Chlorine in PDB 9eq8: Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
Enzymatic activity of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
All present enzymatic activity of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes:
1.16.3.1;
Protein crystallography data
The structure of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes, PDB code: 9eq8
was solved by
Z.Bugg,
J.M.Bradley,
N.E.Le Brun,
A.M.Hemmings,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
40.87 /
1.48
|
Space group
|
F 4 3 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
182.77,
182.77,
182.77,
90,
90,
90
|
R / Rfree (%)
|
16.5 /
18.2
|
Other elements in 9eq8:
The structure of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
(pdb code 9eq8). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the
Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes, PDB code: 9eq8:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Chlorine binding site 1 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 1 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl215
b:21.1
occ:0.70
|
H
|
A:ASP84
|
2.3
|
19.2
|
1.0
|
HB3
|
A:GLN83
|
2.8
|
26.0
|
1.0
|
N
|
A:ASP84
|
3.2
|
16.0
|
1.0
|
HA
|
A:GLN83
|
3.2
|
20.8
|
1.0
|
CG
|
A:ASP84
|
3.6
|
16.4
|
1.0
|
OD1
|
A:ASP84
|
3.6
|
17.2
|
1.0
|
CB
|
A:GLN83
|
3.7
|
21.6
|
1.0
|
CA
|
A:GLN83
|
3.7
|
17.3
|
1.0
|
HB2
|
A:ASP84
|
3.7
|
19.7
|
1.0
|
OD2
|
A:ASP84
|
3.9
|
18.3
|
1.0
|
C
|
A:GLN83
|
3.9
|
16.6
|
1.0
|
CB
|
A:ASP84
|
4.0
|
16.4
|
1.0
|
CA
|
A:ASP84
|
4.2
|
15.2
|
1.0
|
HB2
|
A:GLN83
|
4.2
|
26.0
|
1.0
|
HE21
|
A:GLN83
|
4.3
|
47.1
|
1.0
|
HG2
|
A:GLN83
|
4.3
|
36.3
|
1.0
|
O
|
A:HOH332
|
4.6
|
20.0
|
1.0
|
O
|
A:HOH323
|
4.6
|
22.9
|
0.5
|
CG
|
A:GLN83
|
4.6
|
30.3
|
1.0
|
HA
|
A:ASP84
|
4.7
|
18.2
|
1.0
|
O
|
A:HOH376
|
4.8
|
26.4
|
1.0
|
MG
|
A:MG207
|
4.8
|
19.2
|
0.5
|
HB3
|
A:ASP84
|
5.0
|
19.7
|
1.0
|
|
Chlorine binding site 2 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 2 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl216
b:36.3
occ:0.72
|
O
|
A:HOH425
|
2.1
|
32.6
|
1.0
|
HG
|
A:SER95
|
2.7
|
25.1
|
1.0
|
HG3
|
A:PRO161
|
2.9
|
31.1
|
1.0
|
HB2
|
A:HIS98
|
3.0
|
23.6
|
1.0
|
OG
|
A:SER95
|
3.0
|
20.9
|
1.0
|
O
|
A:HOH454
|
3.1
|
44.1
|
1.0
|
HB3
|
A:SER95
|
3.2
|
22.2
|
1.0
|
HB3
|
A:GLU94
|
3.3
|
33.7
|
1.0
|
HB2
|
A:GLU94
|
3.6
|
33.7
|
1.0
|
CB
|
A:SER95
|
3.6
|
18.5
|
1.0
|
CG
|
A:PRO161
|
3.8
|
25.9
|
1.0
|
OE1
|
A:GLU94
|
3.9
|
42.9
|
1.0
|
CB
|
A:GLU94
|
3.9
|
28.1
|
1.0
|
CB
|
A:HIS98
|
3.9
|
19.7
|
1.0
|
HB3
|
A:HIS98
|
4.0
|
23.6
|
1.0
|
H
|
A:HIS98
|
4.2
|
21.0
|
1.0
|
HG2
|
A:PRO161
|
4.2
|
31.1
|
1.0
|
HB3
|
A:PRO161
|
4.2
|
32.8
|
1.0
|
O
|
A:HOH312
|
4.2
|
46.3
|
1.0
|
HB2
|
A:SER95
|
4.3
|
22.2
|
1.0
|
C
|
A:GLU94
|
4.4
|
21.4
|
1.0
|
N
|
A:SER95
|
4.4
|
20.9
|
1.0
|
CB
|
A:PRO161
|
4.5
|
27.3
|
1.0
|
HD3
|
A:PRO161
|
4.5
|
29.7
|
1.0
|
O
|
A:GLU94
|
4.6
|
19.9
|
1.0
|
CG
|
A:HIS98
|
4.6
|
21.0
|
1.0
|
H
|
A:SER95
|
4.6
|
25.1
|
1.0
|
CA
|
A:SER95
|
4.7
|
19.1
|
1.0
|
HB2
|
A:PRO161
|
4.7
|
32.8
|
1.0
|
HD1
|
A:HIS98
|
4.7
|
29.1
|
1.0
|
N
|
A:HIS98
|
4.8
|
17.5
|
1.0
|
CD
|
A:PRO161
|
4.8
|
24.8
|
1.0
|
CA
|
A:GLU94
|
4.8
|
23.8
|
1.0
|
CD
|
A:GLU94
|
4.8
|
42.3
|
1.0
|
HB3
|
A:LEU97
|
4.8
|
23.0
|
1.0
|
CA
|
A:HIS98
|
4.9
|
18.0
|
1.0
|
ND1
|
A:HIS98
|
4.9
|
24.3
|
1.0
|
CG
|
A:GLU94
|
4.9
|
33.9
|
1.0
|
|
Chlorine binding site 3 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 3 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl217
b:97.8
occ:1.00
|
O
|
A:HOH312
|
2.7
|
46.3
|
1.0
|
O
|
A:HOH305
|
2.9
|
54.0
|
1.0
|
HD1
|
A:HIS98
|
3.7
|
29.1
|
1.0
|
OE1
|
A:GLU101
|
4.0
|
37.6
|
1.0
|
ND1
|
A:HIS98
|
4.5
|
24.3
|
1.0
|
HE1
|
A:HIS98
|
4.7
|
30.5
|
1.0
|
O
|
A:HOH425
|
4.9
|
32.6
|
1.0
|
CE1
|
A:HIS98
|
5.0
|
25.4
|
1.0
|
CD
|
A:GLU101
|
5.0
|
32.0
|
1.0
|
|
Chlorine binding site 4 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 4 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl218
b:65.3
occ:1.00
|
HD21
|
A:ASN74
|
2.5
|
31.6
|
1.0
|
HA
|
A:ARG71
|
2.8
|
25.6
|
1.0
|
HG3
|
A:ARG71
|
3.1
|
29.8
|
1.0
|
HB2
|
A:ASN74
|
3.3
|
27.8
|
1.0
|
ND2
|
A:ASN74
|
3.4
|
26.3
|
1.0
|
HB2
|
A:ARG71
|
3.6
|
27.2
|
1.0
|
CA
|
A:ARG71
|
3.7
|
21.3
|
1.0
|
HB3
|
A:ASN74
|
3.7
|
27.8
|
1.0
|
CB
|
A:ASN74
|
3.8
|
23.2
|
1.0
|
CG
|
A:ARG71
|
3.9
|
24.8
|
1.0
|
CB
|
A:ARG71
|
3.9
|
22.7
|
1.0
|
HD22
|
A:ASN74
|
3.9
|
31.6
|
1.0
|
CG
|
A:ASN74
|
4.1
|
27.8
|
1.0
|
HH11
|
A:ARG71
|
4.3
|
58.2
|
1.0
|
HD2
|
A:ARG71
|
4.4
|
34.5
|
1.0
|
O
|
A:ARG71
|
4.4
|
17.9
|
1.0
|
HG2
|
A:ARG71
|
4.5
|
29.8
|
1.0
|
C
|
A:ARG71
|
4.6
|
16.7
|
1.0
|
N
|
A:ARG71
|
4.6
|
17.7
|
1.0
|
CD
|
A:ARG71
|
4.7
|
28.8
|
1.0
|
O
|
A:MET70
|
4.8
|
17.9
|
1.0
|
HB3
|
A:ARG71
|
4.8
|
27.2
|
1.0
|
HG3
|
A:GLN75
|
4.9
|
34.2
|
1.0
|
NH1
|
A:ARG71
|
5.0
|
48.5
|
1.0
|
|
Chlorine binding site 5 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 5 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl219
b:105.4
occ:1.00
|
O
|
A:HOH415
|
2.7
|
40.8
|
1.0
|
HA
|
A:GLN90
|
2.8
|
41.2
|
1.0
|
HB3
|
A:GLN90
|
3.1
|
44.3
|
1.0
|
HG2
|
A:GLN90
|
3.2
|
48.9
|
1.0
|
HE21
|
A:GLN90
|
3.4
|
54.8
|
1.0
|
CB
|
A:GLN90
|
3.6
|
36.9
|
1.0
|
CA
|
A:GLN90
|
3.6
|
34.4
|
1.0
|
CG
|
A:GLN90
|
3.8
|
40.7
|
1.0
|
H
|
A:ASP91
|
3.9
|
47.6
|
1.0
|
O
|
A:GLU89
|
3.9
|
39.7
|
1.0
|
NE2
|
A:GLN90
|
3.9
|
45.7
|
1.0
|
CD
|
A:GLN90
|
4.2
|
43.8
|
1.0
|
H
|
A:ASP92
|
4.3
|
48.2
|
1.0
|
N
|
A:ASP91
|
4.5
|
39.7
|
1.0
|
HE22
|
A:GLN90
|
4.5
|
54.8
|
1.0
|
HB2
|
A:GLN90
|
4.5
|
44.3
|
1.0
|
N
|
A:GLN90
|
4.6
|
34.4
|
1.0
|
C
|
A:GLN90
|
4.6
|
34.3
|
1.0
|
C
|
A:GLU89
|
4.6
|
41.0
|
1.0
|
HG3
|
A:GLN90
|
4.6
|
48.9
|
1.0
|
O
|
A:HOH348
|
4.7
|
62.8
|
1.0
|
O
|
A:ASP92
|
4.8
|
33.3
|
1.0
|
HB3
|
A:ASP92
|
4.8
|
42.2
|
1.0
|
|
Chlorine binding site 6 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 6 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl220
b:34.0
occ:0.53
|
H
|
A:GLU167
|
2.2
|
22.4
|
1.0
|
O
|
A:ALA163
|
2.5
|
30.6
|
1.0
|
HG3
|
A:GLU167
|
2.7
|
26.6
|
1.0
|
HB3
|
A:ALA166
|
2.7
|
23.8
|
1.0
|
HB2
|
A:GLU167
|
3.0
|
23.3
|
1.0
|
N
|
A:GLU167
|
3.0
|
18.7
|
1.0
|
H
|
A:ALA166
|
3.2
|
22.4
|
1.0
|
HA
|
A:ALA160
|
3.2
|
23.8
|
1.0
|
HA
|
A:PRO161
|
3.2
|
32.6
|
1.0
|
O
|
A:PRO161
|
3.2
|
31.4
|
1.0
|
CG
|
A:GLU167
|
3.4
|
22.1
|
1.0
|
CB
|
A:GLU167
|
3.6
|
19.4
|
1.0
|
C
|
A:ALA163
|
3.6
|
27.9
|
1.0
|
O
|
A:HOH339
|
3.6
|
24.4
|
1.0
|
CB
|
A:ALA166
|
3.6
|
19.8
|
1.0
|
N
|
A:ALA166
|
3.6
|
18.6
|
1.0
|
C
|
A:PRO161
|
3.7
|
30.3
|
1.0
|
HA2
|
A:GLY164
|
3.8
|
30.8
|
1.0
|
CA
|
A:ALA166
|
3.9
|
17.7
|
1.0
|
CA
|
A:PRO161
|
3.9
|
27.1
|
1.0
|
CA
|
A:GLU167
|
3.9
|
17.6
|
1.0
|
C
|
A:ALA166
|
3.9
|
19.3
|
1.0
|
HB2
|
A:ALA160
|
4.0
|
23.1
|
1.0
|
CA
|
A:ALA160
|
4.1
|
19.8
|
1.0
|
CD
|
A:GLU167
|
4.1
|
25.2
|
1.0
|
HB2
|
A:ALA166
|
4.1
|
23.8
|
1.0
|
C
|
A:GLY164
|
4.2
|
25.0
|
1.0
|
HB1
|
A:ALA160
|
4.2
|
23.1
|
1.0
|
HG2
|
A:GLU167
|
4.2
|
26.6
|
1.0
|
HB1
|
A:ALA166
|
4.3
|
23.8
|
1.0
|
O
|
A:GLY164
|
4.3
|
25.1
|
1.0
|
CA
|
A:GLY164
|
4.3
|
25.7
|
1.0
|
H
|
A:ALA163
|
4.3
|
29.1
|
1.0
|
CB
|
A:ALA160
|
4.3
|
19.2
|
1.0
|
H
|
A:TYR168
|
4.3
|
21.0
|
1.0
|
HB3
|
A:ALA163
|
4.4
|
30.1
|
1.0
|
N
|
A:ALA163
|
4.4
|
24.3
|
1.0
|
N
|
A:GLY164
|
4.4
|
27.5
|
1.0
|
HB3
|
A:GLU167
|
4.5
|
23.3
|
1.0
|
HA
|
A:GLU167
|
4.5
|
21.2
|
1.0
|
OE1
|
A:GLU167
|
4.5
|
27.5
|
1.0
|
C
|
A:LEU165
|
4.6
|
19.7
|
1.0
|
N
|
A:ASP162
|
4.6
|
30.1
|
1.0
|
CA
|
A:ALA163
|
4.6
|
26.2
|
1.0
|
N
|
A:LEU165
|
4.6
|
21.4
|
1.0
|
OE2
|
A:GLU167
|
4.7
|
25.8
|
1.0
|
N
|
A:ALA160
|
4.8
|
19.6
|
1.0
|
C
|
A:ASP162
|
4.9
|
29.4
|
1.0
|
HA
|
A:ALA166
|
4.9
|
21.2
|
1.0
|
H
|
A:LEU165
|
4.9
|
25.7
|
1.0
|
N
|
A:PRO161
|
4.9
|
24.1
|
1.0
|
N
|
A:TYR168
|
5.0
|
17.4
|
1.0
|
CB
|
A:ALA163
|
5.0
|
25.0
|
1.0
|
|
Chlorine binding site 7 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 7 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl221
b:46.6
occ:0.25
|
FE
|
A:FE203
|
2.2
|
40.2
|
0.2
|
NE2
|
A:HIS173
|
3.2
|
20.6
|
1.0
|
HD2
|
A:HIS173
|
3.6
|
25.8
|
1.0
|
CD2
|
A:HIS173
|
3.8
|
21.5
|
1.0
|
O
|
A:HOH477
|
4.3
|
54.6
|
1.0
|
CE1
|
A:HIS173
|
4.3
|
29.1
|
1.0
|
CL
|
A:CL222
|
4.4
|
37.7
|
0.2
|
O
|
A:HOH475
|
4.5
|
47.3
|
1.0
|
HE1
|
A:HIS173
|
4.6
|
34.9
|
1.0
|
|
Chlorine binding site 8 out
of 8 in 9eq8
Go back to
Chlorine Binding Sites List in 9eq8
Chlorine binding site 8 out
of 8 in the Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 8 of Iron Loaded Mitochondrial Ferritin Exposed to Oxygen For 2 Minutes within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl222
b:37.7
occ:0.25
|
FE
|
A:FE203
|
2.2
|
40.2
|
0.2
|
HE1
|
A:HIS173
|
2.4
|
34.9
|
1.0
|
CE1
|
A:HIS173
|
3.0
|
29.1
|
1.0
|
NE2
|
A:HIS173
|
3.2
|
20.6
|
1.0
|
HD22
|
A:LEU169
|
3.4
|
25.6
|
1.0
|
HD21
|
A:LEU169
|
3.8
|
25.6
|
1.0
|
CD2
|
A:LEU169
|
4.0
|
21.4
|
1.0
|
ND1
|
A:HIS173
|
4.2
|
30.5
|
1.0
|
HD23
|
A:LEU169
|
4.3
|
25.6
|
1.0
|
CL
|
A:CL221
|
4.4
|
46.6
|
0.2
|
CD2
|
A:HIS173
|
4.5
|
21.5
|
1.0
|
HD1
|
A:HIS173
|
4.6
|
36.6
|
1.0
|
CG
|
A:HIS173
|
5.0
|
23.8
|
1.0
|
|
Reference:
J.M.Bradley,
Z.Bugg,
G.R.Moore,
A.M.Hemmings,
N.Le-Brun.
The Core Nucleation Site of Human Mitochondrial Ferritin: Observation of the Nascent Mineral To Be Published.
Page generated: Sun Jul 13 16:32:43 2025
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