Arsenic in PDB 1ra7: Poliovirus Polymerase with Gtp
Enzymatic activity of Poliovirus Polymerase with Gtp
All present enzymatic activity of Poliovirus Polymerase with Gtp:
2.7.7.48;
Protein crystallography data
The structure of Poliovirus Polymerase with Gtp, PDB code: 1ra7
was solved by
A.A.Thompson,
O.B.Peersen,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
30.00 /
2.35
|
Space group
|
P 65
|
Cell size a, b, c (Å), α, β, γ (°)
|
128.049,
128.049,
112.759,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
22.2 /
25.9
|
Arsenic Binding Sites:
The binding sites of Arsenic atom in the Poliovirus Polymerase with Gtp
(pdb code 1ra7). This binding sites where shown within
5.0 Angstroms radius around Arsenic atom.
In total 4 binding sites of Arsenic where determined in the
Poliovirus Polymerase with Gtp, PDB code: 1ra7:
Jump to Arsenic binding site number:
1;
2;
3;
4;
Arsenic binding site 1 out
of 4 in 1ra7
Go back to
Arsenic Binding Sites List in 1ra7
Arsenic binding site 1 out
of 4 in the Poliovirus Polymerase with Gtp
 Mono view
 Stereo pair view
|
A full contact list of Arsenic with other atoms in the As binding
site number 1 of Poliovirus Polymerase with Gtp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:As96
b:81.4
occ:1.00
|
AS
|
A:CAS96
|
0.0
|
81.4
|
1.0
|
CE2
|
A:CAS96
|
2.2
|
79.7
|
1.0
|
CE1
|
A:CAS96
|
2.2
|
80.6
|
1.0
|
SG
|
A:CAS96
|
2.3
|
80.5
|
1.0
|
CB
|
A:CAS96
|
3.2
|
75.6
|
1.0
|
OD2
|
A:ASP99
|
4.2
|
73.1
|
1.0
|
CA
|
A:CAS96
|
4.6
|
74.3
|
1.0
|
CG
|
A:ASP99
|
4.6
|
72.4
|
1.0
|
CB
|
A:GLU98
|
4.8
|
74.6
|
1.0
|
|
Arsenic binding site 2 out
of 4 in 1ra7
Go back to
Arsenic Binding Sites List in 1ra7
Arsenic binding site 2 out
of 4 in the Poliovirus Polymerase with Gtp
 Mono view
 Stereo pair view
|
A full contact list of Arsenic with other atoms in the As binding
site number 2 of Poliovirus Polymerase with Gtp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:As212
b:52.0
occ:1.00
|
AS
|
A:CAS212
|
0.0
|
52.0
|
1.0
|
CE2
|
A:CAS212
|
2.2
|
45.6
|
1.0
|
CE1
|
A:CAS212
|
2.2
|
50.0
|
1.0
|
SG
|
A:CAS212
|
2.3
|
34.5
|
1.0
|
CB
|
A:CAS212
|
3.3
|
32.4
|
1.0
|
O
|
A:ALA209
|
3.4
|
28.8
|
1.0
|
CD1
|
A:LEU374
|
3.5
|
44.8
|
1.0
|
O
|
A:CAS212
|
3.6
|
24.3
|
1.0
|
CA
|
A:CAS212
|
3.8
|
26.6
|
1.0
|
N
|
A:CAS212
|
3.9
|
28.4
|
1.0
|
C
|
A:CAS212
|
3.9
|
25.5
|
1.0
|
CE2
|
A:TYR326
|
4.1
|
40.5
|
1.0
|
CD2
|
A:TYR326
|
4.2
|
38.9
|
1.0
|
C
|
A:ALA209
|
4.4
|
30.4
|
1.0
|
CG
|
A:PRO214
|
4.4
|
26.1
|
1.0
|
CD
|
A:PRO214
|
4.6
|
23.0
|
1.0
|
CB
|
A:ALA209
|
4.7
|
27.7
|
1.0
|
N
|
A:ASP213
|
4.8
|
23.9
|
1.0
|
O
|
A:HOH538
|
4.9
|
41.4
|
1.0
|
N
|
A:GLY211
|
4.9
|
31.2
|
1.0
|
C
|
A:GLY211
|
4.9
|
31.5
|
1.0
|
CG
|
A:LEU374
|
5.0
|
41.8
|
1.0
|
CZ
|
A:TYR326
|
5.0
|
40.1
|
1.0
|
|
Arsenic binding site 3 out
of 4 in 1ra7
Go back to
Arsenic Binding Sites List in 1ra7
Arsenic binding site 3 out
of 4 in the Poliovirus Polymerase with Gtp
 Mono view
 Stereo pair view
|
A full contact list of Arsenic with other atoms in the As binding
site number 3 of Poliovirus Polymerase with Gtp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:As281
b:43.7
occ:1.00
|
AS
|
A:CAS281
|
0.0
|
43.7
|
1.0
|
CE2
|
A:CAS281
|
2.2
|
38.4
|
1.0
|
SG
|
A:CAS281
|
2.2
|
38.0
|
1.0
|
CE1
|
A:CAS281
|
2.2
|
39.4
|
1.0
|
CB
|
A:CAS281
|
3.1
|
40.4
|
1.0
|
O
|
A:SER271
|
3.7
|
35.9
|
1.0
|
CA
|
A:CAS281
|
3.7
|
39.7
|
1.0
|
C
|
A:SER271
|
4.0
|
37.4
|
1.0
|
CA
|
A:HIS272
|
4.0
|
40.0
|
1.0
|
CB
|
A:HIS272
|
4.1
|
40.0
|
1.0
|
N
|
A:HIS272
|
4.1
|
38.8
|
1.0
|
CZ2
|
A:TRP5
|
4.4
|
30.1
|
1.0
|
CG
|
A:HIS272
|
4.5
|
39.2
|
1.0
|
C
|
A:CAS281
|
4.7
|
37.0
|
1.0
|
CD2
|
A:HIS272
|
4.7
|
37.5
|
1.0
|
N
|
A:VAL282
|
4.7
|
35.8
|
1.0
|
N
|
A:CAS281
|
4.9
|
40.2
|
1.0
|
CA
|
A:SER271
|
4.9
|
39.6
|
1.0
|
O
|
A:TYR280
|
4.9
|
40.8
|
1.0
|
CH2
|
A:TRP5
|
5.0
|
32.0
|
1.0
|
|
Arsenic binding site 4 out
of 4 in 1ra7
Go back to
Arsenic Binding Sites List in 1ra7
Arsenic binding site 4 out
of 4 in the Poliovirus Polymerase with Gtp
 Mono view
 Stereo pair view
|
A full contact list of Arsenic with other atoms in the As binding
site number 4 of Poliovirus Polymerase with Gtp within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:As290
b:60.3
occ:1.00
|
AS
|
A:CAS290
|
0.0
|
60.3
|
1.0
|
CE2
|
A:CAS290
|
2.2
|
58.8
|
1.0
|
CE1
|
A:CAS290
|
2.2
|
60.2
|
1.0
|
SG
|
A:CAS290
|
2.3
|
56.5
|
1.0
|
CB
|
A:CAS290
|
3.2
|
51.9
|
1.0
|
SD
|
A:MET187
|
3.6
|
52.6
|
1.0
|
CD2
|
A:LEU268
|
3.6
|
34.6
|
1.0
|
CA
|
A:CAS290
|
4.3
|
50.6
|
1.0
|
CG
|
A:LEU268
|
4.4
|
37.0
|
1.0
|
CB
|
A:SER179
|
4.5
|
49.2
|
1.0
|
CD2
|
A:LEU154
|
4.5
|
47.1
|
1.0
|
CE
|
A:MET187
|
4.5
|
51.0
|
1.0
|
CD2
|
A:TYR267
|
4.5
|
62.5
|
1.0
|
OG
|
A:SER179
|
4.5
|
49.2
|
1.0
|
CB
|
A:ASP183
|
5.0
|
53.1
|
1.0
|
|
Reference:
A.A.Thompson,
O.B.Peersen.
Structural Basis For Proteolysis-Dependent Activation of the Poliovirus Rna-Dependent Rna Polymerase. Embo J. V. 23 3462 2004.
ISSN: ISSN 0261-4189
PubMed: 15306852
DOI: 10.1038/SJ.EMBOJ.7600357
Page generated: Wed Jul 10 11:11:41 2024
|