Zinc in PDB 2cn6: Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
Enzymatic activity of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
All present enzymatic activity of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions:
1.16.3.1;
Protein crystallography data
The structure of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions, PDB code: 2cn6
was solved by
L.Toussaint,
R.R.Crichton,
J.P.Declercq,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
103.14 /
2.20
|
Space group
|
F 4 3 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
178.453,
178.453,
178.453,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.5 /
23
|
Other elements in 2cn6:
The structure of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
(pdb code 2cn6). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 7 binding sites of Zinc where determined in the
Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions, PDB code: 2cn6:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
Zinc binding site 1 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 1 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn210
b:32.5
occ:0.50
|
OE1
|
A:GLN86
|
2.1
|
34.9
|
1.0
|
CD
|
A:GLN86
|
3.2
|
34.9
|
1.0
|
NE2
|
A:GLN86
|
3.7
|
33.9
|
1.0
|
O
|
A:HOH2046
|
4.1
|
25.8
|
1.0
|
CG
|
A:GLN86
|
4.5
|
27.8
|
1.0
|
CB
|
A:GLN86
|
4.8
|
26.0
|
1.0
|
CA
|
A:GLN86
|
4.8
|
25.9
|
1.0
|
N
|
A:LYS87
|
4.9
|
26.6
|
1.0
|
|
Zinc binding site 2 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 2 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn212
b:52.4
occ:1.00
|
OE1
|
A:GLU27
|
2.1
|
37.9
|
1.0
|
OE1
|
A:GLU62
|
2.1
|
35.9
|
1.0
|
ND1
|
A:HIS65
|
2.5
|
39.0
|
1.0
|
CD
|
A:GLU27
|
3.1
|
33.2
|
1.0
|
CD
|
A:GLU62
|
3.2
|
35.4
|
1.0
|
CE1
|
A:HIS65
|
3.4
|
40.4
|
1.0
|
ZN
|
A:ZN213
|
3.4
|
74.5
|
1.0
|
OE2
|
A:GLU27
|
3.4
|
39.1
|
1.0
|
OE2
|
A:GLU62
|
3.6
|
46.3
|
1.0
|
CG
|
A:HIS65
|
3.6
|
33.0
|
1.0
|
CB
|
A:HIS65
|
3.9
|
29.4
|
1.0
|
OE1
|
A:GLN141
|
4.0
|
47.6
|
1.0
|
CG1
|
A:VAL110
|
4.3
|
36.7
|
1.0
|
CG
|
A:GLU27
|
4.4
|
28.4
|
1.0
|
CG
|
A:GLU62
|
4.5
|
30.6
|
1.0
|
CA
|
A:GLU62
|
4.5
|
28.3
|
1.0
|
NE2
|
A:HIS65
|
4.6
|
42.6
|
1.0
|
CB
|
A:GLU62
|
4.7
|
27.7
|
1.0
|
CD2
|
A:HIS65
|
4.7
|
36.7
|
1.0
|
CB
|
A:GLU27
|
4.7
|
24.8
|
1.0
|
CA
|
A:GLU27
|
5.0
|
24.4
|
1.0
|
CD
|
A:GLN141
|
5.0
|
46.6
|
1.0
|
|
Zinc binding site 3 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 3 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn213
b:74.5
occ:1.00
|
OE2
|
A:GLU62
|
2.1
|
46.3
|
1.0
|
CD
|
A:GLU62
|
3.0
|
35.4
|
1.0
|
OD1
|
A:ASP107
|
3.2
|
40.8
|
1.0
|
OE1
|
A:GLU62
|
3.2
|
35.9
|
1.0
|
O
|
A:HOH2032
|
3.2
|
56.5
|
1.0
|
OD2
|
A:ASP107
|
3.2
|
47.4
|
1.0
|
ZN
|
A:ZN212
|
3.4
|
52.4
|
1.0
|
CG
|
A:ASP107
|
3.5
|
38.6
|
1.0
|
OE1
|
A:GLN141
|
3.6
|
47.6
|
1.0
|
NE2
|
A:GLN141
|
3.9
|
47.6
|
1.0
|
CD
|
A:GLN141
|
4.1
|
46.6
|
1.0
|
CG
|
A:GLU62
|
4.3
|
30.6
|
1.0
|
CE2
|
A:TYR34
|
4.5
|
30.5
|
1.0
|
CB
|
A:ASP107
|
4.8
|
34.0
|
1.0
|
CE1
|
A:HIS65
|
4.8
|
40.4
|
1.0
|
OH
|
A:TYR34
|
4.9
|
38.0
|
1.0
|
ND1
|
A:HIS65
|
4.9
|
39.0
|
1.0
|
|
Zinc binding site 4 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 4 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn214
b:45.2
occ:0.25
|
O
|
A:HOH2068
|
2.3
|
18.6
|
0.2
|
NE2
|
A:HIS173
|
2.3
|
41.9
|
1.0
|
CE1
|
A:HIS173
|
2.7
|
40.5
|
1.0
|
CD2
|
A:HIS173
|
3.6
|
35.1
|
1.0
|
ND1
|
A:HIS173
|
4.0
|
39.7
|
1.0
|
CG
|
A:HIS173
|
4.5
|
33.9
|
1.0
|
CD2
|
A:LEU169
|
4.9
|
22.2
|
1.0
|
|
Zinc binding site 5 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 5 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn215
b:43.2
occ:1.00
|
OE1
|
A:GLU67
|
2.1
|
35.0
|
1.0
|
OE2
|
A:GLU64
|
2.3
|
44.5
|
1.0
|
OE1
|
A:GLU64
|
2.5
|
41.8
|
1.0
|
CD
|
A:GLU64
|
2.8
|
41.0
|
1.0
|
CD
|
A:GLU67
|
2.8
|
29.0
|
1.0
|
OE2
|
A:GLU67
|
2.8
|
29.5
|
1.0
|
O
|
A:HOH2035
|
4.2
|
60.4
|
1.0
|
CG
|
A:GLU67
|
4.2
|
28.5
|
1.0
|
CG
|
A:GLU64
|
4.3
|
34.4
|
1.0
|
CB
|
A:GLU67
|
4.7
|
25.6
|
1.0
|
NE
|
A:ARG63
|
4.9
|
37.6
|
1.0
|
NH2
|
A:ARG63
|
4.9
|
32.6
|
1.0
|
CA
|
A:GLU64
|
5.0
|
30.0
|
1.0
|
|
Zinc binding site 6 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 6 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn216
b:61.6
occ:1.00
|
NE2
|
A:HIS118
|
2.1
|
44.2
|
1.0
|
SG
|
A:CYS130
|
2.3
|
47.0
|
1.0
|
OE2
|
A:GLU134
|
2.7
|
56.0
|
1.0
|
CE1
|
A:HIS118
|
2.8
|
45.1
|
1.0
|
CD2
|
A:HIS118
|
3.2
|
43.3
|
1.0
|
CB
|
A:CYS130
|
3.2
|
43.7
|
1.0
|
ZN
|
A:ZN220
|
3.3
|
72.7
|
1.0
|
CD
|
A:GLU134
|
3.9
|
56.1
|
1.0
|
ND1
|
A:HIS118
|
3.9
|
44.7
|
1.0
|
OG1
|
A:THR122
|
4.0
|
49.5
|
1.0
|
O
|
A:HOH2069
|
4.1
|
53.9
|
0.3
|
CG
|
A:HIS118
|
4.1
|
43.6
|
1.0
|
CA
|
A:CYS130
|
4.3
|
43.9
|
1.0
|
OE1
|
A:GLU134
|
4.5
|
58.2
|
1.0
|
C
|
A:CYS130
|
4.7
|
44.0
|
1.0
|
O
|
A:CYS130
|
4.8
|
43.2
|
1.0
|
CG
|
A:GLU134
|
4.9
|
53.6
|
1.0
|
|
Zinc binding site 7 out
of 7 in 2cn6
Go back to
Zinc Binding Sites List in 2cn6
Zinc binding site 7 out
of 7 in the Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Recombinant Human H Ferritin, K86Q and E107D Mutant, Soaked with Zn Ions within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn220
b:72.7
occ:1.00
|
SG
|
A:CYS130
|
2.4
|
47.0
|
1.0
|
O
|
A:HOH2069
|
2.7
|
53.9
|
0.3
|
ZN
|
A:ZN216
|
3.3
|
61.6
|
1.0
|
CB
|
A:CYS130
|
3.6
|
43.7
|
1.0
|
OE2
|
A:GLU134
|
4.3
|
56.0
|
1.0
|
O
|
A:PRO127
|
4.5
|
41.5
|
1.0
|
CA
|
A:PRO127
|
4.5
|
41.5
|
1.0
|
OE1
|
A:GLU134
|
4.5
|
58.2
|
1.0
|
CB
|
A:PRO127
|
4.6
|
41.8
|
1.0
|
N
|
A:ASP131
|
4.7
|
44.4
|
1.0
|
CA
|
A:CYS130
|
4.8
|
43.9
|
1.0
|
CD
|
A:GLU134
|
4.8
|
56.1
|
1.0
|
C
|
A:CYS130
|
4.8
|
44.0
|
1.0
|
|
Reference:
L.Toussaint,
L.Bertrand,
L.Hue,
R.R.Crichton,
J.P.Declercq.
High-Resolution X-Ray Structures of Human Apoferritin H-Chain Mutants Correlated with Their Activity and Metal-Binding Sites. J.Mol.Biol. V. 365 440 2007.
ISSN: ISSN 0022-2836
PubMed: 17070541
DOI: 10.1016/J.JMB.2006.10.010
Page generated: Wed Oct 16 22:26:48 2024
|