Zinc in PDB 8k33: SOD1 and NANOBODY1 Complex
Enzymatic activity of SOD1 and NANOBODY1 Complex
All present enzymatic activity of SOD1 and NANOBODY1 Complex:
1.15.1.1;
Protein crystallography data
The structure of SOD1 and NANOBODY1 Complex, PDB code: 8k33
was solved by
S.Cheng,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
112.16 /
2.13
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
112.208,
119.67,
130.707,
90,
91.64,
90
|
|
R / Rfree (%)
|
21.7 /
26.5
|
Zinc Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Zinc atom in the SOD1 and NANOBODY1 Complex
(pdb code 8k33). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the
SOD1 and NANOBODY1 Complex, PDB code: 8k33:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Zinc binding site 1 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 1 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn201
b:31.0
occ:1.00
|
OD1
|
A:ASP83
|
2.0
|
28.2
|
1.0
|
|
ND1
|
A:HIS71
|
2.3
|
28.8
|
1.0
|
|
ND1
|
A:HIS63
|
2.3
|
32.2
|
1.0
|
|
ND1
|
A:HIS80
|
2.3
|
28.3
|
1.0
|
|
CG
|
A:ASP83
|
2.7
|
31.9
|
1.0
|
|
OD2
|
A:ASP83
|
2.8
|
33.7
|
1.0
|
|
CG
|
A:HIS80
|
2.9
|
33.8
|
1.0
|
|
CE1
|
A:HIS80
|
3.0
|
29.3
|
1.0
|
|
CE1
|
A:HIS71
|
3.2
|
30.2
|
1.0
|
|
CG
|
A:HIS63
|
3.2
|
29.9
|
1.0
|
|
CE1
|
A:HIS63
|
3.3
|
30.9
|
1.0
|
|
CG
|
A:HIS71
|
3.3
|
25.8
|
1.0
|
|
CB
|
A:HIS80
|
3.4
|
35.0
|
1.0
|
|
CB
|
A:HIS63
|
3.4
|
29.0
|
1.0
|
|
CB
|
A:HIS71
|
3.6
|
22.9
|
1.0
|
|
O
|
A:LYS136
|
3.7
|
30.5
|
1.0
|
|
CD2
|
A:HIS80
|
3.8
|
44.1
|
1.0
|
|
NE2
|
A:HIS80
|
3.8
|
41.7
|
1.0
|
|
CA
|
A:HIS71
|
4.0
|
26.4
|
1.0
|
|
CB
|
A:ASP83
|
4.1
|
28.9
|
1.0
|
|
NE2
|
A:HIS71
|
4.3
|
32.7
|
1.0
|
|
CD2
|
A:HIS63
|
4.3
|
32.8
|
1.0
|
|
NE2
|
A:HIS63
|
4.4
|
33.7
|
1.0
|
|
CD2
|
A:HIS71
|
4.4
|
32.9
|
1.0
|
|
N
|
A:HIS80
|
4.5
|
28.0
|
1.0
|
|
CA
|
A:HIS80
|
4.6
|
28.8
|
1.0
|
|
CA
|
A:ASP83
|
4.7
|
28.3
|
1.0
|
|
CD2
|
A:HIS46
|
4.7
|
28.4
|
1.0
|
|
N
|
A:GLY72
|
4.8
|
32.9
|
1.0
|
|
C
|
A:LYS136
|
4.8
|
26.5
|
1.0
|
|
N
|
A:HIS71
|
4.9
|
26.1
|
1.0
|
|
C
|
A:HIS71
|
4.9
|
26.5
|
1.0
|
|
CA
|
A:HIS63
|
5.0
|
29.9
|
1.0
|
|
O
|
A:HOH366
|
5.0
|
45.0
|
1.0
|
|
Zinc binding site 2 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 2 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn201
b:29.5
occ:1.00
|
OD1
|
C:ASP83
|
2.0
|
26.0
|
1.0
|
|
ND1
|
C:HIS80
|
2.3
|
28.0
|
1.0
|
|
ND1
|
C:HIS63
|
2.3
|
40.4
|
1.0
|
|
ND1
|
C:HIS71
|
2.3
|
31.7
|
1.0
|
|
CG
|
C:ASP83
|
2.8
|
36.0
|
1.0
|
|
CG
|
C:HIS63
|
2.9
|
33.7
|
1.0
|
|
CE1
|
C:HIS63
|
2.9
|
41.4
|
1.0
|
|
OD2
|
C:ASP83
|
2.9
|
31.5
|
1.0
|
|
CE1
|
C:HIS80
|
3.2
|
32.2
|
1.0
|
|
CG
|
C:HIS80
|
3.2
|
35.7
|
1.0
|
|
CE1
|
C:HIS71
|
3.3
|
30.8
|
1.0
|
|
CG
|
C:HIS71
|
3.3
|
34.3
|
1.0
|
|
CB
|
C:HIS63
|
3.5
|
34.8
|
1.0
|
|
CB
|
C:HIS80
|
3.5
|
32.5
|
1.0
|
|
CB
|
C:HIS71
|
3.6
|
32.7
|
1.0
|
|
NE2
|
C:HIS63
|
3.7
|
39.3
|
1.0
|
|
CD2
|
C:HIS63
|
3.7
|
38.3
|
1.0
|
|
CA
|
C:HIS71
|
4.0
|
34.1
|
1.0
|
|
O
|
C:LYS136
|
4.0
|
36.8
|
1.0
|
|
CB
|
C:ASP83
|
4.2
|
31.3
|
1.0
|
|
NE2
|
C:HIS80
|
4.3
|
37.0
|
1.0
|
|
CD2
|
C:HIS80
|
4.3
|
30.1
|
1.0
|
|
NE2
|
C:HIS71
|
4.4
|
35.8
|
1.0
|
|
CD2
|
C:HIS71
|
4.5
|
37.5
|
1.0
|
|
N
|
C:HIS80
|
4.7
|
28.6
|
1.0
|
|
CA
|
C:ASP83
|
4.7
|
33.1
|
1.0
|
|
CA
|
C:HIS80
|
4.7
|
34.2
|
1.0
|
|
N
|
C:GLY72
|
4.7
|
34.1
|
1.0
|
|
C
|
C:HIS71
|
4.9
|
36.6
|
1.0
|
|
C
|
C:LYS136
|
5.0
|
35.6
|
1.0
|
|
CA
|
C:HIS63
|
5.0
|
33.3
|
1.0
|
|
N
|
C:ASP83
|
5.0
|
30.9
|
1.0
|
|
N
|
C:HIS71
|
5.0
|
37.2
|
1.0
|
|
Zinc binding site 3 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 3 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn201
b:33.1
occ:1.00
|
OD2
|
E:ASP83
|
1.9
|
31.9
|
1.0
|
|
ND1
|
E:HIS71
|
2.3
|
32.8
|
1.0
|
|
ND1
|
E:HIS80
|
2.3
|
36.1
|
1.0
|
|
ND1
|
E:HIS63
|
2.3
|
33.1
|
1.0
|
|
CG
|
E:ASP83
|
2.8
|
39.1
|
1.0
|
|
OD1
|
E:ASP83
|
3.0
|
34.3
|
1.0
|
|
CE1
|
E:HIS80
|
3.0
|
32.3
|
1.0
|
|
CG
|
E:HIS80
|
3.2
|
37.7
|
1.0
|
|
CE1
|
E:HIS71
|
3.2
|
24.4
|
1.0
|
|
CG
|
E:HIS63
|
3.2
|
31.7
|
1.0
|
|
CG
|
E:HIS71
|
3.3
|
32.9
|
1.0
|
|
CE1
|
E:HIS63
|
3.3
|
33.6
|
1.0
|
|
CB
|
E:HIS63
|
3.4
|
32.2
|
1.0
|
|
CB
|
E:HIS80
|
3.6
|
27.4
|
1.0
|
|
CB
|
E:HIS71
|
3.6
|
33.2
|
1.0
|
|
O
|
E:LYS136
|
3.9
|
40.4
|
1.0
|
|
CA
|
E:HIS71
|
4.0
|
31.5
|
1.0
|
|
NE2
|
E:HIS80
|
4.1
|
38.0
|
1.0
|
|
CD2
|
E:HIS80
|
4.1
|
36.9
|
1.0
|
|
CB
|
E:ASP83
|
4.2
|
34.6
|
1.0
|
|
NE2
|
E:HIS71
|
4.3
|
33.0
|
1.0
|
|
CD2
|
E:HIS63
|
4.3
|
35.0
|
1.0
|
|
NE2
|
E:HIS63
|
4.4
|
35.2
|
1.0
|
|
CD2
|
E:HIS71
|
4.4
|
33.9
|
1.0
|
|
CA
|
E:ASP83
|
4.7
|
35.9
|
1.0
|
|
N
|
E:HIS80
|
4.7
|
30.1
|
1.0
|
|
N
|
E:GLY72
|
4.7
|
34.8
|
1.0
|
|
CA
|
E:HIS80
|
4.7
|
29.0
|
1.0
|
|
N
|
E:ASP83
|
4.9
|
36.1
|
1.0
|
|
C
|
E:LYS136
|
4.9
|
32.2
|
1.0
|
|
C
|
E:HIS71
|
4.9
|
36.5
|
1.0
|
|
O
|
E:HOH341
|
4.9
|
45.5
|
1.0
|
|
CA
|
E:HIS63
|
5.0
|
25.5
|
1.0
|
|
O
|
E:GLY72
|
5.0
|
35.0
|
1.0
|
|
CD2
|
E:HIS46
|
5.0
|
31.5
|
1.0
|
|
Zinc binding site 4 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 4 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Zn201
b:30.8
occ:1.00
|
OD1
|
G:ASP83
|
2.0
|
30.6
|
1.0
|
|
ND1
|
G:HIS71
|
2.3
|
32.2
|
1.0
|
|
ND1
|
G:HIS80
|
2.3
|
34.4
|
1.0
|
|
ND1
|
G:HIS63
|
2.3
|
36.6
|
1.0
|
|
CG
|
G:ASP83
|
2.7
|
32.4
|
1.0
|
|
OD2
|
G:ASP83
|
2.8
|
35.6
|
1.0
|
|
CE1
|
G:HIS80
|
3.1
|
36.5
|
1.0
|
|
CG
|
G:HIS63
|
3.2
|
31.5
|
1.0
|
|
CG
|
G:HIS71
|
3.2
|
36.1
|
1.0
|
|
CG
|
G:HIS80
|
3.2
|
36.2
|
1.0
|
|
CE1
|
G:HIS71
|
3.3
|
34.3
|
1.0
|
|
CE1
|
G:HIS63
|
3.3
|
40.9
|
1.0
|
|
CB
|
G:HIS63
|
3.4
|
28.5
|
1.0
|
|
CB
|
G:HIS71
|
3.5
|
36.1
|
1.0
|
|
CB
|
G:HIS80
|
3.6
|
34.9
|
1.0
|
|
O
|
G:LYS136
|
3.8
|
42.9
|
1.0
|
|
CA
|
G:HIS71
|
3.9
|
37.0
|
1.0
|
|
CB
|
G:ASP83
|
4.2
|
31.1
|
1.0
|
|
NE2
|
G:HIS80
|
4.2
|
38.1
|
1.0
|
|
CD2
|
G:HIS80
|
4.3
|
39.3
|
1.0
|
|
CD2
|
G:HIS63
|
4.4
|
33.8
|
1.0
|
|
NE2
|
G:HIS71
|
4.4
|
35.8
|
1.0
|
|
NE2
|
G:HIS63
|
4.4
|
40.3
|
1.0
|
|
CD2
|
G:HIS71
|
4.4
|
35.5
|
1.0
|
|
N
|
G:HIS80
|
4.7
|
38.9
|
1.0
|
|
C
|
G:LYS136
|
4.7
|
34.5
|
1.0
|
|
CA
|
G:ASP83
|
4.7
|
33.1
|
1.0
|
|
CA
|
G:HIS80
|
4.8
|
35.4
|
1.0
|
|
N
|
G:GLY72
|
4.8
|
37.3
|
1.0
|
|
C
|
G:HIS71
|
4.9
|
40.1
|
1.0
|
|
N
|
G:HIS71
|
4.9
|
37.0
|
1.0
|
|
CA
|
G:HIS63
|
4.9
|
35.3
|
1.0
|
|
O
|
G:HOH343
|
5.0
|
31.8
|
1.0
|
|
CD2
|
G:HIS46
|
5.0
|
33.7
|
1.0
|
|
Zinc binding site 5 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 5 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
I:Zn201
b:33.0
occ:1.00
|
OD1
|
I:ASP83
|
1.9
|
37.0
|
1.0
|
|
ND1
|
I:HIS63
|
2.3
|
39.5
|
1.0
|
|
ND1
|
I:HIS71
|
2.3
|
32.9
|
1.0
|
|
ND1
|
I:HIS80
|
2.3
|
37.5
|
1.0
|
|
CG
|
I:ASP83
|
2.7
|
40.1
|
1.0
|
|
OD2
|
I:ASP83
|
2.8
|
36.2
|
1.0
|
|
CG
|
I:HIS80
|
2.9
|
34.8
|
1.0
|
|
CE1
|
I:HIS80
|
3.0
|
36.8
|
1.0
|
|
CG
|
I:HIS63
|
3.2
|
41.7
|
1.0
|
|
CE1
|
I:HIS71
|
3.2
|
32.0
|
1.0
|
|
CE1
|
I:HIS63
|
3.3
|
41.0
|
1.0
|
|
CG
|
I:HIS71
|
3.3
|
38.7
|
1.0
|
|
CB
|
I:HIS80
|
3.4
|
36.6
|
1.0
|
|
CB
|
I:HIS63
|
3.4
|
36.0
|
1.0
|
|
CB
|
I:HIS71
|
3.6
|
38.2
|
1.0
|
|
CD2
|
I:HIS80
|
3.7
|
47.3
|
1.0
|
|
NE2
|
I:HIS80
|
3.7
|
51.5
|
1.0
|
|
O
|
I:LYS136
|
4.1
|
41.5
|
1.0
|
|
CA
|
I:HIS71
|
4.1
|
36.9
|
1.0
|
|
CB
|
I:ASP83
|
4.1
|
36.5
|
1.0
|
|
NE2
|
I:HIS71
|
4.3
|
36.2
|
1.0
|
|
CD2
|
I:HIS63
|
4.4
|
40.8
|
1.0
|
|
NE2
|
I:HIS63
|
4.4
|
43.2
|
1.0
|
|
CD2
|
I:HIS71
|
4.4
|
36.5
|
1.0
|
|
N
|
I:HIS80
|
4.6
|
39.0
|
1.0
|
|
CA
|
I:HIS80
|
4.6
|
33.2
|
1.0
|
|
CA
|
I:ASP83
|
4.7
|
31.0
|
1.0
|
|
N
|
I:GLY72
|
4.8
|
32.6
|
1.0
|
|
CA
|
I:HIS63
|
5.0
|
36.0
|
1.0
|
|
N
|
I:ASP83
|
5.0
|
39.2
|
1.0
|
|
C
|
I:HIS71
|
5.0
|
37.3
|
1.0
|
|
Zinc binding site 6 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 6 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
K:Zn201
b:31.6
occ:1.00
|
OD1
|
K:ASP83
|
1.9
|
25.1
|
1.0
|
|
ND1
|
K:HIS63
|
2.3
|
31.2
|
1.0
|
|
ND1
|
K:HIS80
|
2.3
|
25.3
|
1.0
|
|
ND1
|
K:HIS71
|
2.3
|
27.6
|
1.0
|
|
CG
|
K:ASP83
|
2.6
|
31.5
|
1.0
|
|
OD2
|
K:ASP83
|
2.7
|
29.9
|
1.0
|
|
CG
|
K:HIS80
|
3.2
|
29.8
|
1.0
|
|
CE1
|
K:HIS80
|
3.2
|
32.6
|
1.0
|
|
CG
|
K:HIS63
|
3.2
|
31.0
|
1.0
|
|
CE1
|
K:HIS71
|
3.2
|
27.4
|
1.0
|
|
CG
|
K:HIS71
|
3.3
|
28.4
|
1.0
|
|
CE1
|
K:HIS63
|
3.3
|
31.4
|
1.0
|
|
CB
|
K:HIS63
|
3.4
|
26.7
|
1.0
|
|
CB
|
K:HIS80
|
3.5
|
32.9
|
1.0
|
|
CB
|
K:HIS71
|
3.5
|
28.6
|
1.0
|
|
O
|
K:LYS136
|
3.7
|
33.2
|
1.0
|
|
CA
|
K:HIS71
|
4.0
|
29.5
|
1.0
|
|
CB
|
K:ASP83
|
4.1
|
31.1
|
1.0
|
|
NE2
|
K:HIS80
|
4.3
|
30.3
|
1.0
|
|
CD2
|
K:HIS80
|
4.3
|
30.7
|
1.0
|
|
NE2
|
K:HIS71
|
4.4
|
33.5
|
1.0
|
|
CD2
|
K:HIS63
|
4.4
|
31.5
|
1.0
|
|
NE2
|
K:HIS63
|
4.4
|
34.9
|
1.0
|
|
CD2
|
K:HIS71
|
4.4
|
32.8
|
1.0
|
|
CA
|
K:ASP83
|
4.6
|
27.2
|
1.0
|
|
N
|
K:HIS80
|
4.7
|
30.3
|
1.0
|
|
CA
|
K:HIS80
|
4.7
|
30.6
|
1.0
|
|
N
|
K:GLY72
|
4.8
|
27.9
|
1.0
|
|
C
|
K:LYS136
|
4.8
|
27.7
|
1.0
|
|
N
|
K:ASP83
|
4.9
|
30.8
|
1.0
|
|
C
|
K:HIS71
|
4.9
|
32.0
|
1.0
|
|
CA
|
K:HIS63
|
5.0
|
25.8
|
1.0
|
|
N
|
K:HIS71
|
5.0
|
33.5
|
1.0
|
|
Zinc binding site 7 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 7 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
L:Zn201
b:33.3
occ:1.00
|
CD2
|
L:HIS80
|
1.6
|
32.6
|
1.0
|
|
OD1
|
L:ASP83
|
2.0
|
34.3
|
1.0
|
|
ND1
|
L:HIS63
|
2.3
|
37.3
|
1.0
|
|
ND1
|
L:HIS71
|
2.3
|
32.2
|
1.0
|
|
NE2
|
L:HIS80
|
2.3
|
31.0
|
1.0
|
|
CG
|
L:ASP83
|
2.7
|
35.3
|
1.0
|
|
CG
|
L:HIS80
|
2.8
|
32.8
|
1.0
|
|
OD2
|
L:ASP83
|
2.9
|
31.5
|
1.0
|
|
CG
|
L:HIS63
|
3.2
|
29.8
|
1.0
|
|
CE1
|
L:HIS71
|
3.2
|
34.3
|
1.0
|
|
CG
|
L:HIS71
|
3.3
|
34.4
|
1.0
|
|
CE1
|
L:HIS63
|
3.3
|
38.2
|
1.0
|
|
CB
|
L:HIS63
|
3.4
|
28.1
|
1.0
|
|
CE1
|
L:HIS80
|
3.5
|
31.3
|
1.0
|
|
CB
|
L:HIS71
|
3.6
|
35.6
|
1.0
|
|
CB
|
L:HIS80
|
3.7
|
31.9
|
1.0
|
|
ND1
|
L:HIS80
|
3.7
|
34.6
|
1.0
|
|
O
|
L:LYS136
|
3.8
|
39.0
|
1.0
|
|
CA
|
L:HIS71
|
4.0
|
34.1
|
1.0
|
|
CB
|
L:ASP83
|
4.2
|
30.7
|
1.0
|
|
NE2
|
L:HIS71
|
4.4
|
40.0
|
1.0
|
|
CD2
|
L:HIS63
|
4.4
|
37.3
|
1.0
|
|
NE2
|
L:HIS63
|
4.4
|
35.5
|
1.0
|
|
CD2
|
L:HIS71
|
4.4
|
37.9
|
1.0
|
|
N
|
L:HIS80
|
4.7
|
34.9
|
1.0
|
|
CA
|
L:ASP83
|
4.7
|
31.6
|
1.0
|
|
N
|
L:GLY72
|
4.8
|
33.8
|
1.0
|
|
C
|
L:LYS136
|
4.8
|
41.8
|
1.0
|
|
CA
|
L:HIS80
|
4.8
|
34.3
|
1.0
|
|
C
|
L:HIS71
|
4.9
|
35.5
|
1.0
|
|
CA
|
L:HIS63
|
4.9
|
34.8
|
1.0
|
|
N
|
L:ASP83
|
4.9
|
35.8
|
1.0
|
|
CD2
|
L:HIS46
|
4.9
|
33.1
|
1.0
|
|
N
|
L:HIS71
|
5.0
|
36.0
|
1.0
|
|
O
|
L:HOH335
|
5.0
|
37.0
|
1.0
|
|
Zinc binding site 8 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 8 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
N:Zn201
b:37.7
occ:1.00
|
OD1
|
N:ASP83
|
1.9
|
29.3
|
1.0
|
|
ND1
|
N:HIS80
|
2.3
|
40.5
|
1.0
|
|
ND1
|
N:HIS71
|
2.3
|
32.4
|
1.0
|
|
ND1
|
N:HIS63
|
2.3
|
39.2
|
1.0
|
|
CG
|
N:ASP83
|
2.8
|
37.2
|
1.0
|
|
OD2
|
N:ASP83
|
3.0
|
45.1
|
1.0
|
|
CG
|
N:HIS80
|
3.1
|
42.0
|
1.0
|
|
CG
|
N:HIS71
|
3.2
|
36.6
|
1.0
|
|
CE1
|
N:HIS80
|
3.2
|
36.4
|
1.0
|
|
CG
|
N:HIS63
|
3.2
|
34.3
|
1.0
|
|
CE1
|
N:HIS63
|
3.3
|
39.4
|
1.0
|
|
CE1
|
N:HIS71
|
3.3
|
32.8
|
1.0
|
|
CB
|
N:HIS71
|
3.4
|
38.9
|
1.0
|
|
CB
|
N:HIS63
|
3.4
|
35.4
|
1.0
|
|
CB
|
N:HIS80
|
3.4
|
36.0
|
1.0
|
|
O
|
N:LYS136
|
3.8
|
38.0
|
1.0
|
|
CA
|
N:HIS71
|
3.8
|
37.6
|
1.0
|
|
CD2
|
N:HIS80
|
4.2
|
41.6
|
1.0
|
|
NE2
|
N:HIS80
|
4.2
|
41.6
|
1.0
|
|
CB
|
N:ASP83
|
4.2
|
34.1
|
1.0
|
|
CD2
|
N:HIS71
|
4.3
|
34.0
|
1.0
|
|
CD2
|
N:HIS63
|
4.4
|
40.1
|
1.0
|
|
NE2
|
N:HIS71
|
4.4
|
35.0
|
1.0
|
|
NE2
|
N:HIS63
|
4.4
|
41.8
|
1.0
|
|
N
|
N:HIS80
|
4.6
|
40.4
|
1.0
|
|
CA
|
N:HIS80
|
4.6
|
36.5
|
1.0
|
|
N
|
N:GLY72
|
4.6
|
43.2
|
1.0
|
|
CA
|
N:ASP83
|
4.6
|
34.6
|
1.0
|
|
C
|
N:HIS71
|
4.8
|
42.6
|
1.0
|
|
N
|
N:HIS71
|
4.8
|
40.2
|
1.0
|
|
C
|
N:LYS136
|
4.8
|
40.6
|
1.0
|
|
N
|
N:ASP83
|
4.8
|
38.4
|
1.0
|
|
CA
|
N:HIS63
|
4.9
|
42.6
|
1.0
|
|
Zinc binding site 9 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 9 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 9 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
P:Zn201
b:37.9
occ:1.00
|
O
|
P:HOH302
|
1.9
|
61.9
|
1.0
|
|
OD1
|
P:ASP83
|
1.9
|
35.1
|
1.0
|
|
ND1
|
P:HIS71
|
2.3
|
40.2
|
1.0
|
|
ND1
|
P:HIS63
|
2.3
|
46.2
|
1.0
|
|
ND1
|
P:HIS80
|
2.3
|
46.3
|
1.0
|
|
CG
|
P:ASP83
|
2.6
|
37.0
|
1.0
|
|
OD2
|
P:ASP83
|
2.6
|
39.3
|
1.0
|
|
CG
|
P:HIS80
|
2.8
|
41.8
|
1.0
|
|
CE1
|
P:HIS80
|
2.9
|
44.5
|
1.0
|
|
CE1
|
P:HIS71
|
3.0
|
38.8
|
1.0
|
|
CG
|
P:HIS63
|
3.2
|
45.3
|
1.0
|
|
CB
|
P:HIS80
|
3.3
|
39.3
|
1.0
|
|
CE1
|
P:HIS63
|
3.3
|
43.1
|
1.0
|
|
CB
|
P:HIS63
|
3.4
|
43.5
|
1.0
|
|
CG
|
P:HIS71
|
3.5
|
41.1
|
1.0
|
|
CD2
|
P:HIS80
|
3.6
|
57.3
|
1.0
|
|
NE2
|
P:HIS80
|
3.6
|
55.4
|
1.0
|
|
O
|
P:LYS136
|
3.9
|
40.8
|
1.0
|
|
CB
|
P:HIS71
|
4.0
|
43.4
|
1.0
|
|
CB
|
P:ASP83
|
4.1
|
33.4
|
1.0
|
|
CA
|
P:HIS71
|
4.2
|
43.0
|
1.0
|
|
NE2
|
P:HIS71
|
4.2
|
39.2
|
1.0
|
|
CD2
|
P:HIS63
|
4.4
|
45.0
|
1.0
|
|
NE2
|
P:HIS63
|
4.4
|
45.8
|
1.0
|
|
CD2
|
P:HIS71
|
4.5
|
40.2
|
1.0
|
|
N
|
P:HIS80
|
4.5
|
46.0
|
1.0
|
|
CA
|
P:HIS80
|
4.5
|
39.3
|
1.0
|
|
CA
|
P:ASP83
|
4.6
|
40.9
|
1.0
|
|
N
|
P:GLY72
|
4.9
|
36.8
|
1.0
|
|
CA
|
P:HIS63
|
4.9
|
41.9
|
1.0
|
|
C
|
P:LYS136
|
5.0
|
44.2
|
1.0
|
|
N
|
P:ASP83
|
5.0
|
38.3
|
1.0
|
|
Zinc binding site 10 out
of 12 in 8k33
Go back to
Zinc Binding Sites List in 8k33
Zinc binding site 10 out
of 12 in the SOD1 and NANOBODY1 Complex
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 10 of SOD1 and NANOBODY1 Complex within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
Y:Zn201
b:49.2
occ:1.00
|
CD2
|
Y:HIS80
|
1.5
|
44.9
|
1.0
|
|
OD1
|
Y:ASP83
|
2.1
|
46.3
|
1.0
|
|
ND1
|
Y:HIS71
|
2.3
|
47.2
|
1.0
|
|
ND1
|
Y:HIS63
|
2.3
|
47.4
|
1.0
|
|
NE2
|
Y:HIS80
|
2.3
|
45.8
|
1.0
|
|
CG
|
Y:HIS80
|
2.7
|
46.2
|
1.0
|
|
CG
|
Y:ASP83
|
2.8
|
49.3
|
1.0
|
|
OD2
|
Y:ASP83
|
2.8
|
50.2
|
1.0
|
|
CE1
|
Y:HIS71
|
3.2
|
45.5
|
1.0
|
|
CE1
|
Y:HIS63
|
3.2
|
48.6
|
1.0
|
|
CG
|
Y:HIS63
|
3.3
|
51.9
|
1.0
|
|
CG
|
Y:HIS71
|
3.3
|
46.5
|
1.0
|
|
CE1
|
Y:HIS80
|
3.5
|
44.4
|
1.0
|
|
CB
|
Y:HIS80
|
3.5
|
42.2
|
1.0
|
|
CB
|
Y:HIS63
|
3.6
|
47.0
|
1.0
|
|
ND1
|
Y:HIS80
|
3.6
|
45.3
|
1.0
|
|
CB
|
Y:HIS71
|
3.7
|
46.4
|
1.0
|
|
O
|
Y:LYS136
|
3.7
|
46.8
|
1.0
|
|
CA
|
Y:HIS71
|
4.0
|
50.5
|
1.0
|
|
CB
|
Y:ASP83
|
4.2
|
46.1
|
1.0
|
|
NE2
|
Y:HIS71
|
4.3
|
48.8
|
1.0
|
|
NE2
|
Y:HIS63
|
4.4
|
50.4
|
1.0
|
|
CD2
|
Y:HIS71
|
4.4
|
49.4
|
1.0
|
|
CD2
|
Y:HIS63
|
4.4
|
50.6
|
1.0
|
|
N
|
Y:HIS80
|
4.6
|
49.1
|
1.0
|
|
N
|
Y:GLY72
|
4.7
|
47.1
|
1.0
|
|
CA
|
Y:HIS80
|
4.7
|
47.3
|
1.0
|
|
CA
|
Y:ASP83
|
4.8
|
41.3
|
1.0
|
|
C
|
Y:LYS136
|
4.8
|
44.2
|
1.0
|
|
C
|
Y:HIS71
|
4.9
|
46.7
|
1.0
|
|
N
|
Y:HIS71
|
5.0
|
50.0
|
1.0
|
|
N
|
Y:ASP83
|
5.0
|
46.0
|
1.0
|
|
CD2
|
Y:HIS46
|
5.0
|
47.8
|
1.0
|
|
Reference:
S.Cheng,
S.Cheng.
N/A N/A.
Page generated: Fri Aug 22 11:38:20 2025
|
