Fluorine in PDB 8fi0: Structure of Lettuce Aptamer Bound to Dfame
Protein crystallography data
The structure of Structure of Lettuce Aptamer Bound to Dfame, PDB code: 8fi0
was solved by
L.F.M.Passalacqua,
A.R.Ferre-D'amare,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
59.81 /
3.00
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
24.876,
43.022,
119.622,
90,
90,
90
|
R / Rfree (%)
|
22.8 /
29.1
|
Other elements in 8fi0:
The structure of Structure of Lettuce Aptamer Bound to Dfame also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Structure of Lettuce Aptamer Bound to Dfame
(pdb code 8fi0). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 2 binding sites of Fluorine where determined in the
Structure of Lettuce Aptamer Bound to Dfame, PDB code: 8fi0:
Jump to Fluorine binding site number:
1;
2;
Fluorine binding site 1 out
of 2 in 8fi0
Go back to
Fluorine Binding Sites List in 8fi0
Fluorine binding site 1 out
of 2 in the Structure of Lettuce Aptamer Bound to Dfame
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Structure of Lettuce Aptamer Bound to Dfame within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F107
b:37.9
occ:1.00
|
F14
|
A:X5R107
|
0.0
|
37.9
|
1.0
|
C13
|
A:X5R107
|
1.4
|
36.3
|
1.0
|
C15
|
A:X5R107
|
2.4
|
39.2
|
1.0
|
C12
|
A:X5R107
|
2.4
|
36.9
|
1.0
|
N2
|
A:DG44
|
2.6
|
37.1
|
1.0
|
O16
|
A:X5R107
|
2.8
|
37.4
|
1.0
|
N1
|
A:DG25
|
3.2
|
33.9
|
1.0
|
O6
|
A:DG26
|
3.3
|
38.7
|
1.0
|
C6
|
A:DG26
|
3.3
|
41.4
|
1.0
|
C2
|
A:DG25
|
3.3
|
33.5
|
1.0
|
C6
|
A:DG25
|
3.4
|
31.3
|
1.0
|
C5
|
A:DG26
|
3.5
|
37.6
|
1.0
|
C17
|
A:X5R107
|
3.6
|
40.8
|
1.0
|
C11
|
A:X5R107
|
3.6
|
39.8
|
1.0
|
K
|
A:K102
|
3.7
|
35.9
|
1.0
|
N3
|
A:DG25
|
3.7
|
34.2
|
1.0
|
C5
|
A:DG25
|
3.8
|
32.0
|
1.0
|
N7
|
A:DG26
|
3.8
|
36.1
|
1.0
|
C4
|
A:DG25
|
3.8
|
32.2
|
1.0
|
N2
|
A:DG25
|
3.9
|
36.4
|
1.0
|
C2
|
A:DG44
|
3.9
|
33.6
|
1.0
|
N1
|
A:DG26
|
3.9
|
44.5
|
1.0
|
O6
|
A:DG18
|
3.9
|
37.9
|
1.0
|
O6
|
A:DG25
|
4.0
|
28.2
|
1.0
|
C19
|
A:X5R107
|
4.1
|
43.1
|
1.0
|
C4
|
A:DG26
|
4.2
|
35.8
|
1.0
|
N1
|
A:DG44
|
4.5
|
30.7
|
1.0
|
C8
|
A:DG26
|
4.5
|
41.8
|
1.0
|
C2
|
A:DG26
|
4.6
|
43.3
|
1.0
|
N7
|
A:DG25
|
4.7
|
30.6
|
1.0
|
C6
|
A:DG18
|
4.7
|
34.8
|
1.0
|
F18
|
A:X5R107
|
4.7
|
37.5
|
1.0
|
N9
|
A:DG25
|
4.8
|
35.6
|
1.0
|
N3
|
A:DG26
|
4.8
|
41.8
|
1.0
|
N9
|
A:DG26
|
4.8
|
39.7
|
1.0
|
N7
|
A:DG18
|
4.9
|
37.3
|
1.0
|
N3
|
A:DG44
|
4.9
|
31.6
|
1.0
|
C5
|
A:DC17
|
4.9
|
43.2
|
1.0
|
C10
|
A:X5R107
|
5.0
|
47.4
|
1.0
|
N1
|
A:DA43
|
5.0
|
40.8
|
1.0
|
|
Fluorine binding site 2 out
of 2 in 8fi0
Go back to
Fluorine Binding Sites List in 8fi0
Fluorine binding site 2 out
of 2 in the Structure of Lettuce Aptamer Bound to Dfame
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Structure of Lettuce Aptamer Bound to Dfame within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F107
b:37.5
occ:1.00
|
F18
|
A:X5R107
|
0.0
|
37.5
|
1.0
|
C17
|
A:X5R107
|
1.4
|
40.8
|
1.0
|
C15
|
A:X5R107
|
2.4
|
39.2
|
1.0
|
C19
|
A:X5R107
|
2.4
|
43.1
|
1.0
|
O16
|
A:X5R107
|
2.8
|
37.4
|
1.0
|
N1
|
A:DC17
|
3.1
|
42.5
|
1.0
|
C6
|
A:DC17
|
3.2
|
40.0
|
1.0
|
C2
|
A:DC17
|
3.2
|
46.1
|
1.0
|
C5
|
A:DC17
|
3.4
|
43.2
|
1.0
|
N3
|
A:DC17
|
3.4
|
44.2
|
1.0
|
N1
|
A:DG18
|
3.4
|
34.9
|
1.0
|
N6
|
A:DA11
|
3.4
|
30.1
|
1.0
|
C4
|
A:DC17
|
3.4
|
43.5
|
1.0
|
C6
|
A:DG18
|
3.5
|
34.8
|
1.0
|
C2
|
A:DG18
|
3.6
|
37.6
|
1.0
|
C2'
|
A:DC17
|
3.6
|
42.6
|
1.0
|
C13
|
A:X5R107
|
3.6
|
36.3
|
1.0
|
C11
|
A:X5R107
|
3.7
|
39.8
|
1.0
|
C5
|
A:DG18
|
3.7
|
34.7
|
1.0
|
O2
|
A:DC17
|
3.8
|
49.7
|
1.0
|
C1'
|
A:DC17
|
3.8
|
48.8
|
1.0
|
C4
|
A:DG18
|
3.9
|
36.8
|
1.0
|
N3
|
A:DG18
|
3.9
|
37.0
|
1.0
|
O6
|
A:DG18
|
4.0
|
37.9
|
1.0
|
C12
|
A:X5R107
|
4.1
|
36.9
|
1.0
|
N2
|
A:DG18
|
4.2
|
39.7
|
1.0
|
N4
|
A:DC17
|
4.3
|
44.8
|
1.0
|
N7
|
A:DG18
|
4.5
|
37.3
|
1.0
|
C6
|
A:DA11
|
4.7
|
28.4
|
1.0
|
N9
|
A:DG18
|
4.7
|
39.2
|
1.0
|
F14
|
A:X5R107
|
4.7
|
37.9
|
1.0
|
C10
|
A:X5R107
|
4.9
|
47.4
|
1.0
|
K
|
A:K102
|
4.9
|
35.9
|
1.0
|
N1
|
A:DG26
|
5.0
|
44.5
|
1.0
|
|
Reference:
L.F.M.Passalacqua,
A.R.Ferre-D'amare.
Structure of Lettuce Aptamer Bound to Dfame To Be Published.
Page generated: Fri Aug 2 19:06:18 2024
|