Fluorine in PDB 8e5n: Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
Enzymatic activity of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
All present enzymatic activity of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10:
3.5.3.1;
Protein crystallography data
The structure of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10, PDB code: 8e5n
was solved by
R.L.Palte,
S.Gathiaka,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
71.88 /
2.54
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
53.423,
287.535,
67.351,
90,
90.2,
90
|
R / Rfree (%)
|
23.7 /
29.6
|
Other elements in 8e5n:
The structure of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
(pdb code 8e5n). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 6 binding sites of Fluorine where determined in the
Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10, PDB code: 8e5n:
Jump to Fluorine binding site number:
1;
2;
3;
4;
5;
6;
Fluorine binding site 1 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 1 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:F1003
b:16.3
occ:1.00
|
F
|
A:UL01003
|
0.0
|
16.3
|
1.0
|
C
|
A:UL01003
|
1.4
|
16.5
|
1.0
|
C31
|
A:UL01003
|
2.3
|
16.7
|
1.0
|
C1
|
A:UL01003
|
2.3
|
16.5
|
1.0
|
O
|
A:THR136
|
3.5
|
22.6
|
1.0
|
C2
|
A:UL01003
|
3.6
|
16.6
|
1.0
|
C4
|
A:UL01003
|
3.6
|
16.5
|
1.0
|
C
|
A:THR136
|
3.7
|
22.6
|
1.0
|
CB
|
A:THR136
|
3.8
|
23.9
|
1.0
|
OG1
|
A:THR136
|
3.8
|
25.7
|
1.0
|
N
|
A:SER137
|
3.9
|
22.5
|
1.0
|
C3
|
A:UL01003
|
4.1
|
16.4
|
1.0
|
CA
|
A:SER137
|
4.2
|
22.4
|
1.0
|
CA
|
A:THR136
|
4.4
|
22.2
|
1.0
|
CB
|
A:SER137
|
4.7
|
23.2
|
1.0
|
C5
|
A:UL01003
|
4.9
|
16.6
|
1.0
|
|
Fluorine binding site 2 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 2 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F1003
b:25.7
occ:1.00
|
F
|
B:UL01003
|
0.0
|
25.7
|
1.0
|
C
|
B:UL01003
|
1.4
|
25.4
|
1.0
|
C31
|
B:UL01003
|
2.3
|
25.0
|
1.0
|
C1
|
B:UL01003
|
2.4
|
25.3
|
1.0
|
O
|
B:THR136
|
3.1
|
24.2
|
1.0
|
C
|
B:THR136
|
3.6
|
24.0
|
1.0
|
C2
|
B:UL01003
|
3.6
|
25.1
|
1.0
|
C4
|
B:UL01003
|
3.6
|
24.7
|
1.0
|
CB
|
B:THR136
|
4.0
|
24.9
|
1.0
|
N
|
B:SER137
|
4.0
|
23.8
|
1.0
|
C3
|
B:UL01003
|
4.1
|
24.9
|
1.0
|
CA
|
B:SER137
|
4.1
|
23.8
|
1.0
|
OG1
|
B:THR136
|
4.4
|
26.3
|
1.0
|
CA
|
B:THR136
|
4.4
|
23.4
|
1.0
|
CB
|
B:SER137
|
4.7
|
24.3
|
1.0
|
C5
|
B:UL01003
|
4.9
|
24.1
|
1.0
|
|
Fluorine binding site 3 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 3 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:F1003
b:25.2
occ:1.00
|
F
|
C:UL01003
|
0.0
|
25.2
|
1.0
|
C
|
C:UL01003
|
1.4
|
24.6
|
1.0
|
C31
|
C:UL01003
|
2.3
|
24.0
|
1.0
|
C1
|
C:UL01003
|
2.3
|
24.3
|
1.0
|
C2
|
C:UL01003
|
3.6
|
23.9
|
1.0
|
C4
|
C:UL01003
|
3.6
|
23.0
|
1.0
|
O
|
C:THR136
|
4.0
|
20.3
|
1.0
|
C3
|
C:UL01003
|
4.1
|
23.6
|
1.0
|
C
|
C:THR136
|
4.6
|
20.0
|
1.0
|
CA
|
C:SER137
|
4.7
|
18.6
|
1.0
|
C5
|
C:UL01003
|
4.9
|
21.2
|
1.0
|
N
|
C:SER137
|
4.9
|
19.0
|
1.0
|
OG1
|
C:THR136
|
4.9
|
23.0
|
1.0
|
|
Fluorine binding site 4 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 4 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 4 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:F1003
b:19.0
occ:1.00
|
F
|
D:UL01003
|
0.0
|
19.0
|
1.0
|
C
|
D:UL01003
|
1.4
|
18.6
|
1.0
|
C1
|
D:UL01003
|
2.3
|
18.6
|
1.0
|
C31
|
D:UL01003
|
2.3
|
18.0
|
1.0
|
O
|
D:THR136
|
3.6
|
19.0
|
1.0
|
C2
|
D:UL01003
|
3.6
|
18.5
|
1.0
|
C4
|
D:UL01003
|
3.6
|
17.7
|
1.0
|
C
|
D:THR136
|
4.1
|
18.9
|
1.0
|
C3
|
D:UL01003
|
4.1
|
18.3
|
1.0
|
CB
|
D:THR136
|
4.2
|
20.6
|
1.0
|
N
|
D:SER137
|
4.6
|
18.7
|
1.0
|
CA
|
D:SER137
|
4.7
|
18.5
|
1.0
|
OG1
|
D:THR136
|
4.7
|
21.4
|
1.0
|
CA
|
D:THR136
|
4.8
|
19.1
|
1.0
|
C5
|
D:UL01003
|
4.9
|
17.1
|
1.0
|
|
Fluorine binding site 5 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 5 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 5 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:F1003
b:28.1
occ:1.00
|
F
|
E:UL01003
|
0.0
|
28.1
|
1.0
|
C
|
E:UL01003
|
1.4
|
27.8
|
1.0
|
C31
|
E:UL01003
|
2.3
|
27.6
|
1.0
|
C1
|
E:UL01003
|
2.3
|
27.6
|
1.0
|
O
|
E:THR136
|
3.1
|
33.8
|
1.0
|
C2
|
E:UL01003
|
3.6
|
27.3
|
1.0
|
C4
|
E:UL01003
|
3.6
|
27.4
|
1.0
|
C
|
E:THR136
|
3.7
|
34.0
|
1.0
|
CB
|
E:THR136
|
3.9
|
36.3
|
1.0
|
C3
|
E:UL01003
|
4.1
|
27.2
|
1.0
|
OG1
|
E:THR136
|
4.2
|
38.1
|
1.0
|
N
|
E:SER137
|
4.3
|
33.8
|
1.0
|
CA
|
E:THR136
|
4.4
|
34.4
|
1.0
|
CA
|
E:SER137
|
4.6
|
33.6
|
1.0
|
C5
|
E:UL01003
|
4.8
|
27.4
|
1.0
|
|
Fluorine binding site 6 out
of 6 in 8e5n
Go back to
Fluorine Binding Sites List in 8e5n
Fluorine binding site 6 out
of 6 in the Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10
 Mono view
 Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 6 of Structure of ARG1 Complex with Pyrrolidine-Based Non-Boronic Acid Inhibitor 10 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:F1003
b:24.2
occ:1.00
|
F
|
F:UL01003
|
0.0
|
24.2
|
1.0
|
C
|
F:UL01003
|
1.4
|
24.6
|
1.0
|
C31
|
F:UL01003
|
2.3
|
24.3
|
1.0
|
C1
|
F:UL01003
|
2.4
|
24.8
|
1.0
|
C2
|
F:UL01003
|
3.6
|
24.4
|
1.0
|
C4
|
F:UL01003
|
3.6
|
24.0
|
1.0
|
CA
|
F:SER137
|
3.8
|
25.2
|
1.0
|
CB
|
F:SER137
|
4.1
|
25.6
|
1.0
|
C3
|
F:UL01003
|
4.1
|
24.1
|
1.0
|
O
|
F:THR136
|
4.3
|
26.8
|
1.0
|
N
|
F:SER137
|
4.3
|
25.9
|
1.0
|
C
|
F:THR136
|
4.5
|
26.5
|
1.0
|
C5
|
F:UL01003
|
4.9
|
23.9
|
1.0
|
|
Reference:
S.Gathiaka,
R.L.Palte,
S.S.So,
X.Chai,
J.Richard Miller,
R.Kuvelkar,
J.Wen,
S.Cifelli,
A.Kreamer,
A.Liaw,
D.G.Mclaren,
C.Fischer.
Discovery of Non-Boronic Acid Arginase 1 Inhibitors Through Virtual Screening and Biophysical Methods. Bioorg.Med.Chem.Lett. 29193 2023.
ISSN: ESSN 1464-3405
PubMed: 36822300
DOI: 10.1016/J.BMCL.2023.129193
Page generated: Fri Aug 2 17:50:14 2024
|