Copper in PDB 1e9o: Crystal Structure of Bovine Sod - 1 of 3
Enzymatic activity of Crystal Structure of Bovine Sod - 1 of 3
All present enzymatic activity of Crystal Structure of Bovine Sod - 1 of 3:
1.15.1.1;
Protein crystallography data
The structure of Crystal Structure of Bovine Sod - 1 of 3, PDB code: 1e9o
was solved by
M.A.Hough,
S.S.Hasnain,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
8 /
1.85
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
47.500,
51.000,
147.800,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
19.9 /
23
|
Copper Binding Sites:
The binding sites of Copper atom in the Crystal Structure of Bovine Sod - 1 of 3
(pdb code 1e9o). This binding sites where shown within
5.0 Angstroms radius around Copper atom.
In total 4 binding sites of Copper where determined in the
Crystal Structure of Bovine Sod - 1 of 3, PDB code: 1e9o:
Jump to Copper binding site number:
1;
2;
3;
4;
Copper binding site 1 out
of 4 in 1e9o
Go back to
Copper Binding Sites List in 1e9o
Copper binding site 1 out
of 4 in the Crystal Structure of Bovine Sod - 1 of 3
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 1 of Crystal Structure of Bovine Sod - 1 of 3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu152
b:36.0
occ:1.00
|
NE2
|
A:HIS118
|
2.0
|
20.2
|
1.0
|
ND1
|
A:HIS44
|
2.1
|
22.4
|
1.0
|
NE2
|
A:HIS46
|
2.2
|
21.3
|
1.0
|
NE2
|
A:HIS61
|
2.5
|
27.5
|
1.0
|
CD2
|
A:HIS118
|
2.6
|
21.1
|
1.0
|
O
|
A:HOH2076
|
3.0
|
54.9
|
1.0
|
CG
|
A:HIS44
|
3.1
|
20.0
|
1.0
|
CE1
|
A:HIS44
|
3.1
|
20.7
|
1.0
|
CE1
|
A:HIS46
|
3.1
|
21.7
|
1.0
|
CD2
|
A:HIS61
|
3.2
|
22.7
|
1.0
|
CE1
|
A:HIS118
|
3.2
|
22.3
|
1.0
|
CB
|
A:HIS44
|
3.3
|
19.4
|
1.0
|
CD2
|
A:HIS46
|
3.3
|
19.1
|
1.0
|
CE1
|
A:HIS61
|
3.7
|
24.4
|
1.0
|
CG
|
A:HIS118
|
3.9
|
22.5
|
1.0
|
ND1
|
A:HIS118
|
4.1
|
23.3
|
1.0
|
NE2
|
A:HIS44
|
4.2
|
20.9
|
1.0
|
CD2
|
A:HIS44
|
4.3
|
21.0
|
1.0
|
ND1
|
A:HIS46
|
4.3
|
19.0
|
1.0
|
CG
|
A:HIS46
|
4.4
|
18.3
|
1.0
|
CG
|
A:HIS61
|
4.5
|
23.1
|
1.0
|
CG1
|
A:VAL116
|
4.5
|
20.8
|
1.0
|
CA
|
A:HIS44
|
4.5
|
16.5
|
1.0
|
CB
|
A:VAL116
|
4.5
|
20.0
|
1.0
|
N
|
A:HIS44
|
4.5
|
15.7
|
1.0
|
O
|
A:HOH2036
|
4.6
|
48.6
|
1.0
|
ND1
|
A:HIS61
|
4.7
|
23.1
|
1.0
|
O
|
A:HOH2089
|
5.0
|
30.1
|
1.0
|
|
Copper binding site 2 out
of 4 in 1e9o
Go back to
Copper Binding Sites List in 1e9o
Copper binding site 2 out
of 4 in the Crystal Structure of Bovine Sod - 1 of 3
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 2 of Crystal Structure of Bovine Sod - 1 of 3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cu153
b:20.4
occ:1.00
|
ND1
|
A:HIS69
|
2.0
|
20.3
|
1.0
|
OD1
|
A:ASP81
|
2.0
|
20.2
|
1.0
|
ND1
|
A:HIS78
|
2.0
|
18.9
|
1.0
|
ND1
|
A:HIS61
|
2.0
|
23.1
|
1.0
|
CG
|
A:ASP81
|
2.8
|
19.9
|
1.0
|
CE1
|
A:HIS69
|
2.9
|
21.8
|
1.0
|
CE1
|
A:HIS78
|
2.9
|
18.1
|
1.0
|
CE1
|
A:HIS61
|
2.9
|
24.4
|
1.0
|
OD2
|
A:ASP81
|
3.0
|
19.6
|
1.0
|
CG
|
A:HIS61
|
3.0
|
23.1
|
1.0
|
CG
|
A:HIS78
|
3.1
|
17.9
|
1.0
|
CG
|
A:HIS69
|
3.2
|
20.6
|
1.0
|
CB
|
A:HIS61
|
3.5
|
21.7
|
1.0
|
CB
|
A:HIS78
|
3.6
|
16.0
|
1.0
|
CB
|
A:HIS69
|
3.6
|
20.8
|
1.0
|
O
|
A:LYS134
|
3.9
|
26.3
|
1.0
|
CA
|
A:HIS69
|
4.0
|
20.3
|
1.0
|
NE2
|
A:HIS78
|
4.0
|
17.9
|
1.0
|
NE2
|
A:HIS61
|
4.0
|
27.5
|
1.0
|
NE2
|
A:HIS69
|
4.1
|
20.6
|
1.0
|
CD2
|
A:HIS61
|
4.1
|
22.7
|
1.0
|
CD2
|
A:HIS78
|
4.1
|
17.5
|
1.0
|
CD2
|
A:HIS69
|
4.2
|
19.9
|
1.0
|
CB
|
A:ASP81
|
4.2
|
19.1
|
1.0
|
CA
|
A:ASP81
|
4.7
|
19.5
|
1.0
|
N
|
A:HIS78
|
4.7
|
17.5
|
1.0
|
O
|
A:HOH2087
|
4.7
|
38.5
|
1.0
|
CA
|
A:HIS78
|
4.8
|
16.8
|
1.0
|
N
|
A:ASP81
|
4.9
|
17.7
|
1.0
|
N
|
A:GLY70
|
4.9
|
21.2
|
1.0
|
C
|
A:LYS134
|
4.9
|
28.4
|
1.0
|
C
|
A:HIS69
|
4.9
|
22.0
|
1.0
|
N
|
A:HIS69
|
5.0
|
21.4
|
1.0
|
CA
|
A:HIS61
|
5.0
|
22.0
|
1.0
|
|
Copper binding site 3 out
of 4 in 1e9o
Go back to
Copper Binding Sites List in 1e9o
Copper binding site 3 out
of 4 in the Crystal Structure of Bovine Sod - 1 of 3
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 3 of Crystal Structure of Bovine Sod - 1 of 3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cu152
b:22.6
occ:1.00
|
NE2
|
B:HIS61
|
2.1
|
16.6
|
1.0
|
NE2
|
B:HIS46
|
2.1
|
17.1
|
1.0
|
NE2
|
B:HIS118
|
2.1
|
17.3
|
1.0
|
ND1
|
B:HIS44
|
2.2
|
16.9
|
1.0
|
O
|
B:HOH2049
|
2.5
|
25.1
|
1.0
|
CE1
|
B:HIS46
|
2.8
|
15.7
|
1.0
|
CD2
|
B:HIS61
|
2.9
|
15.6
|
1.0
|
CE1
|
B:HIS118
|
3.0
|
13.5
|
1.0
|
CG
|
B:HIS44
|
3.0
|
17.4
|
1.0
|
CE1
|
B:HIS61
|
3.1
|
16.6
|
1.0
|
CD2
|
B:HIS118
|
3.1
|
16.2
|
1.0
|
CE1
|
B:HIS44
|
3.2
|
18.1
|
1.0
|
CB
|
B:HIS44
|
3.3
|
15.6
|
1.0
|
CD2
|
B:HIS46
|
3.3
|
14.0
|
1.0
|
ND1
|
B:HIS46
|
4.0
|
16.2
|
1.0
|
ND1
|
B:HIS118
|
4.1
|
16.8
|
1.0
|
CG
|
B:HIS61
|
4.1
|
15.7
|
1.0
|
ND1
|
B:HIS61
|
4.1
|
13.7
|
1.0
|
CD2
|
B:HIS44
|
4.2
|
17.6
|
1.0
|
CG
|
B:HIS118
|
4.2
|
15.7
|
1.0
|
NE2
|
B:HIS44
|
4.2
|
18.8
|
1.0
|
CG
|
B:HIS46
|
4.2
|
14.1
|
1.0
|
CA
|
B:HIS44
|
4.6
|
15.0
|
1.0
|
O
|
B:HOH2036
|
4.7
|
88.7
|
1.0
|
N
|
B:HIS44
|
4.8
|
14.6
|
1.0
|
CB
|
B:VAL116
|
4.9
|
15.6
|
1.0
|
O
|
B:HOH2124
|
4.9
|
20.4
|
1.0
|
CG1
|
B:VAL116
|
4.9
|
16.6
|
1.0
|
|
Copper binding site 4 out
of 4 in 1e9o
Go back to
Copper Binding Sites List in 1e9o
Copper binding site 4 out
of 4 in the Crystal Structure of Bovine Sod - 1 of 3
Mono view
Stereo pair view
|
A full contact list of Copper with other atoms in the Cu binding
site number 4 of Crystal Structure of Bovine Sod - 1 of 3 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cu153
b:15.7
occ:1.00
|
ND1
|
B:HIS78
|
1.9
|
12.5
|
1.0
|
OD1
|
B:ASP81
|
2.0
|
16.0
|
1.0
|
ND1
|
B:HIS61
|
2.0
|
13.7
|
1.0
|
ND1
|
B:HIS69
|
2.1
|
15.2
|
1.0
|
CG
|
B:ASP81
|
2.8
|
14.7
|
1.0
|
CE1
|
B:HIS69
|
2.9
|
16.5
|
1.0
|
CE1
|
B:HIS78
|
2.9
|
15.4
|
1.0
|
OD2
|
B:ASP81
|
3.0
|
17.4
|
1.0
|
CG
|
B:HIS78
|
3.0
|
12.8
|
1.0
|
CE1
|
B:HIS61
|
3.0
|
16.6
|
1.0
|
CG
|
B:HIS61
|
3.0
|
15.7
|
1.0
|
CG
|
B:HIS69
|
3.2
|
13.9
|
1.0
|
CB
|
B:HIS61
|
3.4
|
13.2
|
1.0
|
CB
|
B:HIS78
|
3.5
|
9.8
|
1.0
|
CB
|
B:HIS69
|
3.7
|
13.6
|
1.0
|
O
|
B:SER134
|
3.8
|
16.8
|
1.0
|
O
|
B:HOH2072
|
3.9
|
86.0
|
1.0
|
CA
|
B:HIS69
|
4.0
|
13.5
|
1.0
|
NE2
|
B:HIS78
|
4.0
|
15.0
|
1.0
|
CD2
|
B:HIS78
|
4.1
|
12.5
|
1.0
|
NE2
|
B:HIS69
|
4.1
|
15.9
|
1.0
|
NE2
|
B:HIS61
|
4.1
|
16.6
|
1.0
|
CD2
|
B:HIS61
|
4.2
|
15.6
|
1.0
|
CB
|
B:ASP81
|
4.3
|
14.1
|
1.0
|
CD2
|
B:HIS69
|
4.3
|
14.0
|
1.0
|
O
|
B:HOH2036
|
4.4
|
88.7
|
1.0
|
O
|
B:HOH2121
|
4.7
|
17.9
|
1.0
|
CA
|
B:ASP81
|
4.7
|
16.9
|
1.0
|
N
|
B:HIS78
|
4.7
|
13.3
|
1.0
|
C
|
B:SER134
|
4.7
|
17.3
|
1.0
|
CA
|
B:HIS78
|
4.8
|
13.1
|
1.0
|
N
|
B:GLY70
|
4.8
|
14.6
|
1.0
|
N
|
B:ASP81
|
4.9
|
16.1
|
1.0
|
CA
|
B:HIS61
|
5.0
|
14.7
|
1.0
|
C
|
B:HIS69
|
5.0
|
16.4
|
1.0
|
N
|
B:HIS69
|
5.0
|
14.4
|
1.0
|
|
Reference:
M.A.Hough,
R.W.Strange,
S.S.Hasnain.
Conformational Variability of the Cu Site in One Subunit of Bovine Cuzn Superoxide Dismutase: the Importance of Mobility in the GLU119-LEU142 Loop Region For Catalytic Function J.Mol.Biol. V. 304 231 2000.
ISSN: ISSN 0022-2836
PubMed: 11080458
DOI: 10.1006/JMBI.2000.4186
Page generated: Tue Jul 30 21:44:11 2024
|