Iron in PDB 9iig: Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
Enzymatic activity of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
All present enzymatic activity of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis:
1.16.3.1;
Other elements in 9iig:
The structure of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
(pdb code 9iig). This binding sites where shown within
5.0 Angstroms radius around Iron atom.
In total 6 binding sites of Iron where determined in the
Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis, PDB code: 9iig:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
Iron binding site 1 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 1 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 1 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Fe201
b:17.4
occ:1.00
|
FE
|
N:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
N:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
N:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
N:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
N:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
N:MET52
|
2.4
|
55.1
|
1.0
|
SD
|
M:MET52
|
2.7
|
55.1
|
1.0
|
C1C
|
N:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
N:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
N:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
N:HEM201
|
3.1
|
17.4
|
1.0
|
C1D
|
N:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
N:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
N:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
N:HEM201
|
3.2
|
17.4
|
1.0
|
CG
|
N:MET52
|
3.2
|
36.4
|
1.0
|
CE
|
N:MET52
|
3.3
|
39.5
|
1.0
|
CHC
|
N:HEM201
|
3.3
|
17.4
|
1.0
|
CHD
|
N:HEM201
|
3.5
|
17.4
|
1.0
|
CE
|
M:MET52
|
3.5
|
39.5
|
1.0
|
CHA
|
N:HEM201
|
3.5
|
17.4
|
1.0
|
CHB
|
N:HEM201
|
3.5
|
17.4
|
1.0
|
CG
|
M:MET52
|
3.6
|
36.4
|
1.0
|
C2C
|
N:HEM201
|
4.2
|
17.4
|
1.0
|
C3B
|
N:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
N:HEM201
|
4.2
|
17.4
|
1.0
|
CB
|
N:MET52
|
4.3
|
31.4
|
1.0
|
C2B
|
N:HEM201
|
4.3
|
17.4
|
1.0
|
C3D
|
N:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
N:HEM201
|
4.3
|
17.4
|
1.0
|
C2A
|
N:HEM201
|
4.4
|
17.4
|
1.0
|
C3A
|
N:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
M:MET52
|
4.6
|
31.4
|
1.0
|
|
Iron binding site 2 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 2 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 2 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
O:Fe201
b:17.4
occ:1.00
|
FE
|
O:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
O:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
O:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
O:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
O:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
O:MET52
|
2.5
|
55.1
|
1.0
|
SD
|
P:MET52
|
2.6
|
55.1
|
1.0
|
C1C
|
O:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
O:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
O:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
O:HEM201
|
3.1
|
17.4
|
1.0
|
C1D
|
O:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
O:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
O:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
O:HEM201
|
3.2
|
17.4
|
1.0
|
CE
|
O:MET52
|
3.2
|
39.5
|
1.0
|
CG
|
O:MET52
|
3.2
|
36.4
|
1.0
|
CHC
|
O:HEM201
|
3.3
|
17.4
|
1.0
|
CE
|
P:MET52
|
3.4
|
39.5
|
1.0
|
CG
|
P:MET52
|
3.4
|
36.4
|
1.0
|
CHD
|
O:HEM201
|
3.5
|
17.4
|
1.0
|
CHA
|
O:HEM201
|
3.5
|
17.4
|
1.0
|
CHB
|
O:HEM201
|
3.5
|
17.4
|
1.0
|
C2C
|
O:HEM201
|
4.2
|
17.4
|
1.0
|
C3B
|
O:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
O:HEM201
|
4.2
|
17.4
|
1.0
|
C2B
|
O:HEM201
|
4.3
|
17.4
|
1.0
|
C3D
|
O:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
O:HEM201
|
4.3
|
17.4
|
1.0
|
CB
|
O:MET52
|
4.4
|
31.4
|
1.0
|
C2A
|
O:HEM201
|
4.4
|
17.4
|
1.0
|
C3A
|
O:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
P:MET52
|
4.5
|
31.4
|
1.0
|
|
Iron binding site 3 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 3 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 3 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Q:Fe201
b:17.4
occ:1.00
|
FE
|
Q:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
Q:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
Q:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
Q:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
Q:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
R:MET52
|
2.5
|
55.1
|
1.0
|
SD
|
Q:MET52
|
2.5
|
55.1
|
1.0
|
C1C
|
Q:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
Q:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
Q:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
Q:HEM201
|
3.1
|
17.4
|
1.0
|
C1D
|
Q:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
Q:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
Q:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
Q:HEM201
|
3.2
|
17.4
|
1.0
|
CE
|
R:MET52
|
3.2
|
39.5
|
1.0
|
CG
|
Q:MET52
|
3.3
|
36.4
|
1.0
|
CHC
|
Q:HEM201
|
3.3
|
17.4
|
1.0
|
CG
|
R:MET52
|
3.4
|
36.4
|
1.0
|
CHD
|
Q:HEM201
|
3.5
|
17.4
|
1.0
|
CE
|
Q:MET52
|
3.5
|
39.5
|
1.0
|
CHA
|
Q:HEM201
|
3.5
|
17.4
|
1.0
|
CHB
|
Q:HEM201
|
3.5
|
17.4
|
1.0
|
C2C
|
Q:HEM201
|
4.2
|
17.4
|
1.0
|
C3B
|
Q:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
Q:HEM201
|
4.2
|
17.4
|
1.0
|
C2B
|
Q:HEM201
|
4.3
|
17.4
|
1.0
|
CB
|
Q:MET52
|
4.3
|
31.4
|
1.0
|
C3D
|
Q:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
Q:HEM201
|
4.3
|
17.4
|
1.0
|
C2A
|
Q:HEM201
|
4.4
|
17.4
|
1.0
|
C3A
|
Q:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
R:MET52
|
4.4
|
31.4
|
1.0
|
|
Iron binding site 4 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 4 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 4 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
S:Fe201
b:17.4
occ:1.00
|
FE
|
S:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
S:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
S:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
S:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
S:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
S:MET52
|
2.4
|
55.1
|
1.0
|
SD
|
T:MET52
|
2.7
|
55.1
|
1.0
|
C1C
|
S:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
S:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
S:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
S:HEM201
|
3.1
|
17.4
|
1.0
|
C1D
|
S:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
S:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
S:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
S:HEM201
|
3.2
|
17.4
|
1.0
|
CG
|
S:MET52
|
3.2
|
36.4
|
1.0
|
CE
|
S:MET52
|
3.3
|
39.5
|
1.0
|
CHC
|
S:HEM201
|
3.3
|
17.4
|
1.0
|
CE
|
T:MET52
|
3.4
|
39.5
|
1.0
|
CHD
|
S:HEM201
|
3.5
|
17.4
|
1.0
|
CHA
|
S:HEM201
|
3.5
|
17.4
|
1.0
|
CG
|
T:MET52
|
3.5
|
36.4
|
1.0
|
CHB
|
S:HEM201
|
3.5
|
17.4
|
1.0
|
C2C
|
S:HEM201
|
4.2
|
17.4
|
1.0
|
CB
|
S:MET52
|
4.2
|
31.4
|
1.0
|
C3B
|
S:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
S:HEM201
|
4.2
|
17.4
|
1.0
|
C2B
|
S:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
S:HEM201
|
4.3
|
17.4
|
1.0
|
C3D
|
S:HEM201
|
4.3
|
17.4
|
1.0
|
C2A
|
S:HEM201
|
4.4
|
17.4
|
1.0
|
C3A
|
S:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
T:MET52
|
4.6
|
31.4
|
1.0
|
|
Iron binding site 5 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 5 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 5 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
U:Fe201
b:17.4
occ:1.00
|
FE
|
U:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
U:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
U:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
U:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
U:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
U:MET52
|
2.4
|
55.1
|
1.0
|
SD
|
V:MET52
|
2.6
|
55.1
|
1.0
|
C1C
|
U:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
U:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
U:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
U:HEM201
|
3.1
|
17.4
|
1.0
|
C1D
|
U:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
U:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
U:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
U:HEM201
|
3.2
|
17.4
|
1.0
|
CG
|
U:MET52
|
3.2
|
36.4
|
1.0
|
CE
|
U:MET52
|
3.2
|
39.5
|
1.0
|
CHC
|
U:HEM201
|
3.3
|
17.4
|
1.0
|
CG
|
V:MET52
|
3.4
|
36.4
|
1.0
|
CE
|
V:MET52
|
3.4
|
39.5
|
1.0
|
CHD
|
U:HEM201
|
3.5
|
17.4
|
1.0
|
CHA
|
U:HEM201
|
3.5
|
17.4
|
1.0
|
CHB
|
U:HEM201
|
3.5
|
17.4
|
1.0
|
C2C
|
U:HEM201
|
4.2
|
17.4
|
1.0
|
C3B
|
U:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
U:HEM201
|
4.2
|
17.4
|
1.0
|
CB
|
U:MET52
|
4.3
|
31.4
|
1.0
|
C2B
|
U:HEM201
|
4.3
|
17.4
|
1.0
|
C3D
|
U:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
U:HEM201
|
4.3
|
17.4
|
1.0
|
C2A
|
U:HEM201
|
4.4
|
17.4
|
1.0
|
C3A
|
U:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
V:MET52
|
4.5
|
31.4
|
1.0
|
|
Iron binding site 6 out
of 6 in 9iig
Go back to
Iron Binding Sites List in 9iig
Iron binding site 6 out
of 6 in the Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis
 Mono view
 Stereo pair view
|
A full contact list of Iron with other atoms in the Fe binding
site number 6 of Cryo-Em Structure of Hetero-Bacterioferritin SOBFR12 From Shewanella Oneidensis within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
X:Fe201
b:17.4
occ:1.00
|
FE
|
X:HEM201
|
0.0
|
17.4
|
1.0
|
NC
|
X:HEM201
|
2.0
|
17.4
|
1.0
|
NB
|
X:HEM201
|
2.0
|
17.4
|
1.0
|
ND
|
X:HEM201
|
2.1
|
17.4
|
1.0
|
NA
|
X:HEM201
|
2.2
|
17.4
|
1.0
|
SD
|
X:MET52
|
2.4
|
55.1
|
1.0
|
SD
|
W:MET52
|
2.6
|
55.1
|
1.0
|
C1C
|
X:HEM201
|
3.0
|
17.4
|
1.0
|
C4B
|
X:HEM201
|
3.0
|
17.4
|
1.0
|
C4C
|
X:HEM201
|
3.1
|
17.4
|
1.0
|
C1B
|
X:HEM201
|
3.1
|
17.4
|
1.0
|
CE
|
X:MET52
|
3.1
|
39.5
|
1.0
|
C1D
|
X:HEM201
|
3.1
|
17.4
|
1.0
|
C4D
|
X:HEM201
|
3.1
|
17.4
|
1.0
|
C1A
|
X:HEM201
|
3.2
|
17.4
|
1.0
|
C4A
|
X:HEM201
|
3.2
|
17.4
|
1.0
|
CG
|
W:MET52
|
3.3
|
36.4
|
1.0
|
CHC
|
X:HEM201
|
3.3
|
17.4
|
1.0
|
CG
|
X:MET52
|
3.4
|
36.4
|
1.0
|
CE
|
W:MET52
|
3.4
|
39.5
|
1.0
|
CHD
|
X:HEM201
|
3.5
|
17.4
|
1.0
|
CHA
|
X:HEM201
|
3.5
|
17.4
|
1.0
|
CHB
|
X:HEM201
|
3.5
|
17.4
|
1.0
|
C2C
|
X:HEM201
|
4.2
|
17.4
|
1.0
|
C3B
|
X:HEM201
|
4.2
|
17.4
|
1.0
|
C3C
|
X:HEM201
|
4.2
|
17.4
|
1.0
|
C2B
|
X:HEM201
|
4.3
|
17.4
|
1.0
|
C3D
|
X:HEM201
|
4.3
|
17.4
|
1.0
|
C2D
|
X:HEM201
|
4.3
|
17.4
|
1.0
|
C2A
|
X:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
W:MET52
|
4.4
|
31.4
|
1.0
|
C3A
|
X:HEM201
|
4.4
|
17.4
|
1.0
|
CB
|
X:MET52
|
4.5
|
31.4
|
1.0
|
|
Reference:
Y.Li,
W.Wang,
W.Wang,
X.Zhang,
J.Chen,
H.Gao.
Unveiling Structural Heterogeneity and Evolutionary Adaptations of Heteromultimeric Bacterioferritin Nanocages. Adv Sci 09957 2025.
ISSN: ESSN 2198-3844
PubMed: 40167232
DOI: 10.1002/ADVS.202409957
Page generated: Fri Aug 8 06:48:49 2025
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