Zinc in PDB 7mw8: Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
Protein crystallography data
The structure of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase, PDB code: 7mw8
was solved by
D.Fernandez,
L.Li,
J.A.Brown,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
|
Resolution Low / High (Å)
|
30.04 /
1.90
|
|
Space group
|
P 1 21 1
|
|
Cell size a, b, c (Å), α, β, γ (°)
|
130.42,
66.719,
134.961,
90,
116.25,
90
|
|
R / Rfree (%)
|
24.3 /
30.3
|
Zinc Binding Sites:
Pages:
>>> Page 1 <<<
Page 2, Binding sites: 11 -
12;
Binding sites:
The binding sites of Zinc atom in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
(pdb code 7mw8). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 12 binding sites of Zinc where determined in the
Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase, PDB code: 7mw8:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
9;
10;
Zinc binding site 1 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 1 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn501
b:29.8
occ:1.00
|
OD1
|
D:ASP54
|
1.8
|
27.7
|
1.0
|
|
OP3
|
K:A1
|
2.0
|
23.9
|
1.0
|
|
OD2
|
D:ASP257
|
2.2
|
28.1
|
1.0
|
|
NE2
|
D:HIS258
|
2.3
|
36.3
|
1.0
|
|
CG
|
D:ASP54
|
2.6
|
29.5
|
1.0
|
|
OD2
|
D:ASP54
|
2.7
|
26.9
|
1.0
|
|
CD2
|
D:HIS258
|
2.9
|
32.1
|
1.0
|
|
CG
|
D:ASP257
|
3.0
|
28.4
|
1.0
|
|
OD1
|
D:ASP257
|
3.1
|
31.8
|
1.0
|
|
CE1
|
D:HIS258
|
3.3
|
35.1
|
1.0
|
|
P
|
K:A1
|
3.4
|
27.9
|
1.0
|
|
CB
|
D:ALA90
|
3.6
|
29.2
|
1.0
|
|
OD1
|
D:ASP210
|
3.7
|
34.2
|
1.0
|
|
CA
|
D:ALA90
|
3.9
|
28.2
|
1.0
|
|
OP1
|
K:A1
|
3.9
|
21.1
|
1.0
|
|
CB
|
D:ASP54
|
4.0
|
31.7
|
1.0
|
|
CG
|
D:ASP210
|
4.0
|
34.5
|
1.0
|
|
ZN
|
D:ZN502
|
4.0
|
32.6
|
1.0
|
|
O5'
|
K:A1
|
4.1
|
28.9
|
1.0
|
|
NE2
|
D:HIS363
|
4.1
|
36.3
|
1.0
|
|
CG
|
D:HIS258
|
4.1
|
35.5
|
1.0
|
|
N
|
D:GLY55
|
4.2
|
32.1
|
1.0
|
|
N
|
D:ALA90
|
4.2
|
30.6
|
1.0
|
|
CE1
|
D:HIS363
|
4.2
|
33.1
|
1.0
|
|
ND1
|
D:HIS258
|
4.2
|
37.8
|
1.0
|
|
OP2
|
K:A1
|
4.3
|
22.2
|
1.0
|
|
CB
|
D:ASP257
|
4.4
|
27.6
|
1.0
|
|
CA
|
D:ASP54
|
4.4
|
31.8
|
1.0
|
|
C5'
|
K:A1
|
4.4
|
34.6
|
1.0
|
|
OD2
|
D:ASP210
|
4.5
|
38.0
|
1.0
|
|
CB
|
D:ASP210
|
4.5
|
34.1
|
1.0
|
|
C
|
D:ASP54
|
4.5
|
30.9
|
1.0
|
|
CE1
|
D:HIS94
|
4.6
|
27.4
|
1.0
|
|
CD2
|
D:HIS363
|
4.8
|
35.2
|
1.0
|
|
CA
|
D:GLY55
|
4.8
|
34.0
|
1.0
|
|
C
|
D:LEU89
|
4.9
|
32.4
|
1.0
|
|
ND1
|
D:HIS363
|
4.9
|
36.7
|
1.0
|
|
Zinc binding site 2 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 2 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn502
b:32.6
occ:1.00
|
OP2
|
K:A1
|
1.8
|
22.2
|
1.0
|
|
OD1
|
D:ASP210
|
1.9
|
34.2
|
1.0
|
|
NE2
|
D:HIS214
|
2.3
|
39.7
|
1.0
|
|
OD2
|
D:ASP210
|
2.3
|
38.0
|
1.0
|
|
NE2
|
D:HIS363
|
2.4
|
36.3
|
1.0
|
|
CG
|
D:ASP210
|
2.4
|
34.5
|
1.0
|
|
OP3
|
K:A1
|
2.7
|
23.9
|
1.0
|
|
P
|
K:A1
|
2.8
|
27.9
|
1.0
|
|
CE1
|
D:HIS214
|
3.0
|
41.4
|
1.0
|
|
CD2
|
D:HIS363
|
3.1
|
35.2
|
1.0
|
|
CD2
|
D:HIS214
|
3.4
|
39.3
|
1.0
|
|
CE1
|
D:HIS363
|
3.4
|
33.1
|
1.0
|
|
O5'
|
K:A1
|
3.9
|
28.9
|
1.0
|
|
OP1
|
K:A1
|
3.9
|
21.1
|
1.0
|
|
CB
|
D:ASP210
|
3.9
|
34.1
|
1.0
|
|
C5'
|
K:A1
|
4.0
|
34.6
|
1.0
|
|
NE2
|
D:HIS258
|
4.0
|
36.3
|
1.0
|
|
ZN
|
D:ZN501
|
4.0
|
29.8
|
1.0
|
|
ND1
|
D:HIS214
|
4.2
|
41.6
|
1.0
|
|
CE1
|
D:HIS258
|
4.3
|
35.1
|
1.0
|
|
CG
|
D:HIS363
|
4.4
|
35.1
|
1.0
|
|
CG
|
D:HIS214
|
4.4
|
39.1
|
1.0
|
|
OD1
|
D:ASP54
|
4.4
|
27.7
|
1.0
|
|
ND1
|
D:HIS363
|
4.5
|
36.7
|
1.0
|
|
O
|
D:ASP210
|
4.6
|
33.1
|
1.0
|
|
O
|
D:HOH620
|
4.8
|
35.5
|
1.0
|
|
CA
|
D:ASP210
|
4.8
|
34.0
|
1.0
|
|
C
|
D:ASP210
|
4.8
|
37.0
|
1.0
|
|
Zinc binding site 3 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 3 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn501
b:22.0
occ:1.00
|
OD1
|
B:ASP54
|
1.8
|
18.9
|
1.0
|
|
OP3
|
L:A1
|
1.9
|
15.9
|
1.0
|
|
OD2
|
B:ASP257
|
2.1
|
17.9
|
1.0
|
|
NE2
|
B:HIS258
|
2.1
|
21.7
|
1.0
|
|
CG
|
B:ASP54
|
2.6
|
22.9
|
1.0
|
|
OD2
|
B:ASP54
|
2.8
|
22.4
|
1.0
|
|
CE1
|
B:HIS258
|
2.9
|
21.9
|
1.0
|
|
CG
|
B:ASP257
|
3.0
|
19.4
|
1.0
|
|
OD1
|
B:ASP257
|
3.2
|
18.7
|
1.0
|
|
CD2
|
B:HIS258
|
3.2
|
20.6
|
1.0
|
|
P
|
L:A1
|
3.3
|
19.3
|
1.0
|
|
CB
|
B:ALA90
|
3.4
|
20.5
|
1.0
|
|
OD1
|
B:ASP210
|
3.6
|
20.2
|
1.0
|
|
CA
|
B:ALA90
|
3.9
|
18.6
|
1.0
|
|
CB
|
B:ASP54
|
4.0
|
22.8
|
1.0
|
|
OP1
|
L:A1
|
4.0
|
15.9
|
1.0
|
|
NE2
|
B:HIS363
|
4.0
|
20.8
|
1.0
|
|
CG
|
B:ASP210
|
4.0
|
21.2
|
1.0
|
|
N
|
B:GLY55
|
4.1
|
23.6
|
1.0
|
|
ND1
|
B:HIS258
|
4.1
|
20.8
|
1.0
|
|
ZN
|
B:ZN502
|
4.1
|
24.1
|
1.0
|
|
O5'
|
L:A1
|
4.1
|
21.1
|
1.0
|
|
CE1
|
B:HIS363
|
4.1
|
19.4
|
1.0
|
|
N
|
B:ALA90
|
4.2
|
18.9
|
1.0
|
|
CG
|
B:HIS258
|
4.2
|
21.2
|
1.0
|
|
C5'
|
L:A1
|
4.3
|
22.3
|
1.0
|
|
CB
|
B:ASP257
|
4.3
|
17.2
|
1.0
|
|
OP2
|
L:A1
|
4.4
|
17.9
|
1.0
|
|
CA
|
B:ASP54
|
4.5
|
23.0
|
1.0
|
|
CB
|
B:ASP210
|
4.5
|
20.5
|
1.0
|
|
C
|
B:ASP54
|
4.5
|
24.5
|
1.0
|
|
OD2
|
B:ASP210
|
4.5
|
24.1
|
1.0
|
|
CA
|
B:GLY55
|
4.7
|
23.6
|
1.0
|
|
CD2
|
B:HIS363
|
4.8
|
20.3
|
1.0
|
|
CE1
|
B:HIS94
|
4.8
|
20.8
|
1.0
|
|
ND1
|
B:HIS363
|
4.8
|
22.9
|
1.0
|
|
C
|
B:LEU89
|
4.9
|
20.6
|
1.0
|
|
Zinc binding site 4 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 4 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn502
b:24.1
occ:1.00
|
OD1
|
B:ASP210
|
1.8
|
20.2
|
1.0
|
|
NE2
|
B:HIS363
|
2.0
|
20.8
|
1.0
|
|
OP2
|
L:A1
|
2.1
|
17.9
|
1.0
|
|
NE2
|
B:HIS214
|
2.3
|
25.3
|
1.0
|
|
CG
|
B:ASP210
|
2.5
|
21.2
|
1.0
|
|
OD2
|
B:ASP210
|
2.5
|
24.1
|
1.0
|
|
OP3
|
L:A1
|
2.7
|
15.9
|
1.0
|
|
P
|
L:A1
|
2.9
|
19.3
|
1.0
|
|
CD2
|
B:HIS363
|
3.0
|
20.3
|
1.0
|
|
CE1
|
B:HIS363
|
3.0
|
19.4
|
1.0
|
|
CD2
|
B:HIS214
|
3.0
|
27.2
|
1.0
|
|
CE1
|
B:HIS214
|
3.4
|
28.9
|
1.0
|
|
OP1
|
L:A1
|
3.9
|
15.9
|
1.0
|
|
CB
|
B:ASP210
|
4.0
|
20.5
|
1.0
|
|
O5'
|
L:A1
|
4.0
|
21.1
|
1.0
|
|
ZN
|
B:ZN501
|
4.1
|
22.0
|
1.0
|
|
C5'
|
L:A1
|
4.1
|
22.3
|
1.0
|
|
ND1
|
B:HIS363
|
4.1
|
22.9
|
1.0
|
|
CG
|
B:HIS363
|
4.2
|
21.3
|
1.0
|
|
CG
|
B:HIS214
|
4.3
|
25.1
|
1.0
|
|
CE1
|
B:HIS258
|
4.3
|
21.9
|
1.0
|
|
ND1
|
B:HIS214
|
4.4
|
26.7
|
1.0
|
|
NE2
|
B:HIS258
|
4.5
|
21.7
|
1.0
|
|
OD1
|
B:ASP54
|
4.6
|
18.9
|
1.0
|
|
O
|
B:ASP210
|
4.6
|
22.1
|
1.0
|
|
CE
|
B:MET260
|
4.8
|
25.2
|
1.0
|
|
CA
|
B:ASP210
|
4.8
|
21.6
|
1.0
|
|
C
|
B:ASP210
|
4.9
|
23.6
|
1.0
|
|
O
|
B:HOH645
|
4.9
|
19.0
|
1.0
|
|
Zinc binding site 5 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 5 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn501
b:24.5
occ:1.00
|
OP3
|
M:A1
|
1.9
|
23.5
|
1.0
|
|
OD1
|
C:ASP54
|
1.9
|
21.6
|
1.0
|
|
OD2
|
C:ASP257
|
2.0
|
18.6
|
1.0
|
|
NE2
|
C:HIS258
|
2.1
|
20.5
|
1.0
|
|
CG
|
C:ASP54
|
2.7
|
24.6
|
1.0
|
|
CG
|
C:ASP257
|
2.8
|
23.6
|
1.0
|
|
CE1
|
C:HIS258
|
2.8
|
21.0
|
1.0
|
|
OD2
|
C:ASP54
|
2.9
|
26.8
|
1.0
|
|
OD1
|
C:ASP257
|
3.0
|
27.4
|
1.0
|
|
CD2
|
C:HIS258
|
3.1
|
19.5
|
1.0
|
|
P
|
M:A1
|
3.3
|
23.1
|
1.0
|
|
CB
|
C:ALA90
|
3.7
|
19.0
|
1.0
|
|
OD1
|
C:ASP210
|
3.7
|
27.0
|
1.0
|
|
CG
|
C:ASP210
|
3.9
|
26.2
|
1.0
|
|
OP1
|
M:A1
|
4.0
|
21.9
|
1.0
|
|
ND1
|
C:HIS258
|
4.0
|
20.2
|
1.0
|
|
CA
|
C:ALA90
|
4.0
|
18.6
|
1.0
|
|
ZN
|
C:ZN502
|
4.0
|
25.0
|
1.0
|
|
N
|
C:GLY55
|
4.0
|
24.1
|
1.0
|
|
NE2
|
C:HIS363
|
4.0
|
28.0
|
1.0
|
|
CB
|
C:ASP54
|
4.1
|
25.3
|
1.0
|
|
CE1
|
C:HIS363
|
4.1
|
25.7
|
1.0
|
|
O5'
|
M:A1
|
4.1
|
23.0
|
1.0
|
|
CG
|
C:HIS258
|
4.1
|
21.5
|
1.0
|
|
N
|
C:ALA90
|
4.2
|
19.2
|
1.0
|
|
CB
|
C:ASP257
|
4.2
|
22.6
|
1.0
|
|
OD2
|
C:ASP210
|
4.2
|
29.4
|
1.0
|
|
OP2
|
M:A1
|
4.3
|
22.1
|
1.0
|
|
C5'
|
M:A1
|
4.3
|
22.9
|
1.0
|
|
CA
|
C:ASP54
|
4.5
|
25.2
|
1.0
|
|
CB
|
C:ASP210
|
4.5
|
23.8
|
1.0
|
|
C
|
C:ASP54
|
4.5
|
25.1
|
1.0
|
|
CA
|
C:GLY55
|
4.7
|
23.8
|
1.0
|
|
ND1
|
C:HIS363
|
4.8
|
25.0
|
1.0
|
|
CD2
|
C:HIS363
|
4.8
|
25.5
|
1.0
|
|
CE1
|
C:HIS94
|
4.8
|
21.1
|
1.0
|
|
C
|
C:LEU89
|
4.9
|
22.5
|
1.0
|
|
Zinc binding site 6 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 6 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn502
b:25.0
occ:1.00
|
OP2
|
M:A1
|
2.0
|
22.1
|
1.0
|
|
NE2
|
C:HIS363
|
2.2
|
28.0
|
1.0
|
|
NE2
|
C:HIS214
|
2.2
|
31.0
|
1.0
|
|
OD1
|
C:ASP210
|
2.2
|
27.0
|
1.0
|
|
OD2
|
C:ASP210
|
2.2
|
29.4
|
1.0
|
|
CG
|
C:ASP210
|
2.5
|
26.2
|
1.0
|
|
OP3
|
M:A1
|
2.8
|
23.5
|
1.0
|
|
P
|
M:A1
|
2.9
|
23.1
|
1.0
|
|
CD2
|
C:HIS363
|
3.1
|
25.5
|
1.0
|
|
CE1
|
C:HIS214
|
3.1
|
33.1
|
1.0
|
|
CD2
|
C:HIS214
|
3.2
|
30.7
|
1.0
|
|
CE1
|
C:HIS363
|
3.2
|
25.7
|
1.0
|
|
OP1
|
M:A1
|
3.9
|
21.9
|
1.0
|
|
O
|
M:HOH102
|
3.9
|
26.2
|
1.0
|
|
CB
|
C:ASP210
|
4.0
|
23.8
|
1.0
|
|
O5'
|
M:A1
|
4.0
|
23.0
|
1.0
|
|
ZN
|
C:ZN501
|
4.0
|
24.5
|
1.0
|
|
C5'
|
M:A1
|
4.2
|
22.9
|
1.0
|
|
ND1
|
C:HIS214
|
4.2
|
32.8
|
1.0
|
|
CE1
|
C:HIS258
|
4.2
|
21.0
|
1.0
|
|
CG
|
C:HIS363
|
4.2
|
25.9
|
1.0
|
|
CG
|
C:HIS214
|
4.3
|
32.0
|
1.0
|
|
ND1
|
C:HIS363
|
4.3
|
25.0
|
1.0
|
|
NE2
|
C:HIS258
|
4.4
|
20.5
|
1.0
|
|
OD1
|
C:ASP54
|
4.6
|
21.6
|
1.0
|
|
O
|
C:ASP210
|
4.7
|
23.9
|
1.0
|
|
CE
|
C:MET260
|
4.8
|
27.6
|
1.0
|
|
O
|
C:HOH641
|
4.8
|
23.0
|
1.0
|
|
CA
|
C:ASP210
|
4.8
|
25.3
|
1.0
|
|
C
|
C:ASP210
|
4.9
|
27.0
|
1.0
|
|
Zinc binding site 7 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 7 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn501
b:27.0
occ:1.00
|
OP1
|
J:A1
|
1.8
|
24.5
|
1.0
|
|
OD2
|
A:ASP257
|
2.0
|
31.3
|
1.0
|
|
OD1
|
A:ASP54
|
2.1
|
23.6
|
1.0
|
|
NE2
|
A:HIS258
|
2.2
|
33.0
|
1.0
|
|
OD2
|
A:ASP54
|
2.6
|
34.6
|
1.0
|
|
CG
|
A:ASP54
|
2.7
|
27.8
|
1.0
|
|
CE1
|
A:HIS258
|
3.0
|
32.9
|
1.0
|
|
CG
|
A:ASP257
|
3.0
|
30.5
|
1.0
|
|
CD2
|
A:HIS258
|
3.1
|
31.4
|
1.0
|
|
P
|
J:A1
|
3.3
|
24.1
|
1.0
|
|
OD1
|
A:ASP257
|
3.4
|
28.1
|
1.0
|
|
OD1
|
A:ASP210
|
3.6
|
28.1
|
1.0
|
|
CB
|
A:ALA90
|
3.6
|
24.6
|
1.0
|
|
CA
|
A:ALA90
|
3.9
|
25.0
|
1.0
|
|
CG
|
A:ASP210
|
3.9
|
24.8
|
1.0
|
|
OP3
|
J:A1
|
3.9
|
27.2
|
1.0
|
|
ZN
|
A:ZN502
|
4.0
|
26.6
|
1.0
|
|
O5'
|
J:A1
|
4.0
|
29.0
|
1.0
|
|
NE2
|
A:HIS363
|
4.0
|
39.0
|
1.0
|
|
N
|
A:ALA90
|
4.1
|
24.9
|
1.0
|
|
ND1
|
A:HIS258
|
4.1
|
34.5
|
1.0
|
|
CE1
|
A:HIS363
|
4.1
|
34.8
|
1.0
|
|
CB
|
A:ASP54
|
4.1
|
31.0
|
1.0
|
|
CG
|
A:HIS258
|
4.2
|
31.2
|
1.0
|
|
N
|
A:GLY55
|
4.2
|
29.8
|
1.0
|
|
OD2
|
A:ASP210
|
4.3
|
24.1
|
1.0
|
|
C5'
|
J:A1
|
4.3
|
29.8
|
1.0
|
|
CB
|
A:ASP257
|
4.3
|
28.6
|
1.0
|
|
OP2
|
J:A1
|
4.4
|
25.3
|
1.0
|
|
CB
|
A:ASP210
|
4.6
|
26.1
|
1.0
|
|
CA
|
A:ASP54
|
4.7
|
30.8
|
1.0
|
|
C
|
A:ASP54
|
4.7
|
31.8
|
1.0
|
|
C
|
A:LEU89
|
4.7
|
24.6
|
1.0
|
|
CD2
|
A:HIS363
|
4.8
|
34.4
|
1.0
|
|
CA
|
A:GLY55
|
4.8
|
28.5
|
1.0
|
|
ND1
|
A:HIS363
|
4.8
|
34.3
|
1.0
|
|
CE1
|
A:HIS94
|
5.0
|
25.2
|
1.0
|
|
Zinc binding site 8 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 8 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn502
b:26.6
occ:1.00
|
OD2
|
A:ASP210
|
2.1
|
24.1
|
1.0
|
|
NE2
|
A:HIS214
|
2.1
|
35.3
|
1.0
|
|
NE2
|
A:HIS363
|
2.2
|
39.0
|
1.0
|
|
OP2
|
J:A1
|
2.2
|
25.3
|
1.0
|
|
OD1
|
A:ASP210
|
2.3
|
28.1
|
1.0
|
|
CG
|
A:ASP210
|
2.5
|
24.8
|
1.0
|
|
OP1
|
J:A1
|
2.7
|
24.5
|
1.0
|
|
P
|
J:A1
|
2.9
|
24.1
|
1.0
|
|
CD2
|
A:HIS363
|
3.0
|
34.4
|
1.0
|
|
CE1
|
A:HIS214
|
3.0
|
37.4
|
1.0
|
|
CD2
|
A:HIS214
|
3.1
|
33.6
|
1.0
|
|
CE1
|
A:HIS363
|
3.3
|
34.8
|
1.0
|
|
ZN
|
A:ZN501
|
4.0
|
27.0
|
1.0
|
|
O5'
|
J:A1
|
4.0
|
29.0
|
1.0
|
|
OP3
|
J:A1
|
4.0
|
27.2
|
1.0
|
|
CB
|
A:ASP210
|
4.1
|
26.1
|
1.0
|
|
ND1
|
A:HIS214
|
4.2
|
36.7
|
1.0
|
|
C4'
|
J:G2
|
4.2
|
63.4
|
1.0
|
|
C5'
|
J:A1
|
4.2
|
29.8
|
1.0
|
|
CG
|
A:HIS363
|
4.2
|
32.9
|
1.0
|
|
CG
|
A:HIS214
|
4.2
|
35.9
|
1.0
|
|
NE2
|
A:HIS258
|
4.3
|
33.0
|
1.0
|
|
ND1
|
A:HIS363
|
4.3
|
34.3
|
1.0
|
|
CE1
|
A:HIS258
|
4.4
|
32.9
|
1.0
|
|
OD1
|
A:ASP54
|
4.5
|
23.6
|
1.0
|
|
C5'
|
J:G2
|
4.5
|
64.0
|
1.0
|
|
O
|
A:HOH637
|
4.5
|
17.6
|
1.0
|
|
O4'
|
J:G2
|
4.6
|
65.7
|
1.0
|
|
O
|
A:ASP210
|
4.7
|
24.3
|
1.0
|
|
CE
|
A:MET260
|
4.9
|
32.3
|
1.0
|
|
CA
|
A:ASP210
|
4.9
|
27.0
|
1.0
|
|
C
|
A:ASP210
|
5.0
|
27.2
|
1.0
|
|
Zinc binding site 9 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 9 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 9 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn501
b:37.5
occ:1.00
|
OP3
|
N:A1
|
1.8
|
32.6
|
1.0
|
|
OD1
|
E:ASP54
|
1.9
|
28.5
|
1.0
|
|
OD2
|
E:ASP257
|
1.9
|
34.7
|
1.0
|
|
NE2
|
E:HIS258
|
2.2
|
45.7
|
1.0
|
|
CG
|
E:ASP54
|
2.8
|
33.1
|
1.0
|
|
CE1
|
E:HIS258
|
2.8
|
43.5
|
1.0
|
|
CG
|
E:ASP257
|
2.9
|
36.7
|
1.0
|
|
OD2
|
E:ASP54
|
3.0
|
29.0
|
1.0
|
|
P
|
N:A1
|
3.3
|
30.3
|
1.0
|
|
CD2
|
E:HIS258
|
3.3
|
38.8
|
1.0
|
|
OD1
|
E:ASP210
|
3.3
|
42.4
|
1.0
|
|
OD1
|
E:ASP257
|
3.4
|
35.7
|
1.0
|
|
CB
|
E:ALA90
|
3.6
|
25.6
|
1.0
|
|
OP1
|
N:A1
|
3.9
|
27.5
|
1.0
|
|
CG
|
E:ASP210
|
4.0
|
38.6
|
1.0
|
|
ND1
|
E:HIS258
|
4.0
|
42.3
|
1.0
|
|
CA
|
E:ALA90
|
4.0
|
25.2
|
1.0
|
|
NE2
|
E:HIS363
|
4.0
|
37.9
|
1.0
|
|
CE1
|
E:HIS363
|
4.0
|
36.0
|
1.0
|
|
ZN
|
E:ZN502
|
4.0
|
33.6
|
1.0
|
|
O5'
|
N:A1
|
4.1
|
32.7
|
1.0
|
|
N
|
E:ALA90
|
4.1
|
24.9
|
1.0
|
|
CB
|
E:ASP54
|
4.2
|
35.4
|
1.0
|
|
CG
|
E:HIS258
|
4.2
|
38.6
|
1.0
|
|
N
|
E:GLY55
|
4.2
|
34.2
|
1.0
|
|
CB
|
E:ASP257
|
4.2
|
33.6
|
1.0
|
|
OP2
|
N:A1
|
4.3
|
32.4
|
1.0
|
|
C5'
|
N:A1
|
4.4
|
34.1
|
1.0
|
|
CB
|
E:ASP210
|
4.6
|
36.8
|
1.0
|
|
OD2
|
E:ASP210
|
4.6
|
39.1
|
1.0
|
|
CA
|
E:ASP54
|
4.6
|
33.9
|
1.0
|
|
C
|
E:ASP54
|
4.7
|
37.1
|
1.0
|
|
ND1
|
E:HIS363
|
4.8
|
34.8
|
1.0
|
|
CD2
|
E:HIS363
|
4.8
|
34.9
|
1.0
|
|
CA
|
E:GLY55
|
4.8
|
33.5
|
1.0
|
|
C
|
E:LEU89
|
4.9
|
27.2
|
1.0
|
|
CE1
|
E:HIS94
|
4.9
|
25.4
|
1.0
|
|
Zinc binding site 10 out
of 12 in 7mw8
Go back to
Zinc Binding Sites List in 7mw8
Zinc binding site 10 out
of 12 in the Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase
 Mono view
 Stereo pair view
|
|
A full contact list of Zinc with other atoms in the Zn binding
site number 10 of Crystal Structure Analysis of Xac Nucleotide Pyrophosphatase/Phosphodiesterase within 5.0Å range:
|
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn502
b:33.6
occ:1.00
|
OD1
|
E:ASP210
|
2.1
|
42.4
|
1.0
|
|
OP2
|
N:A1
|
2.2
|
32.4
|
1.0
|
|
NE2
|
E:HIS363
|
2.3
|
37.9
|
1.0
|
|
OD2
|
E:ASP210
|
2.3
|
39.1
|
1.0
|
|
NE2
|
E:HIS214
|
2.5
|
39.8
|
1.0
|
|
CG
|
E:ASP210
|
2.6
|
38.6
|
1.0
|
|
OP3
|
N:A1
|
2.8
|
32.6
|
1.0
|
|
CD2
|
E:HIS214
|
2.8
|
40.1
|
1.0
|
|
P
|
N:A1
|
3.0
|
30.3
|
1.0
|
|
CD2
|
E:HIS363
|
3.1
|
34.9
|
1.0
|
|
CE1
|
E:HIS363
|
3.4
|
36.0
|
1.0
|
|
CE1
|
E:HIS214
|
3.7
|
42.8
|
1.0
|
|
O
|
N:HOH101
|
3.8
|
23.1
|
1.0
|
|
ZN
|
E:ZN501
|
4.0
|
37.5
|
1.0
|
|
OP1
|
N:A1
|
4.1
|
27.5
|
1.0
|
|
O5'
|
N:A1
|
4.1
|
32.7
|
1.0
|
|
CB
|
E:ASP210
|
4.1
|
36.8
|
1.0
|
|
CG
|
E:HIS214
|
4.1
|
41.7
|
1.0
|
|
C5'
|
N:A1
|
4.2
|
34.1
|
1.0
|
|
CG
|
E:HIS363
|
4.3
|
36.2
|
1.0
|
|
CE1
|
E:HIS258
|
4.3
|
43.5
|
1.0
|
|
OD1
|
E:ASP54
|
4.4
|
28.5
|
1.0
|
|
ND1
|
E:HIS363
|
4.4
|
34.8
|
1.0
|
|
NE2
|
E:HIS258
|
4.5
|
45.7
|
1.0
|
|
ND1
|
E:HIS214
|
4.5
|
43.0
|
1.0
|
|
O
|
E:ASP210
|
4.6
|
33.1
|
1.0
|
|
CE
|
E:MET260
|
4.7
|
39.1
|
1.0
|
|
C
|
E:ASP210
|
5.0
|
36.2
|
1.0
|
|
CA
|
E:ASP210
|
5.0
|
35.7
|
1.0
|
|
Reference:
J.A.Carozza,
A.F.Cordova,
J.A.Brown,
Y.Alsaif,
V.Bohnert,
X.Cao,
R.E.Mardjuki,
G.Skariah,
D.Fernandez,
L.Li.
ENPP1'S Regulation of Extracellular Cgamp Is A Ubiquitous Mechanism of Attenuating Sting Signaling. Proc.Natl.Acad.Sci.Usa V. 119 89119 2022.
ISSN: ESSN 1091-6490
PubMed: 35588451
DOI: 10.1073/PNAS.2119189119
Page generated: Wed Oct 30 07:36:28 2024
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