Iron in PDB 8rqb: Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
Other elements in 8rqb:
The structure of Cryo-Em Structure of Mouse Heavy-Chain Apoferritin also contains other interesting chemical elements:
Iron Binding Sites:
The binding sites of Iron atom in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
(pdb code 8rqb). 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 Mouse Heavy-Chain Apoferritin, PDB code: 8rqb:
Jump to Iron binding site number:
1;
2;
3;
4;
5;
6;
Iron binding site 1 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 1 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Fe201
b:17.2
occ:1.00
|
NE2
|
E:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
F:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
A:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
G:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
E:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
F:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
A:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
G:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
E:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
F:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
A:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
G:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
E:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
F:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
A:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
G:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
A:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
E:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
F:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
G:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
E:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
A:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
F:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
G:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
E:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
F:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
A:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
G:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
E:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
A:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
G:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
F:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
E:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
F:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
A:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
G:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
A:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
E:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
F:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
G:LEU169
|
5.0
|
12.8
|
1.0
|
|
Iron binding site 2 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 2 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Fe201
b:17.2
occ:0.25
|
NE2
|
H:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
B:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
L:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
N:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
H:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
B:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
L:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
N:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
H:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
B:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
L:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
N:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
H:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
B:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
L:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
N:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
H:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
B:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
N:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
L:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
H:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
L:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
B:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
N:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
H:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
B:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
L:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
N:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
H:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
B:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
L:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
N:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
H:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
B:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
L:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
N:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
B:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
H:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
N:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
L:LEU169
|
5.0
|
12.8
|
1.0
|
|
Iron binding site 3 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 3 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Fe201
b:17.2
occ:0.25
|
NE2
|
C:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
S:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
R:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
T:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
C:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
S:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
R:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
T:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
C:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
S:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
R:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
T:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
C:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
S:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
R:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
T:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
S:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
C:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
T:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
R:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
C:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
R:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
S:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
T:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
C:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
S:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
T:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
R:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
S:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
C:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
T:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
R:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
C:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
S:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
T:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
R:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
S:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
T:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
C:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
R:LEU169
|
5.0
|
12.8
|
1.0
|
|
Iron binding site 4 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 4 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Fe202
b:17.2
occ:0.25
|
NE2
|
D:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
K:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
Q:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
M:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
D:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
K:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
M:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
Q:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
K:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
D:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
Q:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
M:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
K:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
D:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
Q:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
M:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
K:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
M:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
D:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
Q:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
K:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
D:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
Q:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
M:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
D:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
K:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
M:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
Q:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
K:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
D:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
M:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
Q:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
K:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
D:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
M:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
Q:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
K:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
D:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
M:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
Q:LEU169
|
5.0
|
12.8
|
1.0
|
|
Iron binding site 5 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 5 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Fe201
b:17.2
occ:0.25
|
NE2
|
U:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
I:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
J:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
V:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
U:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
I:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
J:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
V:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
U:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
I:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
J:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
V:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
U:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
I:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
J:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
V:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
U:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
J:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
I:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
V:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
U:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
I:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
J:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
V:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
U:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
I:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
J:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
V:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
U:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
I:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
J:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
V:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
I:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
U:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
V:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
J:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
U:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
J:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
I:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
V:LEU169
|
5.0
|
12.8
|
1.0
|
|
Iron binding site 6 out
of 6 in 8rqb
Go back to
Iron Binding Sites List in 8rqb
Iron binding site 6 out
of 6 in the Cryo-Em Structure of Mouse Heavy-Chain Apoferritin
 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 Mouse Heavy-Chain Apoferritin within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
O:Fe201
b:17.2
occ:0.25
|
NE2
|
O:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
W:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
X:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
P:HIS173
|
3.0
|
19.4
|
0.5
|
|
NE2
|
O:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
W:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
P:HIS173
|
3.2
|
13.8
|
0.5
|
|
NE2
|
X:HIS173
|
3.2
|
13.8
|
0.5
|
|
CE1
|
O:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
W:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
X:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
P:HIS173
|
3.7
|
19.6
|
0.5
|
|
CE1
|
O:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
W:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
X:HIS173
|
4.0
|
13.7
|
0.5
|
|
CE1
|
P:HIS173
|
4.0
|
13.7
|
0.5
|
|
CD2
|
W:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
P:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
O:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
X:LEU169
|
4.0
|
13.7
|
1.0
|
|
CD2
|
O:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
W:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
X:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
P:HIS173
|
4.1
|
17.9
|
0.5
|
|
CD2
|
O:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
W:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
X:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD2
|
P:HIS173
|
4.2
|
13.1
|
0.5
|
|
CD1
|
W:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
O:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
P:LEU169
|
4.8
|
13.7
|
1.0
|
|
CD1
|
X:LEU169
|
4.8
|
13.7
|
1.0
|
|
ND1
|
O:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
W:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
X:HIS173
|
4.9
|
19.5
|
0.5
|
|
ND1
|
P:HIS173
|
4.9
|
19.5
|
0.5
|
|
CG
|
W:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
O:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
P:LEU169
|
5.0
|
12.8
|
1.0
|
|
CG
|
X:LEU169
|
5.0
|
12.8
|
1.0
|
|
Reference:
S.Nazarov,
I.Mohammed,
B.Kucukoglu,
A.Myasnikov,
H.Stahlberg.
Cryo-Em Structure of Mouse Heavy-Chain Apoferritin To Be Published.
Page generated: Thu Aug 7 22:31:32 2025
|
