Fluorine in PDB 6dxx: Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
Enzymatic activity of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
All present enzymatic activity of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100:
3.5.1.60;
Protein crystallography data
The structure of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100, PDB code: 6dxx
was solved by
A.Gorelik,
A.Gebai,
K.Illes,
D.Piomelli,
B.Nagar,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
46.11 /
2.70
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
76.610,
99.798,
92.756,
90.00,
96.13,
90.00
|
R / Rfree (%)
|
20.6 /
24.6
|
Other elements in 6dxx:
The structure of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100 also contains other interesting chemical elements:
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
(pdb code 6dxx). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 3 binding sites of Fluorine where determined in the
Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100, PDB code: 6dxx:
Jump to Fluorine binding site number:
1;
2;
3;
Fluorine binding site 1 out
of 3 in 6dxx
Go back to
Fluorine Binding Sites List in 6dxx
Fluorine binding site 1 out
of 3 in the Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F404
b:63.0
occ:1.00
|
F28
|
B:WTF404
|
0.0
|
63.0
|
1.0
|
C27
|
B:WTF404
|
1.4
|
31.6
|
1.0
|
HB3
|
A:ALA63
|
2.2
|
48.0
|
1.0
|
O
|
A:VAL60
|
2.4
|
43.6
|
1.0
|
HG3
|
A:MET64
|
2.4
|
43.9
|
1.0
|
C29
|
B:WTF404
|
2.5
|
37.0
|
1.0
|
C26
|
B:WTF404
|
2.5
|
24.9
|
1.0
|
H291
|
B:WTF404
|
2.7
|
44.9
|
1.0
|
H261
|
B:WTF404
|
2.7
|
30.4
|
1.0
|
H
|
A:MET64
|
2.8
|
44.6
|
1.0
|
HG2
|
A:MET64
|
2.9
|
43.9
|
1.0
|
HG13
|
A:VAL60
|
2.9
|
44.4
|
1.0
|
CG
|
A:MET64
|
3.0
|
36.1
|
1.0
|
HA
|
A:VAL60
|
3.1
|
44.2
|
1.0
|
CB
|
A:ALA63
|
3.1
|
39.5
|
1.0
|
HD11
|
B:LEU155
|
3.1
|
43.4
|
1.0
|
N
|
A:MET64
|
3.1
|
36.7
|
1.0
|
HG12
|
A:VAL60
|
3.3
|
44.4
|
1.0
|
C
|
A:VAL60
|
3.3
|
42.9
|
1.0
|
HB1
|
A:ALA63
|
3.3
|
48.0
|
1.0
|
HD13
|
B:LEU155
|
3.5
|
43.4
|
1.0
|
CG1
|
A:VAL60
|
3.5
|
36.5
|
1.0
|
CA
|
A:VAL60
|
3.6
|
36.4
|
1.0
|
C
|
A:ALA63
|
3.6
|
38.1
|
1.0
|
CD1
|
B:LEU155
|
3.6
|
35.7
|
1.0
|
HE3
|
A:MET64
|
3.7
|
69.3
|
1.0
|
C30
|
B:WTF404
|
3.8
|
34.0
|
1.0
|
C24
|
B:WTF404
|
3.8
|
41.2
|
1.0
|
HD12
|
B:LEU155
|
3.8
|
43.4
|
1.0
|
HB2
|
A:ALA63
|
3.8
|
48.0
|
1.0
|
CA
|
A:ALA63
|
3.8
|
37.0
|
1.0
|
H
|
A:ALA63
|
3.8
|
46.4
|
1.0
|
HA
|
A:MET64
|
3.8
|
45.3
|
1.0
|
CA
|
A:MET64
|
3.9
|
37.3
|
1.0
|
CB
|
A:MET64
|
3.9
|
34.1
|
1.0
|
HE2
|
A:MET64
|
4.0
|
69.3
|
1.0
|
N
|
A:ALA63
|
4.1
|
38.2
|
1.0
|
HB2
|
A:MET64
|
4.2
|
41.5
|
1.0
|
CB
|
A:VAL60
|
4.2
|
30.7
|
1.0
|
CE
|
A:MET64
|
4.2
|
57.3
|
1.0
|
C23
|
B:WTF404
|
4.3
|
35.2
|
1.0
|
HG11
|
A:VAL60
|
4.3
|
44.4
|
1.0
|
SD
|
A:MET64
|
4.4
|
47.3
|
1.0
|
O
|
A:ALA63
|
4.5
|
45.5
|
1.0
|
H301
|
B:WTF404
|
4.5
|
41.4
|
1.0
|
N
|
A:ARG61
|
4.5
|
41.6
|
1.0
|
O
|
A:LEU59
|
4.6
|
43.6
|
1.0
|
HA
|
A:ALA63
|
4.7
|
45.0
|
1.0
|
HB3
|
A:MET64
|
4.7
|
41.5
|
1.0
|
HA
|
A:ARG61
|
4.8
|
45.4
|
1.0
|
HG22
|
A:VAL60
|
4.8
|
40.0
|
1.0
|
HB
|
A:VAL60
|
4.9
|
37.4
|
1.0
|
N
|
A:VAL60
|
4.9
|
39.5
|
1.0
|
HD23
|
B:LEU152
|
4.9
|
48.6
|
1.0
|
HD21
|
B:LEU152
|
5.0
|
48.6
|
1.0
|
|
Fluorine binding site 2 out
of 3 in 6dxx
Go back to
Fluorine Binding Sites List in 6dxx
Fluorine binding site 2 out
of 3 in the Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:F408
b:60.9
occ:1.00
|
F28
|
D:WTF408
|
0.0
|
60.9
|
1.0
|
C27
|
D:WTF408
|
1.4
|
44.3
|
1.0
|
HB3
|
C:ALA63
|
2.1
|
63.6
|
1.0
|
C29
|
D:WTF408
|
2.5
|
39.8
|
1.0
|
C26
|
D:WTF408
|
2.5
|
41.1
|
1.0
|
HG3
|
C:MET64
|
2.5
|
53.7
|
1.0
|
H291
|
D:WTF408
|
2.6
|
48.3
|
1.0
|
H261
|
D:WTF408
|
2.7
|
49.8
|
1.0
|
H
|
C:MET64
|
2.7
|
43.0
|
1.0
|
O
|
C:VAL60
|
2.8
|
34.7
|
1.0
|
CB
|
C:ALA63
|
2.9
|
52.6
|
1.0
|
N
|
C:MET64
|
3.0
|
35.4
|
1.0
|
HG2
|
C:MET64
|
3.0
|
53.7
|
1.0
|
HB1
|
C:ALA63
|
3.0
|
63.6
|
1.0
|
HD11
|
D:LEU155
|
3.1
|
52.8
|
1.0
|
CG
|
C:MET64
|
3.2
|
44.3
|
1.0
|
HD13
|
D:LEU155
|
3.3
|
52.8
|
1.0
|
C
|
C:ALA63
|
3.4
|
39.9
|
1.0
|
HD12
|
D:LEU155
|
3.4
|
52.8
|
1.0
|
HA
|
C:VAL60
|
3.4
|
56.8
|
1.0
|
CD1
|
D:LEU155
|
3.4
|
43.5
|
1.0
|
HG13
|
C:VAL60
|
3.4
|
53.4
|
1.0
|
CA
|
C:ALA63
|
3.6
|
44.9
|
1.0
|
HA
|
C:MET64
|
3.7
|
57.8
|
1.0
|
HB2
|
C:ALA63
|
3.7
|
63.6
|
1.0
|
CA
|
C:MET64
|
3.7
|
47.7
|
1.0
|
C30
|
D:WTF408
|
3.8
|
34.6
|
1.0
|
C
|
C:VAL60
|
3.8
|
43.6
|
1.0
|
C24
|
D:WTF408
|
3.8
|
50.1
|
1.0
|
H
|
C:ALA63
|
3.8
|
61.3
|
1.0
|
HG12
|
C:VAL60
|
3.9
|
53.4
|
1.0
|
CB
|
C:MET64
|
3.9
|
52.2
|
1.0
|
N
|
C:ALA63
|
4.0
|
50.6
|
1.0
|
CA
|
C:VAL60
|
4.1
|
46.9
|
1.0
|
CG1
|
C:VAL60
|
4.1
|
44.0
|
1.0
|
HE3
|
C:MET64
|
4.1
|
64.4
|
1.0
|
O
|
C:ALA63
|
4.2
|
52.6
|
1.0
|
HB2
|
C:MET64
|
4.2
|
63.1
|
1.0
|
C23
|
D:WTF408
|
4.3
|
34.6
|
1.0
|
HE2
|
C:MET64
|
4.4
|
64.4
|
1.0
|
HA
|
C:ALA63
|
4.5
|
54.4
|
1.0
|
H301
|
D:WTF408
|
4.5
|
42.1
|
1.0
|
CE
|
C:MET64
|
4.6
|
53.2
|
1.0
|
HD23
|
D:LEU152
|
4.6
|
70.5
|
1.0
|
SD
|
C:MET64
|
4.7
|
49.5
|
1.0
|
CB
|
C:VAL60
|
4.7
|
43.5
|
1.0
|
HB3
|
C:MET64
|
4.8
|
63.1
|
1.0
|
O
|
C:LEU59
|
4.8
|
53.1
|
1.0
|
HD21
|
D:LEU152
|
4.9
|
70.5
|
1.0
|
HG11
|
C:VAL60
|
4.9
|
53.4
|
1.0
|
HD22
|
D:LEU152
|
4.9
|
70.5
|
1.0
|
O
|
D:ILE175
|
4.9
|
32.8
|
1.0
|
CG
|
D:LEU155
|
4.9
|
42.8
|
1.0
|
|
Fluorine binding site 3 out
of 3 in 6dxx
Go back to
Fluorine Binding Sites List in 6dxx
Fluorine binding site 3 out
of 3 in the Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Human N-Acylethanolamine-Hydrolyzing Acid Amidase (Naaa) in Complex with Non-Covalent Benzothiazole-Piperazine Inhibitor ARN19702, in Presence of Triton X-100 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:F405
b:62.9
occ:1.00
|
F28
|
F:WTF405
|
0.0
|
62.9
|
1.0
|
C27
|
F:WTF405
|
1.4
|
39.6
|
1.0
|
HB3
|
E:ALA63
|
2.3
|
48.9
|
1.0
|
C29
|
F:WTF405
|
2.5
|
48.8
|
1.0
|
C26
|
F:WTF405
|
2.5
|
38.0
|
1.0
|
H261
|
F:WTF405
|
2.7
|
46.1
|
1.0
|
H291
|
F:WTF405
|
2.7
|
59.1
|
1.0
|
HB1
|
E:ALA63
|
2.7
|
48.9
|
1.0
|
HG3
|
E:MET64
|
2.8
|
50.0
|
1.0
|
HG2
|
E:MET64
|
2.9
|
50.0
|
1.0
|
CB
|
E:ALA63
|
2.9
|
40.3
|
1.0
|
H
|
E:MET64
|
3.0
|
53.3
|
1.0
|
HD11
|
F:LEU155
|
3.0
|
47.6
|
1.0
|
N
|
E:MET64
|
3.0
|
44.0
|
1.0
|
O
|
E:VAL60
|
3.2
|
40.8
|
1.0
|
C
|
E:ALA63
|
3.2
|
43.1
|
1.0
|
CG
|
E:MET64
|
3.3
|
41.2
|
1.0
|
HD12
|
F:LEU155
|
3.4
|
47.6
|
1.0
|
HA
|
E:MET64
|
3.4
|
52.5
|
1.0
|
CD1
|
F:LEU155
|
3.5
|
39.2
|
1.0
|
HD13
|
F:LEU155
|
3.5
|
47.6
|
1.0
|
HG13
|
E:VAL60
|
3.6
|
41.6
|
1.0
|
CA
|
E:ALA63
|
3.6
|
42.5
|
1.0
|
CA
|
E:MET64
|
3.7
|
43.3
|
1.0
|
HB2
|
E:ALA63
|
3.7
|
48.9
|
1.0
|
HA
|
E:VAL60
|
3.7
|
46.2
|
1.0
|
C30
|
F:WTF405
|
3.8
|
45.3
|
1.0
|
C24
|
F:WTF405
|
3.8
|
43.8
|
1.0
|
O
|
E:ALA63
|
3.8
|
39.1
|
1.0
|
CB
|
E:MET64
|
4.0
|
47.4
|
1.0
|
HG12
|
E:VAL60
|
4.2
|
41.6
|
1.0
|
H
|
E:ALA63
|
4.2
|
47.4
|
1.0
|
C
|
E:VAL60
|
4.2
|
43.6
|
1.0
|
HE2
|
E:MET64
|
4.3
|
61.6
|
1.0
|
C23
|
F:WTF405
|
4.3
|
40.6
|
1.0
|
CG1
|
E:VAL60
|
4.3
|
34.2
|
1.0
|
N
|
E:ALA63
|
4.3
|
39.0
|
1.0
|
HE3
|
E:MET64
|
4.3
|
61.6
|
1.0
|
HG12
|
F:VAL151
|
4.4
|
58.6
|
1.0
|
CA
|
E:VAL60
|
4.4
|
38.1
|
1.0
|
HA
|
E:ALA63
|
4.4
|
51.6
|
1.0
|
HB2
|
E:MET64
|
4.5
|
57.4
|
1.0
|
H301
|
F:WTF405
|
4.5
|
55.0
|
1.0
|
HE2
|
F:PHE148
|
4.5
|
82.9
|
1.0
|
HG11
|
F:VAL151
|
4.5
|
58.6
|
1.0
|
CE
|
E:MET64
|
4.6
|
50.9
|
1.0
|
SD
|
E:MET64
|
4.8
|
47.9
|
1.0
|
HB3
|
E:MET64
|
4.8
|
57.4
|
1.0
|
CG1
|
F:VAL151
|
4.9
|
48.4
|
1.0
|
CG
|
F:LEU155
|
4.9
|
40.7
|
1.0
|
CB
|
E:VAL60
|
5.0
|
32.4
|
1.0
|
O
|
E:LEU59
|
5.0
|
46.1
|
1.0
|
|
Reference:
A.Gorelik,
A.Gebai,
K.Illes,
D.Piomelli,
B.Nagar.
Molecular Mechanism of Activation of the Immunoregulatory Amidase Naaa. Proc. Natl. Acad. Sci. V. 115 10032 2018U.S.A..
ISSN: ESSN 1091-6490
PubMed: 30301806
DOI: 10.1073/PNAS.1811759115
Page generated: Thu Aug 1 19:14:12 2024
|