Potassium in PDB 1tyy: Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
Enzymatic activity of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
All present enzymatic activity of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica:
2.7.1.4;
Protein crystallography data
The structure of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica, PDB code: 1tyy
was solved by
Y.Zhang,
M.Dougherty,
D.M.Downs,
S.E.Ealick,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
32.01 /
2.60
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
137.430,
53.987,
89.485,
90.00,
90.00,
90.00
|
R / Rfree (%)
|
22.2 /
29.3
|
Potassium Binding Sites:
The binding sites of Potassium atom in the Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
(pdb code 1tyy). This binding sites where shown within
5.0 Angstroms radius around Potassium atom.
In total 4 binding sites of Potassium where determined in the
Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica, PDB code: 1tyy:
Jump to Potassium binding site number:
1;
2;
3;
4;
Potassium binding site 1 out
of 4 in 1tyy
Go back to
Potassium Binding Sites List in 1tyy
Potassium binding site 1 out
of 4 in the Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 1 of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K404
b:84.8
occ:1.00
|
O
|
A:THR248
|
2.5
|
78.0
|
1.0
|
O
|
A:GLY292
|
2.6
|
88.2
|
1.0
|
O
|
A:ASP246
|
2.9
|
0.8
|
1.0
|
O
|
A:ALA287
|
3.2
|
72.4
|
1.0
|
OD1
|
A:ASP246
|
3.3
|
83.9
|
1.0
|
C
|
A:GLY292
|
3.3
|
88.2
|
1.0
|
C
|
A:THR248
|
3.5
|
78.0
|
1.0
|
CG
|
A:ASP246
|
3.6
|
83.9
|
1.0
|
CB
|
A:ASP246
|
3.7
|
83.9
|
1.0
|
N
|
A:THR248
|
3.8
|
78.0
|
1.0
|
CB
|
A:THR248
|
3.8
|
96.0
|
1.0
|
C
|
A:ASP246
|
3.8
|
0.8
|
1.0
|
CA
|
A:THR248
|
3.8
|
78.0
|
1.0
|
N
|
A:ALA293
|
3.9
|
83.5
|
1.0
|
CA
|
A:ALA293
|
3.9
|
83.5
|
1.0
|
N
|
A:GLY292
|
4.0
|
88.2
|
1.0
|
O
|
A:ALA290
|
4.1
|
90.4
|
1.0
|
C
|
A:ALA287
|
4.2
|
72.4
|
1.0
|
CA
|
A:GLY292
|
4.3
|
88.2
|
1.0
|
C
|
A:LYS291
|
4.3
|
0.6
|
1.0
|
O
|
A:ALA293
|
4.4
|
83.5
|
1.0
|
OD2
|
A:ASP246
|
4.4
|
83.9
|
1.0
|
CA
|
A:ASP246
|
4.4
|
0.8
|
1.0
|
C
|
A:ALA293
|
4.4
|
83.5
|
1.0
|
C
|
A:THR247
|
4.4
|
72.4
|
1.0
|
C
|
A:ALA290
|
4.6
|
90.4
|
1.0
|
CA
|
A:VAL288
|
4.6
|
65.7
|
1.0
|
CG2
|
A:THR248
|
4.7
|
96.0
|
1.0
|
N
|
A:GLY249
|
4.7
|
59.1
|
1.0
|
CA
|
A:LYS291
|
4.8
|
0.6
|
1.0
|
N
|
A:THR247
|
4.8
|
72.4
|
1.0
|
O
|
A:LYS291
|
4.8
|
0.6
|
1.0
|
N
|
A:VAL288
|
4.8
|
65.7
|
1.0
|
N
|
A:LYS291
|
4.8
|
0.6
|
1.0
|
OG1
|
A:THR248
|
4.9
|
96.0
|
1.0
|
|
Potassium binding site 2 out
of 4 in 1tyy
Go back to
Potassium Binding Sites List in 1tyy
Potassium binding site 2 out
of 4 in the Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 2 of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:K405
b:78.3
occ:1.00
|
O
|
A:ALA183
|
2.5
|
66.3
|
1.0
|
O
|
A:ALA181
|
2.6
|
59.1
|
1.0
|
O
|
A:ALA180
|
2.9
|
63.7
|
1.0
|
O
|
A:GLY213
|
3.0
|
63.8
|
1.0
|
C
|
A:ALA181
|
3.5
|
59.1
|
1.0
|
C
|
A:ALA183
|
3.6
|
66.3
|
1.0
|
C
|
A:GLY213
|
3.9
|
63.8
|
1.0
|
CA
|
A:CYS214
|
4.0
|
58.0
|
1.0
|
N
|
A:ALA183
|
4.1
|
66.3
|
1.0
|
C
|
A:ALA180
|
4.1
|
63.7
|
1.0
|
NH2
|
A:ARG149
|
4.1
|
62.2
|
1.0
|
C
|
A:LEU182
|
4.2
|
56.2
|
1.0
|
CA
|
A:ALA181
|
4.2
|
59.1
|
1.0
|
CA
|
A:ALA183
|
4.3
|
66.3
|
1.0
|
O
|
A:LEU182
|
4.4
|
56.2
|
1.0
|
N
|
A:CYS214
|
4.4
|
58.0
|
1.0
|
N
|
A:LEU182
|
4.4
|
56.2
|
1.0
|
N
|
A:ALA181
|
4.6
|
59.1
|
1.0
|
CB
|
A:CYS214
|
4.6
|
75.8
|
1.0
|
N
|
A:SER184
|
4.6
|
53.5
|
1.0
|
CA
|
A:LEU182
|
4.7
|
56.2
|
1.0
|
CA
|
A:SER184
|
4.8
|
53.5
|
1.0
|
CB
|
A:ALA183
|
4.9
|
39.9
|
1.0
|
N
|
A:ASP215
|
5.0
|
54.4
|
1.0
|
|
Potassium binding site 3 out
of 4 in 1tyy
Go back to
Potassium Binding Sites List in 1tyy
Potassium binding site 3 out
of 4 in the Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 3 of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K504
b:75.5
occ:1.00
|
O
|
B:ALA181
|
2.5
|
66.4
|
1.0
|
O
|
B:ALA180
|
2.7
|
70.3
|
1.0
|
O
|
B:GLY213
|
2.8
|
49.5
|
1.0
|
O
|
B:ALA183
|
2.8
|
48.3
|
1.0
|
C
|
B:ALA181
|
3.1
|
66.4
|
1.0
|
CA
|
B:ALA181
|
3.6
|
66.4
|
1.0
|
C
|
B:GLY213
|
3.7
|
49.5
|
1.0
|
C
|
B:ALA180
|
3.8
|
70.3
|
1.0
|
N
|
B:ALA183
|
3.8
|
48.3
|
1.0
|
C
|
B:ALA183
|
3.9
|
48.3
|
1.0
|
N
|
B:LEU182
|
4.0
|
54.0
|
1.0
|
C
|
B:LEU182
|
4.1
|
54.0
|
1.0
|
N
|
B:ALA181
|
4.2
|
66.4
|
1.0
|
CA
|
B:CYS214
|
4.3
|
72.3
|
1.0
|
CA
|
B:ALA183
|
4.3
|
48.3
|
1.0
|
CA
|
B:LEU182
|
4.4
|
54.0
|
1.0
|
N
|
B:CYS214
|
4.4
|
72.3
|
1.0
|
O
|
B:LEU182
|
4.6
|
54.0
|
1.0
|
CA
|
B:GLY213
|
4.6
|
49.5
|
1.0
|
NH2
|
B:ARG149
|
4.7
|
73.4
|
1.0
|
CB
|
B:CYS214
|
4.9
|
86.6
|
1.0
|
SG
|
B:CYS214
|
5.0
|
86.6
|
1.0
|
CB
|
B:ALA183
|
5.0
|
55.7
|
1.0
|
CB
|
B:ALA181
|
5.0
|
46.3
|
1.0
|
|
Potassium binding site 4 out
of 4 in 1tyy
Go back to
Potassium Binding Sites List in 1tyy
Potassium binding site 4 out
of 4 in the Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica
Mono view
Stereo pair view
|
A full contact list of Potassium with other atoms in the K binding
site number 4 of Crystal Structure of Aminoimidazole Riboside Kinase From Salmonella Enterica within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:K505
b:78.6
occ:1.00
|
O
|
B:ASP246
|
2.5
|
0.3
|
1.0
|
OD2
|
B:ASP246
|
2.6
|
98.1
|
1.0
|
O
|
B:THR248
|
2.7
|
61.5
|
1.0
|
N
|
B:THR248
|
3.1
|
61.5
|
1.0
|
C
|
B:ASP246
|
3.3
|
0.3
|
1.0
|
CG
|
B:ASP246
|
3.3
|
98.1
|
1.0
|
O
|
B:ALA287
|
3.4
|
86.9
|
1.0
|
C
|
B:THR248
|
3.5
|
61.5
|
1.0
|
CA
|
B:THR248
|
3.6
|
61.5
|
1.0
|
CB
|
B:THR248
|
3.7
|
84.4
|
1.0
|
CB
|
B:ASP246
|
3.7
|
98.1
|
1.0
|
C
|
B:THR247
|
3.7
|
78.9
|
1.0
|
C
|
B:ALA287
|
3.8
|
86.9
|
1.0
|
N
|
B:THR247
|
3.9
|
78.9
|
1.0
|
CA
|
B:THR247
|
4.1
|
78.9
|
1.0
|
C
|
B:LYS291
|
4.1
|
0.3
|
1.0
|
CA
|
B:ASP246
|
4.1
|
0.3
|
1.0
|
OD1
|
B:ASP246
|
4.2
|
98.1
|
1.0
|
CB
|
B:ALA287
|
4.2
|
44.2
|
1.0
|
O
|
B:LYS291
|
4.3
|
0.3
|
1.0
|
N
|
B:VAL288
|
4.3
|
77.3
|
1.0
|
OG1
|
B:THR248
|
4.4
|
84.4
|
1.0
|
CA
|
B:ALA287
|
4.4
|
86.9
|
1.0
|
CA
|
B:VAL288
|
4.5
|
77.3
|
1.0
|
O
|
B:THR247
|
4.6
|
78.9
|
1.0
|
N
|
B:GLY249
|
4.8
|
97.0
|
1.0
|
O
|
B:ALA290
|
4.8
|
0.1
|
1.0
|
N
|
B:MSE294
|
4.9
|
0.9
|
1.0
|
CG2
|
B:THR248
|
5.0
|
84.4
|
1.0
|
|
Reference:
Y.Zhang,
M.Dougherty,
D.M.Downs,
S.E.Ealick.
Crystal Structure of An Aminoimidazole Riboside Kinase From Salmonella Enterica; Implications For the Evolution of the Ribokinase Superfamily Structure V. 12 1809 2004.
ISSN: ISSN 0969-2126
PubMed: 15458630
DOI: 10.1016/J.STR.2004.07.020
Page generated: Mon Aug 12 05:30:42 2024
|