Fluorine in PDB 8par: Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Enzymatic activity of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
All present enzymatic activity of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405:
2.7.11.1;
Protein crystallography data
The structure of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405, PDB code: 8par
was solved by
M.Schaefer,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
41.95 /
2.00
|
Space group
|
P 21 21 2
|
Cell size a, b, c (Å), α, β, γ (°)
|
76.723,
100.205,
39.497,
90,
90,
90
|
R / Rfree (%)
|
24 /
29.2
|
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
(pdb code 8par). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 5 binding sites of Fluorine where determined in the
Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405, PDB code: 8par:
Jump to Fluorine binding site number:
1;
2;
3;
4;
5;
Fluorine binding site 1 out
of 5 in 8par
Go back to
Fluorine Binding Sites List in 8par
Fluorine binding site 1 out
of 5 in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F402
b:51.7
occ:1.00
|
F1
|
A:XON402
|
0.0
|
51.7
|
1.0
|
C4
|
A:XON402
|
1.3
|
50.2
|
1.0
|
C3
|
A:XON402
|
2.3
|
49.2
|
1.0
|
C5
|
A:XON402
|
2.4
|
47.4
|
1.0
|
O1
|
A:XON402
|
2.7
|
45.9
|
1.0
|
CB
|
A:VAL31
|
3.3
|
49.8
|
1.0
|
CG2
|
A:VAL31
|
3.4
|
48.0
|
1.0
|
CG1
|
A:VAL31
|
3.4
|
48.8
|
1.0
|
O
|
A:LEU23
|
3.6
|
47.9
|
1.0
|
C12
|
A:XON402
|
3.6
|
45.7
|
1.0
|
C6
|
A:XON402
|
3.6
|
47.8
|
1.0
|
C2
|
A:XON402
|
3.6
|
45.0
|
1.0
|
C
|
A:LEU23
|
3.6
|
51.6
|
1.0
|
CA
|
A:GLY24
|
3.7
|
51.1
|
1.0
|
CB
|
A:LEU23
|
3.8
|
55.0
|
1.0
|
N
|
A:GLY24
|
3.8
|
51.3
|
1.0
|
C13
|
A:XON402
|
3.9
|
45.6
|
1.0
|
CB
|
A:TYR28
|
4.0
|
59.8
|
1.0
|
F5
|
A:XON402
|
4.1
|
54.9
|
1.0
|
C11
|
A:XON402
|
4.1
|
44.7
|
1.0
|
CA
|
A:LEU23
|
4.4
|
53.5
|
1.0
|
CG
|
A:TYR28
|
4.4
|
54.8
|
1.0
|
CD2
|
A:TYR28
|
4.6
|
53.6
|
1.0
|
CA
|
A:VAL31
|
4.7
|
53.2
|
1.0
|
F2
|
A:XON402
|
4.7
|
44.8
|
1.0
|
O2
|
A:XON402
|
4.8
|
51.5
|
1.0
|
C1
|
A:XON402
|
4.8
|
44.1
|
1.0
|
N1
|
A:XON402
|
4.8
|
46.4
|
1.0
|
|
Fluorine binding site 2 out
of 5 in 8par
Go back to
Fluorine Binding Sites List in 8par
Fluorine binding site 2 out
of 5 in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F402
b:44.8
occ:1.00
|
F2
|
A:XON402
|
0.0
|
44.8
|
1.0
|
C12
|
A:XON402
|
1.3
|
45.7
|
1.0
|
C11
|
A:XON402
|
2.3
|
44.7
|
1.0
|
C3
|
A:XON402
|
2.4
|
49.2
|
1.0
|
O1
|
A:XON402
|
2.8
|
45.9
|
1.0
|
C2
|
A:XON402
|
3.1
|
45.0
|
1.0
|
CD2
|
A:LEU144
|
3.1
|
39.4
|
1.0
|
C13
|
A:XON402
|
3.5
|
45.6
|
1.0
|
C4
|
A:XON402
|
3.6
|
50.2
|
1.0
|
C6
|
A:XON402
|
3.6
|
47.8
|
1.0
|
CE2
|
A:TYR28
|
3.7
|
50.5
|
1.0
|
C1
|
A:XON402
|
3.9
|
44.1
|
1.0
|
CD1
|
A:LEU144
|
3.9
|
40.6
|
1.0
|
C19
|
A:XON402
|
3.9
|
49.0
|
1.0
|
CA
|
A:GLY97
|
4.1
|
40.2
|
1.0
|
CG
|
A:LEU144
|
4.1
|
39.0
|
1.0
|
CD2
|
A:TYR28
|
4.1
|
53.6
|
1.0
|
C5
|
A:XON402
|
4.1
|
47.4
|
1.0
|
C
|
A:GLY97
|
4.1
|
38.2
|
1.0
|
N
|
A:SER98
|
4.2
|
36.3
|
1.0
|
CZ
|
A:TYR28
|
4.4
|
50.4
|
1.0
|
C14
|
A:XON402
|
4.5
|
47.1
|
1.0
|
C17
|
A:XON402
|
4.5
|
46.0
|
1.0
|
OH
|
A:TYR28
|
4.7
|
46.6
|
1.0
|
C18
|
A:XON402
|
4.7
|
50.4
|
1.0
|
F1
|
A:XON402
|
4.7
|
51.7
|
1.0
|
N1
|
A:XON402
|
4.7
|
46.4
|
1.0
|
O
|
A:GLY97
|
4.7
|
40.1
|
1.0
|
C15
|
A:XON402
|
4.7
|
44.5
|
1.0
|
CB
|
A:SER98
|
4.8
|
34.8
|
1.0
|
OD2
|
A:ASP101
|
4.8
|
36.0
|
1.0
|
CB
|
A:LEU144
|
4.9
|
38.6
|
1.0
|
CA
|
A:SER98
|
4.9
|
34.6
|
1.0
|
CG
|
A:TYR28
|
5.0
|
54.8
|
1.0
|
|
Fluorine binding site 3 out
of 5 in 8par
Go back to
Fluorine Binding Sites List in 8par
Fluorine binding site 3 out
of 5 in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F402
b:64.0
occ:1.00
|
F3
|
A:XON402
|
0.0
|
64.0
|
1.0
|
C21
|
A:XON402
|
1.3
|
55.6
|
1.0
|
F4
|
A:XON402
|
2.1
|
59.0
|
1.0
|
F5
|
A:XON402
|
2.1
|
54.9
|
1.0
|
C18
|
A:XON402
|
2.4
|
50.4
|
1.0
|
C19
|
A:XON402
|
2.8
|
49.0
|
1.0
|
C20
|
A:XON402
|
2.8
|
49.7
|
1.0
|
CD
|
A:LYS46
|
3.5
|
66.1
|
1.0
|
C17
|
A:XON402
|
3.6
|
46.0
|
1.0
|
CE1
|
A:PHE156
|
3.7
|
106.3
|
1.0
|
CD1
|
A:PHE156
|
3.8
|
103.7
|
1.0
|
CB
|
A:LYS46
|
4.1
|
63.7
|
1.0
|
CE
|
A:MET91
|
4.2
|
68.5
|
1.0
|
CG2
|
A:VAL31
|
4.3
|
48.0
|
1.0
|
CG
|
A:LYS46
|
4.4
|
66.6
|
1.0
|
O1
|
A:XON402
|
4.4
|
45.9
|
1.0
|
C16
|
A:XON402
|
4.5
|
43.6
|
1.0
|
C1
|
A:XON402
|
4.6
|
44.1
|
1.0
|
NZ
|
A:LYS46
|
4.6
|
74.5
|
1.0
|
CE
|
A:LYS46
|
4.7
|
70.6
|
1.0
|
O
|
A:TYR28
|
4.8
|
64.5
|
1.0
|
CZ
|
A:PHE156
|
5.0
|
106.6
|
1.0
|
C2
|
A:XON402
|
5.0
|
45.0
|
1.0
|
|
Fluorine binding site 4 out
of 5 in 8par
Go back to
Fluorine Binding Sites List in 8par
Fluorine binding site 4 out
of 5 in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 4 of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F402
b:59.0
occ:1.00
|
F4
|
A:XON402
|
0.0
|
59.0
|
1.0
|
C21
|
A:XON402
|
1.3
|
55.6
|
1.0
|
F3
|
A:XON402
|
2.1
|
64.0
|
1.0
|
F5
|
A:XON402
|
2.1
|
54.9
|
1.0
|
C18
|
A:XON402
|
2.3
|
50.4
|
1.0
|
CE
|
A:MET91
|
2.8
|
68.5
|
1.0
|
C17
|
A:XON402
|
2.9
|
46.0
|
1.0
|
C20
|
A:XON402
|
3.2
|
49.7
|
1.0
|
C16
|
A:XON402
|
3.3
|
43.6
|
1.0
|
C19
|
A:XON402
|
3.6
|
49.0
|
1.0
|
CB
|
A:LYS46
|
3.7
|
63.7
|
1.0
|
C1
|
A:XON402
|
3.9
|
44.1
|
1.0
|
SD
|
A:MET91
|
4.0
|
70.1
|
1.0
|
N4
|
A:XON402
|
4.4
|
42.6
|
1.0
|
CD
|
A:LYS46
|
4.4
|
66.1
|
1.0
|
CG
|
A:LYS46
|
4.6
|
66.6
|
1.0
|
CB
|
A:MET91
|
4.7
|
66.2
|
1.0
|
C15
|
A:XON402
|
4.7
|
44.5
|
1.0
|
CB
|
A:ALA44
|
4.7
|
54.7
|
1.0
|
O1
|
A:XON402
|
4.7
|
45.9
|
1.0
|
N
|
A:LYS46
|
4.7
|
61.1
|
1.0
|
C2
|
A:XON402
|
4.7
|
45.0
|
1.0
|
CA
|
A:LYS46
|
4.7
|
63.9
|
1.0
|
CG1
|
A:VAL31
|
4.8
|
48.8
|
1.0
|
CG
|
A:MET91
|
4.8
|
67.7
|
1.0
|
CG2
|
A:VAL31
|
4.8
|
48.0
|
1.0
|
|
Fluorine binding site 5 out
of 5 in 8par
Go back to
Fluorine Binding Sites List in 8par
Fluorine binding site 5 out
of 5 in the Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 5 of Crystal Structure of Human MAP4K1 with An Inhibitor, Bay-405 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F402
b:54.9
occ:1.00
|
F5
|
A:XON402
|
0.0
|
54.9
|
1.0
|
C21
|
A:XON402
|
1.3
|
55.6
|
1.0
|
F4
|
A:XON402
|
2.1
|
59.0
|
1.0
|
F3
|
A:XON402
|
2.1
|
64.0
|
1.0
|
C18
|
A:XON402
|
2.4
|
50.4
|
1.0
|
C17
|
A:XON402
|
2.8
|
46.0
|
1.0
|
O1
|
A:XON402
|
3.0
|
45.9
|
1.0
|
CG2
|
A:VAL31
|
3.2
|
48.0
|
1.0
|
C1
|
A:XON402
|
3.2
|
44.1
|
1.0
|
CG1
|
A:VAL31
|
3.2
|
48.8
|
1.0
|
C19
|
A:XON402
|
3.3
|
49.0
|
1.0
|
C2
|
A:XON402
|
3.4
|
45.0
|
1.0
|
C20
|
A:XON402
|
3.7
|
49.7
|
1.0
|
CB
|
A:VAL31
|
3.8
|
49.8
|
1.0
|
C16
|
A:XON402
|
3.9
|
43.6
|
1.0
|
F1
|
A:XON402
|
4.1
|
51.7
|
1.0
|
C3
|
A:XON402
|
4.2
|
49.2
|
1.0
|
CB
|
A:LYS46
|
4.2
|
63.7
|
1.0
|
C15
|
A:XON402
|
4.3
|
44.5
|
1.0
|
C13
|
A:XON402
|
4.5
|
45.6
|
1.0
|
C4
|
A:XON402
|
4.6
|
50.2
|
1.0
|
N4
|
A:XON402
|
4.7
|
42.6
|
1.0
|
CB
|
A:ALA44
|
4.7
|
54.7
|
1.0
|
CD
|
A:LYS46
|
4.7
|
66.1
|
1.0
|
CE
|
A:MET91
|
4.9
|
68.5
|
1.0
|
CA
|
A:LYS46
|
4.9
|
63.9
|
1.0
|
|
Reference:
J.Mowat,
R.Carretero,
G.Leder,
N.Aiguabella Font,
R.Neuhaus,
S.Berndt,
J.Guenther,
A.Friberg,
M.Schaefer,
H.Briem,
M.Raschke,
H.Miyatake Ondozabal,
B.Buchmann,
U.Boemer,
I.Hartung,
R.Offringa.
Identification and Optimization of Azaindole Based MAP4K1 Inhibitors and the Discovery of Bay-405 To Be Published.
Page generated: Fri Aug 2 21:52:25 2024
|