Fluorine in PDB 8uv0: Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
Enzymatic activity of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
All present enzymatic activity of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2:
2.7.11.22;
Protein crystallography data
The structure of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2, PDB code: 8uv0
was solved by
M.C.Deller,
L.B.Epling,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
43.00 /
1.55
|
Space group
|
P 21 21 21
|
Cell size a, b, c (Å), α, β, γ (°)
|
53.663,
72.009,
71.913,
90,
90,
90
|
R / Rfree (%)
|
15.5 /
20.3
|
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
(pdb code 8uv0). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2, PDB code: 8uv0:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 8uv0
Go back to
Fluorine Binding Sites List in 8uv0
Fluorine binding site 1 out
of 3 in the Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F301
b:27.1
occ:1.00
|
F26
|
A:XKU301
|
0.0
|
27.1
|
1.0
|
C25
|
A:XKU301
|
1.3
|
24.2
|
1.0
|
F28
|
A:XKU301
|
2.1
|
25.8
|
1.0
|
F27
|
A:XKU301
|
2.2
|
26.5
|
1.0
|
C12
|
A:XKU301
|
2.3
|
22.3
|
1.0
|
H44
|
A:XKU301
|
2.3
|
23.2
|
1.0
|
HB3
|
A:PHE80
|
2.6
|
25.8
|
1.0
|
HG13
|
A:VAL64
|
2.6
|
28.4
|
1.0
|
C13
|
A:XKU301
|
2.6
|
23.1
|
1.0
|
HB2
|
A:PHE80
|
2.7
|
26.1
|
1.0
|
CB
|
A:PHE80
|
3.0
|
26.9
|
1.0
|
HB3
|
A:ALA31
|
3.2
|
25.4
|
1.0
|
HG12
|
A:VAL64
|
3.2
|
30.7
|
1.0
|
CG1
|
A:VAL64
|
3.3
|
30.0
|
1.0
|
O
|
A:GLU81
|
3.3
|
25.6
|
1.0
|
CG
|
A:PHE80
|
3.4
|
25.2
|
1.0
|
C11
|
A:XKU301
|
3.7
|
24.6
|
1.0
|
HG11
|
A:VAL64
|
3.8
|
29.3
|
1.0
|
HB1
|
A:ALA31
|
3.8
|
25.3
|
1.0
|
CB
|
A:ALA31
|
3.8
|
25.5
|
1.0
|
CD2
|
A:PHE80
|
3.8
|
26.9
|
1.0
|
HD2
|
A:PHE80
|
3.8
|
26.1
|
1.0
|
N14
|
A:XKU301
|
3.9
|
23.0
|
1.0
|
HD11
|
A:LEU134
|
4.0
|
25.6
|
1.0
|
HB2
|
A:ALA31
|
4.0
|
25.2
|
1.0
|
CD1
|
A:PHE80
|
4.1
|
27.1
|
1.0
|
H45
|
A:XKU301
|
4.1
|
25.8
|
1.0
|
HG21
|
A:VAL64
|
4.2
|
26.2
|
1.0
|
HD1
|
A:PHE80
|
4.2
|
25.8
|
1.0
|
HD13
|
A:LEU134
|
4.3
|
26.0
|
1.0
|
O
|
A:HOH454
|
4.3
|
48.5
|
1.0
|
HB1
|
A:ALA144
|
4.4
|
28.2
|
1.0
|
HB2
|
A:ALA144
|
4.4
|
27.8
|
1.0
|
CA
|
A:PHE80
|
4.4
|
25.7
|
1.0
|
C15
|
A:XKU301
|
4.5
|
26.6
|
1.0
|
CD1
|
A:LEU134
|
4.5
|
26.4
|
1.0
|
CB
|
A:VAL64
|
4.5
|
24.4
|
1.0
|
C
|
A:GLU81
|
4.5
|
24.6
|
1.0
|
HD12
|
A:LEU134
|
4.6
|
26.4
|
1.0
|
HB
|
A:VAL64
|
4.6
|
24.7
|
1.0
|
C16
|
A:XKU301
|
4.6
|
25.4
|
1.0
|
C
|
A:PHE80
|
4.6
|
25.4
|
1.0
|
O
|
A:HOH407
|
4.7
|
46.8
|
1.0
|
N10
|
A:XKU301
|
4.7
|
25.3
|
1.0
|
HA
|
A:PHE82
|
4.7
|
24.6
|
1.0
|
CE2
|
A:PHE80
|
4.7
|
29.9
|
1.0
|
C9
|
A:XKU301
|
4.8
|
23.4
|
1.0
|
CG2
|
A:VAL64
|
4.8
|
26.7
|
1.0
|
HG13
|
A:VAL18
|
4.8
|
27.4
|
1.0
|
N
|
A:GLU81
|
4.8
|
23.8
|
1.0
|
CB
|
A:ALA144
|
4.8
|
28.4
|
1.0
|
CE1
|
A:PHE80
|
4.9
|
29.6
|
1.0
|
HA
|
A:PHE80
|
4.9
|
26.4
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 8uv0
Go back to
Fluorine Binding Sites List in 8uv0
Fluorine binding site 2 out
of 3 in the Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F301
b:26.5
occ:1.00
|
F27
|
A:XKU301
|
0.0
|
26.5
|
1.0
|
C25
|
A:XKU301
|
1.4
|
24.2
|
1.0
|
F26
|
A:XKU301
|
2.2
|
27.1
|
1.0
|
F28
|
A:XKU301
|
2.2
|
25.8
|
1.0
|
C12
|
A:XKU301
|
2.4
|
22.3
|
1.0
|
H45
|
A:XKU301
|
2.6
|
25.8
|
1.0
|
HG13
|
A:VAL18
|
2.9
|
27.4
|
1.0
|
HB1
|
A:ALA31
|
3.0
|
25.3
|
1.0
|
C16
|
A:XKU301
|
3.1
|
25.4
|
1.0
|
C11
|
A:XKU301
|
3.1
|
24.6
|
1.0
|
HD2
|
A:PHE80
|
3.2
|
26.1
|
1.0
|
C15
|
A:XKU301
|
3.3
|
26.6
|
1.0
|
O
|
A:HOH407
|
3.3
|
46.8
|
1.0
|
HB3
|
A:ALA31
|
3.3
|
25.4
|
1.0
|
HB2
|
A:PHE80
|
3.4
|
26.1
|
1.0
|
C13
|
A:XKU301
|
3.4
|
23.1
|
1.0
|
CD2
|
A:PHE80
|
3.5
|
26.9
|
1.0
|
CB
|
A:ALA31
|
3.6
|
25.5
|
1.0
|
HG11
|
A:VAL18
|
3.6
|
28.7
|
1.0
|
CG1
|
A:VAL18
|
3.7
|
28.1
|
1.0
|
H44
|
A:XKU301
|
3.7
|
23.2
|
1.0
|
HG21
|
A:VAL18
|
3.8
|
28.1
|
1.0
|
CG
|
A:PHE80
|
3.9
|
25.2
|
1.0
|
HB2
|
A:ALA31
|
4.0
|
25.2
|
1.0
|
CB
|
A:PHE80
|
4.0
|
26.9
|
1.0
|
HB3
|
A:PHE80
|
4.1
|
25.8
|
1.0
|
CE2
|
A:PHE80
|
4.1
|
29.9
|
1.0
|
HG12
|
A:VAL18
|
4.2
|
28.0
|
1.0
|
N17
|
A:XKU301
|
4.3
|
28.2
|
1.0
|
HE2
|
A:PHE80
|
4.3
|
29.6
|
1.0
|
N10
|
A:XKU301
|
4.3
|
25.3
|
1.0
|
HB2
|
A:LYS33
|
4.4
|
27.8
|
1.0
|
CG2
|
A:VAL18
|
4.5
|
29.5
|
1.0
|
C19
|
A:XKU301
|
4.6
|
34.5
|
1.0
|
N14
|
A:XKU301
|
4.6
|
23.0
|
1.0
|
HB1
|
A:ALA144
|
4.6
|
28.2
|
1.0
|
HG23
|
A:VAL18
|
4.6
|
29.9
|
1.0
|
HG13
|
A:VAL64
|
4.6
|
28.4
|
1.0
|
H49
|
A:XKU301
|
4.7
|
34.4
|
1.0
|
HD2
|
A:LYS33
|
4.7
|
39.5
|
1.0
|
HD11
|
A:LEU134
|
4.7
|
25.6
|
1.0
|
CB
|
A:VAL18
|
4.8
|
28.0
|
1.0
|
CD1
|
A:PHE80
|
4.8
|
27.1
|
1.0
|
HD13
|
A:ILE10
|
4.8
|
30.6
|
1.0
|
C9
|
A:XKU301
|
4.9
|
23.4
|
1.0
|
O
|
A:ALA31
|
4.9
|
29.6
|
1.0
|
CA
|
A:ALA31
|
4.9
|
26.4
|
1.0
|
CZ
|
A:PHE80
|
5.0
|
30.8
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 8uv0
Go back to
Fluorine Binding Sites List in 8uv0
Fluorine binding site 3 out
of 3 in the Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F301
b:25.8
occ:1.00
|
F28
|
A:XKU301
|
0.0
|
25.8
|
1.0
|
C25
|
A:XKU301
|
1.3
|
24.2
|
1.0
|
F26
|
A:XKU301
|
2.1
|
27.1
|
1.0
|
F27
|
A:XKU301
|
2.2
|
26.5
|
1.0
|
C12
|
A:XKU301
|
2.3
|
22.3
|
1.0
|
H45
|
A:XKU301
|
2.4
|
25.8
|
1.0
|
HB1
|
A:ALA144
|
2.6
|
28.2
|
1.0
|
HD11
|
A:LEU134
|
3.0
|
25.6
|
1.0
|
C16
|
A:XKU301
|
3.0
|
25.4
|
1.0
|
C11
|
A:XKU301
|
3.0
|
24.6
|
1.0
|
HB2
|
A:ALA144
|
3.1
|
27.8
|
1.0
|
C15
|
A:XKU301
|
3.2
|
26.6
|
1.0
|
CB
|
A:ALA144
|
3.3
|
28.4
|
1.0
|
C13
|
A:XKU301
|
3.4
|
23.1
|
1.0
|
HG13
|
A:VAL64
|
3.6
|
28.4
|
1.0
|
O
|
A:HOH407
|
3.6
|
46.8
|
1.0
|
H44
|
A:XKU301
|
3.7
|
23.2
|
1.0
|
HB3
|
A:ALA144
|
3.8
|
27.3
|
1.0
|
CD1
|
A:LEU134
|
3.8
|
26.4
|
1.0
|
O
|
A:HOH454
|
3.9
|
48.5
|
1.0
|
HD13
|
A:LEU134
|
4.0
|
26.0
|
1.0
|
HG21
|
A:VAL64
|
4.0
|
26.2
|
1.0
|
HD12
|
A:LEU134
|
4.1
|
26.4
|
1.0
|
N17
|
A:XKU301
|
4.2
|
28.2
|
1.0
|
OD2
|
A:ASP145
|
4.2
|
49.4
|
1.0
|
N10
|
A:XKU301
|
4.3
|
25.3
|
1.0
|
HG12
|
A:VAL64
|
4.3
|
30.7
|
1.0
|
CG1
|
A:VAL64
|
4.3
|
30.0
|
1.0
|
HA
|
A:ALA144
|
4.4
|
25.0
|
1.0
|
CA
|
A:ALA144
|
4.4
|
24.0
|
1.0
|
O29
|
A:XKU301
|
4.5
|
50.3
|
1.0
|
N14
|
A:XKU301
|
4.5
|
23.0
|
1.0
|
HB3
|
A:PHE80
|
4.5
|
25.8
|
1.0
|
C19
|
A:XKU301
|
4.6
|
34.5
|
1.0
|
HG13
|
A:VAL18
|
4.6
|
27.4
|
1.0
|
H
|
A:ASP145
|
4.6
|
33.7
|
1.0
|
HB2
|
A:PHE80
|
4.6
|
26.1
|
1.0
|
HB
|
A:VAL64
|
4.7
|
24.7
|
1.0
|
CG
|
A:PHE80
|
4.7
|
25.2
|
1.0
|
H49
|
A:XKU301
|
4.8
|
34.4
|
1.0
|
CD2
|
A:PHE80
|
4.8
|
26.9
|
1.0
|
C9
|
A:XKU301
|
4.8
|
23.4
|
1.0
|
HB3
|
A:ALA31
|
4.8
|
25.4
|
1.0
|
HD2
|
A:PHE80
|
4.9
|
26.1
|
1.0
|
CB
|
A:PHE80
|
4.9
|
26.9
|
1.0
|
CG2
|
A:VAL64
|
4.9
|
26.7
|
1.0
|
HB1
|
A:ALA31
|
4.9
|
25.3
|
1.0
|
HD23
|
A:LEU134
|
4.9
|
24.5
|
1.0
|
CB
|
A:VAL64
|
4.9
|
24.4
|
1.0
|
HG
|
A:LEU134
|
4.9
|
23.0
|
1.0
|
|
Reference:
J.R.Hummel,
K.J.Xiao,
J.C.Yang,
L.B.Epling,
K.Mukai,
Q.Ye,
M.Xu,
D.Qian,
L.Huo,
M.Weber,
V.Roman,
Y.Lo,
K.Drake,
K.Stump,
M.Covington,
K.Kapilashrami,
G.Zhang,
M.Ye,
S.Diamond,
S.Yeleswaram,
R.Macarron,
M.C.Deller,
S.Wee,
S.Kim,
X.Wang,
L.Wu,
W.Yao.
Discovery of (4-Pyrazolyl)-2-Aminopyrimidines As Potent and Selective Inhibitors of Cyclin-Dependent Kinase 2. J.Med.Chem. 2024.
ISSN: ISSN 0022-2623
PubMed: 38325398
DOI: 10.1021/ACS.JMEDCHEM.3C02287
Page generated: Sat Aug 3 01:12:24 2024
|