Dimensional Structure, PDB code: 1oj6 was solved by A.Pesce, S.Dewilde, M.Nardini, L.Moens, P.Ascenzi, T.Hankeln, T.Burmester, M.Bolognesi, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å) 40.00 / 1.95
Space group P 1 21 1
Cell size a, b, c (Å), α, β, γ (°) 39.598, 94.927, 67.563, 90.00, 94.38, 90.00
R / Rfree (%) 17.8 / 23.3

Iron Binding Sites:

The binding sites of Iron atom in the Human Brain Neuroglobin Three-Dimensional Structure (pdb code 1oj6). This binding sites where shown within 5.0 Angstroms radius around Iron atom.
In total 4 binding sites of Iron where determined in the Human Brain Neuroglobin Three-Dimensional Structure, PDB code: 1oj6:
Jump to Iron binding site number: 1; 2; 3; 4;

Iron binding site 1 out of 4 in 1oj6

Go back to Iron Binding Sites List in 1oj6
Iron binding site 1 out of 4 in the Human Brain Neuroglobin Three-Dimensional Structure


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 1 of Human Brain Neuroglobin Three-Dimensional Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Fe1150

b:3.6
occ:1.00
FE A:HEM1150 0.0 3.6 1.0
NC A:HEM1150 2.0 13.6 1.0
NA A:HEM1150 2.0 26.8 1.0
NB A:HEM1150 2.1 18.8 1.0
NE2 A:HIS96 2.1 17.3 1.0
ND A:HEM1150 2.1 19.7 1.0
NE2 A:HIS64 2.1 12.5 1.0
CD2 A:HIS96 3.0 16.4 1.0
C1C A:HEM1150 3.0 16.4 1.0
C4C A:HEM1150 3.0 15.7 1.0
C1A A:HEM1150 3.0 25.6 1.0
C4A A:HEM1150 3.0 17.9 1.0
C4B A:HEM1150 3.1 13.3 1.0
C1B A:HEM1150 3.1 17.7 1.0
C4D A:HEM1150 3.1 14.9 1.0
C1D A:HEM1150 3.1 11.1 1.0
CE1 A:HIS64 3.1 18.3 1.0
CD2 A:HIS64 3.1 17.5 1.0
CE1 A:HIS96 3.1 19.9 1.0
CHC A:HEM1150 3.4 19.7 1.0
CHD A:HEM1150 3.4 17.6 1.0
CHA A:HEM1150 3.4 18.6 1.0
CHB A:HEM1150 3.4 14.6 1.0
CG A:HIS96 4.2 13.2 1.0
C3C A:HEM1150 4.2 20.1 1.0
C2C A:HEM1150 4.2 21.2 1.0
ND1 A:HIS96 4.2 18.3 1.0
ND1 A:HIS64 4.2 11.4 1.0
C2A A:HEM1150 4.3 26.2 1.0
C3A A:HEM1150 4.3 22.8 1.0
CG A:HIS64 4.3 18.5 1.0
C3B A:HEM1150 4.3 22.7 1.0
C2B A:HEM1150 4.3 26.5 1.0
C3D A:HEM1150 4.3 21.0 1.0
C2D A:HEM1150 4.3 16.9 1.0
CG2 A:VAL68 4.8 13.7 1.0

Iron binding site 2 out of 4 in 1oj6

Go back to Iron Binding Sites List in 1oj6
Iron binding site 2 out of 4 in the Human Brain Neuroglobin Three-Dimensional Structure


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 2 of Human Brain Neuroglobin Three-Dimensional Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Fe1152

b:2.0
occ:1.00
FE B:HEM1152 0.0 2.0 1.0
NC B:HEM1152 2.0 15.2 1.0
ND B:HEM1152 2.0 12.1 1.0
NE2 B:HIS96 2.0 14.6 1.0
NA B:HEM1152 2.1 23.5 1.0
NB B:HEM1152 2.1 26.8 1.0
NE2 B:HIS64 2.2 15.2 1.0
CD2 B:HIS96 2.9 19.3 1.0
C4C B:HEM1152 2.9 18.1 1.0
C1D B:HEM1152 3.0 18.7 1.0
C1C B:HEM1152 3.0 13.6 1.0
C4D B:HEM1152 3.0 15.9 1.0
C1A B:HEM1152 3.1 17.1 1.0
CE1 B:HIS96 3.1 22.9 1.0
C4B B:HEM1152 3.1 13.0 1.0
C4A B:HEM1152 3.1 19.1 1.0
CE1 B:HIS64 3.1 17.4 1.0
C1B B:HEM1152 3.1 15.9 1.0
CD2 B:HIS64 3.2 15.1 1.0
CHD B:HEM1152 3.3 13.6 1.0
CHA B:HEM1152 3.4 11.1 1.0
CHC B:HEM1152 3.4 12.3 1.0
CHB B:HEM1152 3.5 14.9 1.0
CG B:HIS96 4.1 18.4 1.0
ND1 B:HIS96 4.1 14.7 1.0
C3C B:HEM1152 4.2 15.9 1.0
C2C B:HEM1152 4.2 14.9 1.0
C2D B:HEM1152 4.2 15.3 1.0
C3D B:HEM1152 4.2 14.5 1.0
ND1 B:HIS64 4.3 17.4 1.0
CG B:HIS64 4.3 15.5 1.0
C2A B:HEM1152 4.3 20.1 1.0
C3B B:HEM1152 4.3 18.2 1.0
C3A B:HEM1152 4.3 17.9 1.0
C2B B:HEM1152 4.3 20.2 1.0
CG2 B:VAL68 4.9 11.6 1.0

Iron binding site 3 out of 4 in 1oj6

Go back to Iron Binding Sites List in 1oj6
Iron binding site 3 out of 4 in the Human Brain Neuroglobin Three-Dimensional Structure


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 3 of Human Brain Neuroglobin Three-Dimensional Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
C:Fe1152

b:2.0
occ:1.00
FE C:HEM1152 0.0 2.0 1.0
ND C:HEM1152 2.0 16.0 1.0
NC C:HEM1152 2.0 15.1 1.0
NE2 C:HIS64 2.1 13.3 1.0
NA C:HEM1152 2.1 17.2 1.0
NB C:HEM1152 2.1 19.4 1.0
NE2 C:HIS96 2.1 16.4 1.0
C4C C:HEM1152 3.0 15.1 1.0
C1D C:HEM1152 3.0 22.4 1.0
CD2 C:HIS96 3.0 18.0 1.0
C4D C:HEM1152 3.0 16.1 1.0
CD2 C:HIS64 3.0 19.0 1.0
C1C C:HEM1152 3.0 13.9 1.0
C1A C:HEM1152 3.1 15.0 1.0
CE1 C:HIS64 3.1 16.8 1.0
C4B C:HEM1152 3.1 17.5 1.0
C1B C:HEM1152 3.1 5.5 1.0
C4A C:HEM1152 3.1 11.2 1.0
CE1 C:HIS96 3.2 19.4 1.0
CHD C:HEM1152 3.3 21.2 1.0
CHA C:HEM1152 3.4 15.3 1.0
CHC C:HEM1152 3.4 17.3 1.0
CHB C:HEM1152 3.5 11.2 1.0
CG C:HIS96 4.2 18.9 1.0
ND1 C:HIS64 4.2 12.7 1.0
CG C:HIS64 4.2 14.3 1.0
C3C C:HEM1152 4.2 11.4 1.0
C2D C:HEM1152 4.2 12.9 1.0
ND1 C:HIS96 4.2 19.0 1.0
C2C C:HEM1152 4.2 18.0 1.0
C3D C:HEM1152 4.2 15.1 1.0
C3B C:HEM1152 4.3 19.7 1.0
C2A C:HEM1152 4.3 16.9 1.0
C2B C:HEM1152 4.3 10.9 1.0
C3A C:HEM1152 4.3 21.0 1.0
CG2 C:VAL68 5.0 14.5 1.0

Iron binding site 4 out of 4 in 1oj6

Go back to Iron Binding Sites List in 1oj6
Iron binding site 4 out of 4 in the Human Brain Neuroglobin Three-Dimensional Structure


Mono view


Stereo pair view

A full contact list of Iron with other atoms in the Fe binding site number 4 of Human Brain Neuroglobin Three-Dimensional Structure within 5.0Å range:
probe atom residue distance (Å) B Occ
D:Fe1151

b:2.3
occ:1.00
FE D:HEM1151 0.0 2.3 1.0
NA D:HEM1151 1.9 20.0 1.0
NC D:HEM1151 2.0 20.6 1.0
NE2 D:HIS96 2.0 17.8 1.0
ND D:HEM1151 2.1 17.6 1.0
NE2 D:HIS64 2.1 19.4 1.0
NB D:HEM1151 2.1 26.4 1.0
C1A D:HEM1151 3.0 16.3 1.0
CD2 D:HIS96 3.0 19.9 1.0
C4A D:HEM1151 3.0 21.1 1.0
C4C D:HEM1151 3.0 22.7 1.0
CE1 D:HIS96 3.0 21.4 1.0
CE1 D:HIS64 3.0 17.6 1.0
C4D D:HEM1151 3.0 17.9 1.0
C1C D:HEM1151 3.1 17.2 1.0
C1D D:HEM1151 3.1 19.5 1.0
CD2 D:HIS64 3.1 23.1 1.0
C4B D:HEM1151 3.1 12.6 1.0
C1B D:HEM1151 3.1 19.3 1.0
CHA D:HEM1151 3.4 18.7 1.0
CHD D:HEM1151 3.4 17.7 1.0
CHB D:HEM1151 3.4 14.4 1.0
CHC D:HEM1151 3.5 11.9 1.0
ND1 D:HIS96 4.1 21.7 1.0
CG D:HIS96 4.1 19.9 1.0
ND1 D:HIS64 4.2 18.3 1.0
C2A D:HEM1151 4.2 23.2 1.0
C3A D:HEM1151 4.2 23.9 1.0
CG D:HIS64 4.2 20.3 1.0
C3C D:HEM1151 4.2 19.2 1.0
C2C D:HEM1151 4.3 18.3 1.0
C3D D:HEM1151 4.3 17.1 1.0
C2D D:HEM1151 4.3 24.6 1.0
C3B D:HEM1151 4.3 26.6 1.0
C2B D:HEM1151 4.3 21.3 1.0
CG2 D:VAL68 5.0 19.2 1.0

Reference:

A.Pesce, S.Dewilde, M.Nardini, L.Moens, P.Ascenzi, T.Hankeln, T.Burmester, M.Bolognesi. Human Brain Neuroglobin Structure Reveals A Distinct Mode of Controlling Oxygen Affinity Structure V. 11 1087 2003.
ISSN: ISSN 0969-2126
PubMed: 12962627
DOI: 10.1016/S0969-2126(03)00166-7
Page generated: Wed Jul 16 19:17:21 2025

Last articles

Fe in 2YXO
Fe in 2YRS
Fe in 2YXC
Fe in 2YNM
Fe in 2YVJ
Fe in 2YP1
Fe in 2YU2
Fe in 2YU1
Fe in 2YQB
Fe in 2YOO
© Copyright 2008-2020 by atomistry.com
Home   |    Site Map   |    Copyright   |    Contact us   |    Privacy