Zinc in PDB 6vbs: The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
Enzymatic activity of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
All present enzymatic activity of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.:
1.15.1.1;
Protein crystallography data
The structure of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit., PDB code: 6vbs
was solved by
K.A.Satyshur,
K.T.Forest,
P.W.Newhouse,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
35.88 /
1.70
|
|
Space group
|
C 1 2 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
152.838,
69.474,
95.288,
90,
116.89,
90
|
|
R / Rfree (%)
|
17.9 /
21.9
|
Other elements in 6vbs:
The structure of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
(pdb code 6vbs). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 6 binding sites of Zinc where determined in the
The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit., PDB code: 6vbs:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
Zinc binding site 1 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 1 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn202
b:11.2
occ:1.00
|
OD1
|
A:ASP95
|
1.9
|
10.6
|
1.0
|
|
ND1
|
A:HIS83
|
2.0
|
15.6
|
1.0
|
|
ND1
|
A:HIS92
|
2.0
|
13.7
|
1.0
|
|
ND1
|
A:HIS74
|
2.0
|
15.1
|
1.0
|
|
CG
|
A:ASP95
|
2.7
|
17.4
|
1.0
|
|
HB2
|
A:HIS92
|
2.9
|
20.3
|
1.0
|
|
CE1
|
A:HIS83
|
2.9
|
21.0
|
1.0
|
|
CE1
|
A:HIS92
|
2.9
|
20.0
|
1.0
|
|
OD2
|
A:ASP95
|
3.0
|
11.2
|
1.0
|
|
CE1
|
A:HIS74
|
3.0
|
18.4
|
1.0
|
|
HE1
|
A:HIS83
|
3.0
|
25.2
|
1.0
|
|
CG
|
A:HIS83
|
3.1
|
18.7
|
1.0
|
|
CG
|
A:HIS92
|
3.1
|
16.9
|
1.0
|
|
HE1
|
A:HIS92
|
3.1
|
24.0
|
1.0
|
|
CG
|
A:HIS74
|
3.1
|
16.4
|
1.0
|
|
HE1
|
A:HIS74
|
3.1
|
22.0
|
1.0
|
|
HA
|
A:HIS83
|
3.1
|
23.2
|
1.0
|
|
HB2
|
A:HIS83
|
3.2
|
27.3
|
1.0
|
|
HB3
|
A:HIS74
|
3.2
|
20.6
|
1.0
|
|
CB
|
A:HIS92
|
3.4
|
16.9
|
1.0
|
|
HB2
|
A:HIS74
|
3.5
|
20.6
|
1.0
|
|
CB
|
A:HIS74
|
3.5
|
17.2
|
1.0
|
|
CB
|
A:HIS83
|
3.5
|
22.8
|
1.0
|
|
CA
|
A:HIS83
|
3.8
|
19.4
|
1.0
|
|
HB3
|
A:HIS92
|
3.8
|
20.3
|
1.0
|
|
HD22
|
A:LEU143
|
3.9
|
32.3
|
1.0
|
|
NE2
|
A:HIS83
|
4.0
|
17.3
|
1.0
|
|
NE2
|
A:HIS92
|
4.1
|
18.8
|
1.0
|
|
NE2
|
A:HIS74
|
4.1
|
20.5
|
1.0
|
|
CD2
|
A:HIS83
|
4.1
|
18.8
|
1.0
|
|
CD2
|
A:HIS92
|
4.2
|
17.5
|
1.0
|
|
CB
|
A:ASP95
|
4.2
|
17.6
|
1.0
|
|
CD2
|
A:HIS74
|
4.2
|
20.6
|
1.0
|
|
HA
|
A:ASP95
|
4.3
|
19.8
|
1.0
|
|
H
|
A:HIS92
|
4.4
|
17.2
|
1.0
|
|
HB3
|
A:HIS83
|
4.4
|
27.3
|
1.0
|
|
HB3
|
A:ASP95
|
4.6
|
21.1
|
1.0
|
|
H
|
A:LEU84
|
4.6
|
18.2
|
1.0
|
|
HD2
|
A:HIS49
|
4.6
|
22.6
|
1.0
|
|
HA
|
A:LEU143
|
4.7
|
28.2
|
1.0
|
|
HD23
|
A:LEU143
|
4.7
|
32.3
|
1.0
|
|
CA
|
A:ASP95
|
4.7
|
16.5
|
1.0
|
|
CD2
|
A:LEU143
|
4.7
|
26.9
|
1.0
|
|
HB2
|
A:ASP95
|
4.8
|
21.1
|
1.0
|
|
CA
|
A:HIS92
|
4.8
|
18.9
|
1.0
|
|
CD2
|
A:HIS49
|
4.8
|
18.8
|
1.0
|
|
HB3
|
A:HIS49
|
4.8
|
19.8
|
1.0
|
|
N
|
A:HIS83
|
4.8
|
18.1
|
1.0
|
|
HE2
|
A:HIS83
|
4.8
|
20.8
|
1.0
|
|
HE2
|
A:HIS92
|
4.8
|
22.6
|
1.0
|
|
O
|
A:LYS82
|
4.8
|
14.3
|
1.0
|
|
C
|
A:HIS83
|
4.8
|
19.7
|
1.0
|
|
HE2
|
A:HIS74
|
4.9
|
24.5
|
1.0
|
|
H
|
A:GLY85
|
4.9
|
17.4
|
1.0
|
|
N
|
A:ASP95
|
4.9
|
13.6
|
1.0
|
|
H
|
A:ASP95
|
4.9
|
16.3
|
1.0
|
|
N
|
A:HIS92
|
4.9
|
14.4
|
1.0
|
|
CA
|
A:HIS74
|
5.0
|
16.6
|
1.0
|
|
Zinc binding site 2 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 2 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn201
b:10.4
occ:1.00
|
OD1
|
B:ASP95
|
1.9
|
9.9
|
1.0
|
|
ND1
|
B:HIS74
|
2.0
|
12.2
|
1.0
|
|
ND1
|
B:HIS83
|
2.0
|
13.2
|
1.0
|
|
ND1
|
B:HIS92
|
2.0
|
16.6
|
1.0
|
|
CG
|
B:ASP95
|
2.8
|
15.4
|
1.0
|
|
HB2
|
B:HIS92
|
2.9
|
18.8
|
1.0
|
|
CE1
|
B:HIS74
|
2.9
|
17.1
|
1.0
|
|
CE1
|
B:HIS83
|
2.9
|
17.9
|
1.0
|
|
CE1
|
B:HIS92
|
3.0
|
22.4
|
1.0
|
|
OD2
|
B:ASP95
|
3.0
|
10.9
|
1.0
|
|
HE1
|
B:HIS74
|
3.1
|
20.5
|
1.0
|
|
HE1
|
B:HIS83
|
3.1
|
21.5
|
1.0
|
|
CG
|
B:HIS83
|
3.1
|
17.8
|
1.0
|
|
CG
|
B:HIS74
|
3.1
|
16.9
|
1.0
|
|
HE1
|
B:HIS92
|
3.1
|
26.8
|
1.0
|
|
CG
|
B:HIS92
|
3.1
|
18.0
|
1.0
|
|
HB2
|
B:HIS83
|
3.1
|
22.8
|
1.0
|
|
HA
|
B:HIS83
|
3.2
|
18.5
|
1.0
|
|
HB3
|
B:HIS74
|
3.3
|
21.3
|
1.0
|
|
HB2
|
B:HIS74
|
3.4
|
21.3
|
1.0
|
|
CB
|
B:HIS92
|
3.4
|
15.7
|
1.0
|
|
CB
|
B:HIS83
|
3.5
|
19.0
|
1.0
|
|
CB
|
B:HIS74
|
3.5
|
17.8
|
1.0
|
|
HB3
|
B:HIS92
|
3.8
|
18.8
|
1.0
|
|
CA
|
B:HIS83
|
3.8
|
15.4
|
1.0
|
|
HD23
|
B:LEU143
|
3.9
|
25.6
|
1.0
|
|
NE2
|
B:HIS74
|
4.1
|
16.9
|
1.0
|
|
NE2
|
B:HIS83
|
4.1
|
13.9
|
1.0
|
|
NE2
|
B:HIS92
|
4.1
|
16.5
|
1.0
|
|
CD2
|
B:HIS83
|
4.2
|
15.4
|
1.0
|
|
CD2
|
B:HIS74
|
4.2
|
18.8
|
1.0
|
|
CB
|
B:ASP95
|
4.2
|
15.4
|
1.0
|
|
CD2
|
B:HIS92
|
4.2
|
18.5
|
1.0
|
|
HA
|
B:ASP95
|
4.3
|
16.9
|
1.0
|
|
HB3
|
B:HIS83
|
4.4
|
22.8
|
1.0
|
|
H
|
B:HIS92
|
4.4
|
16.9
|
1.0
|
|
HD2
|
B:HIS49
|
4.6
|
21.5
|
1.0
|
|
H
|
B:LEU84
|
4.6
|
18.5
|
1.0
|
|
HB3
|
B:ASP95
|
4.6
|
18.5
|
1.0
|
|
CA
|
B:ASP95
|
4.7
|
14.1
|
1.0
|
|
HA
|
B:LEU143
|
4.7
|
22.6
|
1.0
|
|
CD2
|
B:HIS49
|
4.7
|
17.9
|
1.0
|
|
HD21
|
B:LEU143
|
4.7
|
25.6
|
1.0
|
|
CD2
|
B:LEU143
|
4.7
|
21.3
|
1.0
|
|
HB2
|
B:ASP95
|
4.8
|
18.5
|
1.0
|
|
CA
|
B:HIS92
|
4.8
|
16.0
|
1.0
|
|
N
|
B:HIS83
|
4.8
|
11.9
|
1.0
|
|
HB3
|
B:HIS49
|
4.8
|
22.2
|
1.0
|
|
HE2
|
B:HIS74
|
4.8
|
20.2
|
1.0
|
|
HE2
|
B:HIS83
|
4.8
|
16.6
|
1.0
|
|
C
|
B:HIS83
|
4.8
|
18.1
|
1.0
|
|
H
|
B:GLY85
|
4.9
|
15.8
|
1.0
|
|
HE2
|
B:HIS92
|
4.9
|
19.8
|
1.0
|
|
N
|
B:ASP95
|
4.9
|
12.5
|
1.0
|
|
O
|
B:LYS82
|
4.9
|
12.6
|
1.0
|
|
H
|
B:ASP95
|
4.9
|
14.9
|
1.0
|
|
N
|
B:HIS92
|
5.0
|
14.1
|
1.0
|
|
Zinc binding site 3 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 3 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn201
b:10.7
occ:1.00
|
OD1
|
C:ASP95
|
1.9
|
9.5
|
1.0
|
|
ND1
|
C:HIS83
|
2.0
|
16.5
|
1.0
|
|
ND1
|
C:HIS74
|
2.0
|
12.6
|
1.0
|
|
ND1
|
C:HIS92
|
2.1
|
17.7
|
1.0
|
|
CG
|
C:ASP95
|
2.7
|
18.7
|
1.0
|
|
HB2
|
C:HIS92
|
2.8
|
17.5
|
1.0
|
|
CE1
|
C:HIS83
|
2.9
|
16.8
|
1.0
|
|
OD2
|
C:ASP95
|
2.9
|
8.6
|
1.0
|
|
CE1
|
C:HIS74
|
2.9
|
19.7
|
1.0
|
|
CE1
|
C:HIS92
|
3.0
|
19.1
|
1.0
|
|
HE1
|
C:HIS83
|
3.0
|
20.1
|
1.0
|
|
HE1
|
C:HIS74
|
3.1
|
23.6
|
1.0
|
|
CG
|
C:HIS83
|
3.1
|
19.5
|
1.0
|
|
CG
|
C:HIS92
|
3.1
|
17.4
|
1.0
|
|
HA
|
C:HIS83
|
3.1
|
22.6
|
1.0
|
|
CG
|
C:HIS74
|
3.1
|
18.6
|
1.0
|
|
HE1
|
C:HIS92
|
3.2
|
22.9
|
1.0
|
|
HB2
|
C:HIS83
|
3.2
|
23.5
|
1.0
|
|
HB3
|
C:HIS74
|
3.3
|
19.6
|
1.0
|
|
CB
|
C:HIS92
|
3.4
|
14.6
|
1.0
|
|
HB2
|
C:HIS74
|
3.5
|
19.6
|
1.0
|
|
CB
|
C:HIS83
|
3.5
|
19.6
|
1.0
|
|
CB
|
C:HIS74
|
3.5
|
16.4
|
1.0
|
|
HB3
|
C:HIS92
|
3.8
|
17.5
|
1.0
|
|
CA
|
C:HIS83
|
3.8
|
18.9
|
1.0
|
|
HD21
|
C:LEU143
|
3.8
|
30.5
|
1.0
|
|
NE2
|
C:HIS83
|
4.0
|
15.8
|
1.0
|
|
NE2
|
C:HIS74
|
4.1
|
15.7
|
1.0
|
|
CD2
|
C:HIS83
|
4.1
|
17.0
|
1.0
|
|
NE2
|
C:HIS92
|
4.1
|
15.4
|
1.0
|
|
CB
|
C:ASP95
|
4.2
|
17.2
|
1.0
|
|
CD2
|
C:HIS74
|
4.2
|
19.2
|
1.0
|
|
CD2
|
C:HIS92
|
4.2
|
17.9
|
1.0
|
|
HA
|
C:ASP95
|
4.3
|
18.1
|
1.0
|
|
H
|
C:HIS92
|
4.4
|
18.5
|
1.0
|
|
HB3
|
C:HIS83
|
4.4
|
23.5
|
1.0
|
|
HD22
|
C:LEU143
|
4.5
|
30.5
|
1.0
|
|
HD2
|
C:HIS49
|
4.6
|
24.4
|
1.0
|
|
HB3
|
C:ASP95
|
4.6
|
20.6
|
1.0
|
|
CD2
|
C:LEU143
|
4.6
|
25.4
|
1.0
|
|
H
|
C:LEU84
|
4.6
|
19.5
|
1.0
|
|
HA
|
C:LEU143
|
4.6
|
30.7
|
1.0
|
|
CA
|
C:ASP95
|
4.7
|
15.1
|
1.0
|
|
N
|
C:HIS83
|
4.7
|
19.0
|
1.0
|
|
HB2
|
C:ASP95
|
4.7
|
20.6
|
1.0
|
|
CA
|
C:HIS92
|
4.8
|
18.7
|
1.0
|
|
CD2
|
C:HIS49
|
4.8
|
20.4
|
1.0
|
|
HB3
|
C:HIS49
|
4.8
|
20.9
|
1.0
|
|
HE2
|
C:HIS83
|
4.8
|
19.0
|
1.0
|
|
C
|
C:HIS83
|
4.8
|
20.1
|
1.0
|
|
HE2
|
C:HIS74
|
4.8
|
18.9
|
1.0
|
|
O
|
C:LYS82
|
4.8
|
13.1
|
1.0
|
|
H
|
C:GLY85
|
4.9
|
19.6
|
1.0
|
|
N
|
C:ASP95
|
4.9
|
12.2
|
1.0
|
|
HE2
|
C:HIS92
|
4.9
|
18.5
|
1.0
|
|
H
|
C:ASP95
|
4.9
|
14.7
|
1.0
|
|
HB3
|
C:LEU143
|
5.0
|
21.9
|
1.0
|
|
N
|
C:HIS92
|
5.0
|
15.5
|
1.0
|
|
Zinc binding site 4 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 4 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn201
b:11.6
occ:1.00
|
OD1
|
D:ASP95
|
1.9
|
7.3
|
1.0
|
|
ND1
|
D:HIS74
|
2.0
|
12.7
|
1.0
|
|
ND1
|
D:HIS83
|
2.0
|
16.3
|
1.0
|
|
ND1
|
D:HIS92
|
2.1
|
14.7
|
1.0
|
|
CG
|
D:ASP95
|
2.7
|
17.1
|
1.0
|
|
CE1
|
D:HIS74
|
2.9
|
21.4
|
1.0
|
|
HB2
|
D:HIS92
|
2.9
|
18.8
|
1.0
|
|
CE1
|
D:HIS83
|
2.9
|
18.2
|
1.0
|
|
OD2
|
D:ASP95
|
2.9
|
13.4
|
1.0
|
|
CE1
|
D:HIS92
|
3.0
|
17.3
|
1.0
|
|
HE1
|
D:HIS74
|
3.0
|
25.6
|
1.0
|
|
HE1
|
D:HIS83
|
3.0
|
21.9
|
1.0
|
|
CG
|
D:HIS83
|
3.1
|
18.2
|
1.0
|
|
CG
|
D:HIS74
|
3.1
|
13.0
|
1.0
|
|
CG
|
D:HIS92
|
3.1
|
15.8
|
1.0
|
|
HE1
|
D:HIS92
|
3.1
|
20.7
|
1.0
|
|
HB2
|
D:HIS83
|
3.2
|
28.5
|
1.0
|
|
HA
|
D:HIS83
|
3.2
|
25.1
|
1.0
|
|
HB3
|
D:HIS74
|
3.2
|
20.5
|
1.0
|
|
CB
|
D:HIS92
|
3.5
|
15.7
|
1.0
|
|
CB
|
D:HIS83
|
3.5
|
23.8
|
1.0
|
|
CB
|
D:HIS74
|
3.5
|
17.1
|
1.0
|
|
HB2
|
D:HIS74
|
3.5
|
20.5
|
1.0
|
|
HD21
|
D:LEU143
|
3.8
|
25.2
|
1.0
|
|
HB3
|
D:HIS92
|
3.8
|
18.8
|
1.0
|
|
CA
|
D:HIS83
|
3.8
|
21.0
|
1.0
|
|
NE2
|
D:HIS74
|
4.0
|
17.2
|
1.0
|
|
NE2
|
D:HIS83
|
4.1
|
15.9
|
1.0
|
|
NE2
|
D:HIS92
|
4.1
|
15.6
|
1.0
|
|
CD2
|
D:HIS83
|
4.2
|
16.5
|
1.0
|
|
CD2
|
D:HIS74
|
4.2
|
19.0
|
1.0
|
|
CB
|
D:ASP95
|
4.2
|
19.5
|
1.0
|
|
CD2
|
D:HIS92
|
4.2
|
17.2
|
1.0
|
|
HA
|
D:ASP95
|
4.3
|
17.7
|
1.0
|
|
HB3
|
D:HIS83
|
4.4
|
28.5
|
1.0
|
|
H
|
D:HIS92
|
4.4
|
14.6
|
1.0
|
|
HA
|
D:LEU143
|
4.5
|
27.1
|
1.0
|
|
HB3
|
D:ASP95
|
4.6
|
23.3
|
1.0
|
|
HD2
|
D:HIS49
|
4.6
|
24.8
|
1.0
|
|
H
|
D:LEU84
|
4.6
|
17.5
|
1.0
|
|
CD2
|
D:LEU143
|
4.6
|
21.1
|
1.0
|
|
HD22
|
D:LEU143
|
4.7
|
25.2
|
1.0
|
|
CA
|
D:ASP95
|
4.7
|
14.7
|
1.0
|
|
HB2
|
D:ASP95
|
4.8
|
23.3
|
1.0
|
|
O
|
D:LYS82
|
4.8
|
13.9
|
1.0
|
|
CD2
|
D:HIS49
|
4.8
|
20.7
|
1.0
|
|
HB3
|
D:HIS49
|
4.8
|
19.4
|
1.0
|
|
N
|
D:HIS83
|
4.8
|
17.3
|
1.0
|
|
CA
|
D:HIS92
|
4.8
|
16.2
|
1.0
|
|
HE2
|
D:HIS74
|
4.8
|
20.6
|
1.0
|
|
HE2
|
D:HIS83
|
4.8
|
19.0
|
1.0
|
|
C
|
D:HIS83
|
4.9
|
20.9
|
1.0
|
|
HE2
|
D:HIS92
|
4.9
|
18.7
|
1.0
|
|
N
|
D:ASP95
|
4.9
|
10.1
|
1.0
|
|
H
|
D:GLY85
|
4.9
|
20.6
|
1.0
|
|
H
|
D:ASP95
|
5.0
|
12.1
|
1.0
|
|
N
|
D:HIS92
|
5.0
|
12.2
|
1.0
|
|
Zinc binding site 5 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 5 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn202
b:20.8
occ:1.00
|
ND1
|
E:HIS83
|
1.9
|
22.0
|
1.0
|
|
OD1
|
E:ASP95
|
1.9
|
17.9
|
1.0
|
|
ND1
|
E:HIS74
|
2.0
|
24.1
|
1.0
|
|
ND1
|
E:HIS92
|
2.1
|
24.2
|
1.0
|
|
CG
|
E:ASP95
|
2.7
|
38.0
|
1.0
|
|
CE1
|
E:HIS83
|
2.7
|
30.7
|
1.0
|
|
HB2
|
E:HIS92
|
2.8
|
34.4
|
1.0
|
|
HE1
|
E:HIS83
|
2.8
|
36.9
|
1.0
|
|
OD2
|
E:ASP95
|
2.9
|
26.7
|
1.0
|
|
CE1
|
E:HIS74
|
2.9
|
33.3
|
1.0
|
|
CG
|
E:HIS83
|
3.0
|
30.9
|
1.0
|
|
HE1
|
E:HIS74
|
3.0
|
39.9
|
1.0
|
|
CE1
|
E:HIS92
|
3.0
|
37.4
|
1.0
|
|
CG
|
E:HIS92
|
3.0
|
25.1
|
1.0
|
|
CG
|
E:HIS74
|
3.1
|
28.7
|
1.0
|
|
HA
|
E:HIS83
|
3.2
|
36.0
|
1.0
|
|
HE1
|
E:HIS92
|
3.2
|
44.8
|
1.0
|
|
HB2
|
E:HIS83
|
3.3
|
36.9
|
1.0
|
|
CB
|
E:HIS92
|
3.4
|
28.7
|
1.0
|
|
HB3
|
E:HIS74
|
3.4
|
27.9
|
1.0
|
|
HB2
|
E:HIS74
|
3.4
|
27.9
|
1.0
|
|
CB
|
E:HIS83
|
3.5
|
30.8
|
1.0
|
|
CB
|
E:HIS74
|
3.5
|
23.3
|
1.0
|
|
HB3
|
E:HIS92
|
3.7
|
34.4
|
1.0
|
|
HD22
|
E:LEU143
|
3.8
|
37.5
|
1.0
|
|
CA
|
E:HIS83
|
3.8
|
30.0
|
1.0
|
|
NE2
|
E:HIS83
|
3.9
|
23.0
|
1.0
|
|
CD2
|
E:HIS83
|
4.0
|
31.7
|
1.0
|
|
NE2
|
E:HIS74
|
4.1
|
25.6
|
1.0
|
|
CB
|
E:ASP95
|
4.1
|
28.7
|
1.0
|
|
HA
|
E:ASP95
|
4.1
|
30.0
|
1.0
|
|
NE2
|
E:HIS92
|
4.1
|
23.9
|
1.0
|
|
CD2
|
E:HIS92
|
4.2
|
32.9
|
1.0
|
|
CD2
|
E:HIS74
|
4.2
|
27.9
|
1.0
|
|
HA
|
E:LEU143
|
4.4
|
42.2
|
1.0
|
|
HB3
|
E:HIS83
|
4.5
|
36.9
|
1.0
|
|
H
|
E:HIS92
|
4.5
|
29.2
|
1.0
|
|
HB2
|
E:ASP95
|
4.5
|
34.4
|
1.0
|
|
CA
|
E:ASP95
|
4.6
|
25.0
|
1.0
|
|
HD23
|
E:LEU143
|
4.6
|
37.5
|
1.0
|
|
CD2
|
E:LEU143
|
4.6
|
31.3
|
1.0
|
|
HD2
|
E:HIS49
|
4.6
|
24.6
|
1.0
|
|
HE2
|
E:HIS83
|
4.6
|
27.6
|
1.0
|
|
H
|
E:LEU84
|
4.7
|
27.9
|
1.0
|
|
HB3
|
E:ASP95
|
4.7
|
34.4
|
1.0
|
|
CA
|
E:HIS92
|
4.7
|
34.2
|
1.0
|
|
CD2
|
E:HIS49
|
4.8
|
20.5
|
1.0
|
|
H
|
E:GLY85
|
4.8
|
34.7
|
1.0
|
|
N
|
E:ASP95
|
4.8
|
18.5
|
1.0
|
|
H
|
E:ASP95
|
4.8
|
22.2
|
1.0
|
|
N
|
E:HIS83
|
4.8
|
29.6
|
1.0
|
|
HB3
|
E:HIS49
|
4.8
|
28.3
|
1.0
|
|
C
|
E:HIS83
|
4.8
|
28.0
|
1.0
|
|
HE2
|
E:HIS74
|
4.8
|
30.7
|
1.0
|
|
O
|
E:LYS82
|
4.8
|
23.2
|
1.0
|
|
HB3
|
E:LEU143
|
4.9
|
35.9
|
1.0
|
|
HE2
|
E:HIS92
|
4.9
|
28.7
|
1.0
|
|
HD2
|
E:HIS83
|
4.9
|
38.0
|
1.0
|
|
N
|
E:HIS92
|
5.0
|
24.3
|
1.0
|
|
Zinc binding site 6 out
of 6 in 6vbs
Go back to
Zinc Binding Sites List in 6vbs
Zinc binding site 6 out
of 6 in the The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit.
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of The C2 Crystal Form of Sodci Superoxide Dismutase at 1.7 A Resolution with 6 Molecules in the Asymmetric Unit. within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Zn201
b:13.6
occ:1.00
|
OD1
|
F:ASP95
|
1.9
|
12.9
|
1.0
|
|
ND1
|
F:HIS74
|
2.0
|
16.8
|
1.0
|
|
ND1
|
F:HIS83
|
2.0
|
17.0
|
1.0
|
|
ND1
|
F:HIS92
|
2.1
|
17.3
|
1.0
|
|
OD2
|
F:ASP95
|
2.6
|
14.5
|
1.0
|
|
CG
|
F:ASP95
|
2.6
|
17.1
|
1.0
|
|
HB2
|
F:HIS92
|
2.8
|
24.5
|
1.0
|
|
CE1
|
F:HIS74
|
2.9
|
23.3
|
1.0
|
|
CE1
|
F:HIS83
|
2.9
|
18.7
|
1.0
|
|
CE1
|
F:HIS92
|
3.0
|
28.0
|
1.0
|
|
HE1
|
F:HIS83
|
3.1
|
22.5
|
1.0
|
|
HE1
|
F:HIS74
|
3.1
|
28.0
|
1.0
|
|
CG
|
F:HIS92
|
3.1
|
19.8
|
1.0
|
|
CG
|
F:HIS74
|
3.1
|
20.1
|
1.0
|
|
CG
|
F:HIS83
|
3.1
|
19.0
|
1.0
|
|
HA
|
F:HIS83
|
3.1
|
25.5
|
1.0
|
|
HE1
|
F:HIS92
|
3.2
|
33.6
|
1.0
|
|
HB2
|
F:HIS83
|
3.2
|
24.4
|
1.0
|
|
HB3
|
F:HIS74
|
3.2
|
20.3
|
1.0
|
|
CB
|
F:HIS92
|
3.4
|
20.4
|
1.0
|
|
HB2
|
F:HIS74
|
3.4
|
20.3
|
1.0
|
|
CB
|
F:HIS74
|
3.5
|
16.9
|
1.0
|
|
CB
|
F:HIS83
|
3.5
|
20.4
|
1.0
|
|
CA
|
F:HIS83
|
3.8
|
21.3
|
1.0
|
|
HB3
|
F:HIS92
|
3.8
|
24.5
|
1.0
|
|
HD23
|
F:LEU143
|
3.8
|
35.9
|
1.0
|
|
CB
|
F:ASP95
|
4.1
|
16.6
|
1.0
|
|
NE2
|
F:HIS74
|
4.1
|
21.6
|
1.0
|
|
NE2
|
F:HIS83
|
4.1
|
18.1
|
1.0
|
|
NE2
|
F:HIS92
|
4.1
|
17.5
|
1.0
|
|
CD2
|
F:HIS74
|
4.2
|
25.5
|
1.0
|
|
CD2
|
F:HIS92
|
4.2
|
24.1
|
1.0
|
|
CD2
|
F:HIS83
|
4.2
|
19.8
|
1.0
|
|
H
|
F:HIS92
|
4.3
|
23.9
|
1.0
|
|
HA
|
F:ASP95
|
4.3
|
20.4
|
1.0
|
|
HB3
|
F:HIS83
|
4.5
|
24.4
|
1.0
|
|
HB3
|
F:ASP95
|
4.5
|
19.9
|
1.0
|
|
HD2
|
F:HIS49
|
4.5
|
22.9
|
1.0
|
|
HB2
|
F:ASP95
|
4.6
|
19.9
|
1.0
|
|
H
|
F:LEU84
|
4.6
|
23.2
|
1.0
|
|
HA
|
F:LEU143
|
4.6
|
23.8
|
1.0
|
|
CD2
|
F:LEU143
|
4.6
|
29.9
|
1.0
|
|
CA
|
F:ASP95
|
4.6
|
17.0
|
1.0
|
|
HD21
|
F:LEU143
|
4.7
|
35.9
|
1.0
|
|
CA
|
F:HIS92
|
4.7
|
22.4
|
1.0
|
|
CD2
|
F:HIS49
|
4.7
|
19.1
|
1.0
|
|
H
|
F:GLY85
|
4.7
|
15.7
|
1.0
|
|
N
|
F:HIS83
|
4.7
|
20.9
|
1.0
|
|
O
|
F:LYS82
|
4.8
|
18.2
|
1.0
|
|
C
|
F:HIS83
|
4.8
|
22.2
|
1.0
|
|
HB3
|
F:HIS49
|
4.8
|
23.1
|
1.0
|
|
HE2
|
F:HIS74
|
4.8
|
25.9
|
1.0
|
|
HE2
|
F:HIS83
|
4.9
|
21.6
|
1.0
|
|
N
|
F:HIS92
|
4.9
|
20.0
|
1.0
|
|
N
|
F:ASP95
|
4.9
|
14.1
|
1.0
|
|
HE2
|
F:HIS92
|
4.9
|
20.9
|
1.0
|
|
H
|
F:ASP95
|
4.9
|
16.9
|
1.0
|
|
Reference:
P.W.Newhouse,
K.A.Satyshur,
J.M.Slauch,
K.T.Forest.
Structure and Muropeptide Binding of the Virulence Factor Superoxide Dismutase C1 From Salmonella Typhimurium To Be Published.
Page generated: Mon Jan 25 16:36:14 2021
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