Fluorine in PDB 6p11: Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
Enzymatic activity of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
All present enzymatic activity of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor:
5.6.1.1;
Protein crystallography data
The structure of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor, PDB code: 6p11
was solved by
R.Pisa,
T.Cupido,
T.M.Kapoor,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
39.69 /
2.15
|
Space group
|
P 65
|
Cell size a, b, c (Å), α, β, γ (°)
|
79.446,
79.446,
97.171,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
21.3 /
24.1
|
Fluorine Binding Sites:
The binding sites of Fluorine atom in the Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
(pdb code 6p11). This binding sites where shown within
5.0 Angstroms radius around Fluorine atom.
In total 4 binding sites of Fluorine where determined in the
Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor, PDB code: 6p11:
Jump to Fluorine binding site number:
1;
2;
3;
4;
Fluorine binding site 1 out
of 4 in 6p11
Go back to
Fluorine Binding Sites List in 6p11
Fluorine binding site 1 out
of 4 in the Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 1 of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F802
b:53.6
occ:0.65
|
F1
|
B:SKE802
|
0.0
|
53.6
|
0.7
|
F1
|
B:SKE802
|
0.2
|
52.8
|
0.3
|
C11
|
B:SKE802
|
1.2
|
50.6
|
0.3
|
C11
|
B:SKE802
|
1.3
|
50.7
|
0.7
|
C10
|
B:SKE802
|
2.2
|
47.5
|
0.3
|
C12
|
B:SKE802
|
2.3
|
48.4
|
0.7
|
C12
|
B:SKE802
|
2.3
|
48.4
|
0.3
|
C10
|
B:SKE802
|
2.4
|
47.4
|
0.7
|
C9
|
B:SKE802
|
2.7
|
48.5
|
0.3
|
C9
|
B:SKE802
|
2.9
|
49.1
|
0.7
|
N5
|
B:SKE802
|
3.0
|
45.5
|
0.7
|
N5
|
B:SKE802
|
3.0
|
46.0
|
0.3
|
N6
|
B:SKE802
|
3.1
|
48.5
|
0.3
|
N6
|
B:SKE802
|
3.2
|
48.6
|
0.7
|
C15
|
B:SKE802
|
3.5
|
48.5
|
0.3
|
O
|
B:GLY688
|
3.5
|
42.5
|
1.0
|
C13
|
B:SKE802
|
3.5
|
50.0
|
0.3
|
C13
|
B:SKE802
|
3.5
|
50.1
|
0.7
|
O3
|
B:SKE802
|
3.6
|
48.6
|
0.3
|
C15
|
B:SKE802
|
3.6
|
48.8
|
0.7
|
CD2
|
B:LEU659
|
3.6
|
55.5
|
1.0
|
O3
|
B:SKE802
|
3.9
|
49.9
|
0.7
|
C
|
B:GLY688
|
3.9
|
41.8
|
1.0
|
C14
|
B:SKE802
|
4.0
|
45.6
|
0.3
|
C4
|
B:SKE802
|
4.0
|
51.9
|
0.7
|
C14
|
B:SKE802
|
4.0
|
45.4
|
0.7
|
CA
|
B:GLY688
|
4.1
|
41.0
|
1.0
|
C2
|
B:SKE802
|
4.2
|
45.3
|
0.7
|
C2
|
B:SKE802
|
4.2
|
48.7
|
0.3
|
C1
|
B:SKE802
|
4.3
|
46.3
|
0.3
|
CD1
|
B:LEU659
|
4.3
|
50.3
|
1.0
|
C1
|
B:SKE802
|
4.4
|
47.3
|
0.7
|
CG
|
B:LEU659
|
4.5
|
48.2
|
1.0
|
F2
|
B:SKE802
|
4.5
|
45.5
|
0.3
|
C5
|
B:SKE802
|
4.6
|
57.5
|
0.7
|
C4
|
B:SKE802
|
4.7
|
54.8
|
0.3
|
F2
|
B:SKE802
|
4.7
|
46.4
|
0.7
|
N
|
B:SER689
|
4.8
|
42.5
|
1.0
|
C3
|
B:SKE802
|
4.8
|
54.9
|
0.7
|
CB
|
B:ALA692
|
4.9
|
38.4
|
1.0
|
N2
|
B:SKE802
|
4.9
|
45.8
|
0.3
|
N2
|
B:SKE802
|
4.9
|
46.4
|
0.7
|
CB
|
B:LEU659
|
5.0
|
42.6
|
1.0
|
N3
|
B:SKE802
|
5.0
|
54.0
|
0.7
|
|
Fluorine binding site 2 out
of 4 in 6p11
Go back to
Fluorine Binding Sites List in 6p11
Fluorine binding site 2 out
of 4 in the Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 2 of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F802
b:52.8
occ:0.35
|
F1
|
B:SKE802
|
0.0
|
52.8
|
0.3
|
F1
|
B:SKE802
|
0.2
|
53.6
|
0.7
|
C11
|
B:SKE802
|
1.3
|
50.6
|
0.3
|
C11
|
B:SKE802
|
1.4
|
50.7
|
0.7
|
C12
|
B:SKE802
|
2.2
|
48.4
|
0.7
|
C12
|
B:SKE802
|
2.3
|
48.4
|
0.3
|
C10
|
B:SKE802
|
2.4
|
47.5
|
0.3
|
C10
|
B:SKE802
|
2.5
|
47.4
|
0.7
|
C9
|
B:SKE802
|
2.9
|
48.5
|
0.3
|
C9
|
B:SKE802
|
3.1
|
49.1
|
0.7
|
N5
|
B:SKE802
|
3.2
|
46.0
|
0.3
|
N5
|
B:SKE802
|
3.2
|
45.5
|
0.7
|
N6
|
B:SKE802
|
3.3
|
48.5
|
0.3
|
N6
|
B:SKE802
|
3.4
|
48.6
|
0.7
|
O
|
B:GLY688
|
3.4
|
42.5
|
1.0
|
C13
|
B:SKE802
|
3.5
|
50.0
|
0.3
|
C13
|
B:SKE802
|
3.5
|
50.1
|
0.7
|
C15
|
B:SKE802
|
3.6
|
48.5
|
0.3
|
CD2
|
B:LEU659
|
3.7
|
55.5
|
1.0
|
C15
|
B:SKE802
|
3.7
|
48.8
|
0.7
|
O3
|
B:SKE802
|
3.8
|
48.6
|
0.3
|
C
|
B:GLY688
|
3.9
|
41.8
|
1.0
|
C4
|
B:SKE802
|
4.0
|
51.9
|
0.7
|
C14
|
B:SKE802
|
4.0
|
45.6
|
0.3
|
O3
|
B:SKE802
|
4.1
|
49.9
|
0.7
|
C14
|
B:SKE802
|
4.1
|
45.4
|
0.7
|
CA
|
B:GLY688
|
4.1
|
41.0
|
1.0
|
C2
|
B:SKE802
|
4.3
|
48.7
|
0.3
|
C2
|
B:SKE802
|
4.3
|
45.3
|
0.7
|
CD1
|
B:LEU659
|
4.4
|
50.3
|
1.0
|
C1
|
B:SKE802
|
4.5
|
46.3
|
0.3
|
C5
|
B:SKE802
|
4.5
|
57.5
|
0.7
|
CG
|
B:LEU659
|
4.6
|
48.2
|
1.0
|
C1
|
B:SKE802
|
4.6
|
47.3
|
0.7
|
C4
|
B:SKE802
|
4.7
|
54.8
|
0.3
|
CB
|
B:ALA692
|
4.7
|
38.4
|
1.0
|
F2
|
B:SKE802
|
4.7
|
45.5
|
0.3
|
N
|
B:SER689
|
4.8
|
42.5
|
1.0
|
C3
|
B:SKE802
|
4.8
|
54.9
|
0.7
|
F2
|
B:SKE802
|
4.9
|
46.4
|
0.7
|
CD2
|
B:LEU663
|
4.9
|
45.5
|
1.0
|
CD1
|
B:LEU663
|
4.9
|
39.0
|
1.0
|
CB
|
B:LEU659
|
4.9
|
42.6
|
1.0
|
|
Fluorine binding site 3 out
of 4 in 6p11
Go back to
Fluorine Binding Sites List in 6p11
Fluorine binding site 3 out
of 4 in the Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 3 of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F802
b:46.4
occ:0.65
|
F2
|
B:SKE802
|
0.0
|
46.4
|
0.7
|
F2
|
B:SKE802
|
0.3
|
45.5
|
0.3
|
C15
|
B:SKE802
|
1.3
|
48.8
|
0.7
|
C15
|
B:SKE802
|
1.4
|
48.5
|
0.3
|
C14
|
B:SKE802
|
2.3
|
45.6
|
0.3
|
C14
|
B:SKE802
|
2.3
|
45.4
|
0.7
|
C10
|
B:SKE802
|
2.4
|
47.4
|
0.7
|
C10
|
B:SKE802
|
2.5
|
47.5
|
0.3
|
N
|
B:GLY528
|
2.7
|
37.7
|
1.0
|
C9
|
B:SKE802
|
2.9
|
49.1
|
0.7
|
O3
|
B:SKE802
|
3.0
|
49.9
|
0.7
|
C9
|
B:SKE802
|
3.1
|
48.5
|
0.3
|
C
|
B:ASN527
|
3.2
|
36.9
|
1.0
|
O3
|
B:SO4801
|
3.2
|
48.2
|
1.0
|
C
|
B:GLY526
|
3.3
|
42.1
|
1.0
|
CA
|
B:GLY528
|
3.3
|
35.3
|
1.0
|
N
|
B:ASN527
|
3.3
|
43.8
|
1.0
|
O3
|
B:SKE802
|
3.3
|
48.6
|
0.3
|
O
|
B:GLY526
|
3.3
|
41.6
|
1.0
|
CA
|
B:ASN527
|
3.4
|
39.3
|
1.0
|
C11
|
B:SKE802
|
3.6
|
50.7
|
0.7
|
O
|
B:HOH942
|
3.6
|
43.5
|
1.0
|
C13
|
B:SKE802
|
3.6
|
50.1
|
0.7
|
C13
|
B:SKE802
|
3.6
|
50.0
|
0.3
|
C11
|
B:SKE802
|
3.7
|
50.6
|
0.3
|
CD1
|
B:LEU531
|
4.0
|
59.6
|
1.0
|
CA
|
B:GLY526
|
4.1
|
38.6
|
1.0
|
N6
|
B:SKE802
|
4.1
|
48.6
|
0.7
|
C12
|
B:SKE802
|
4.1
|
48.4
|
0.7
|
O
|
B:ASN527
|
4.1
|
40.1
|
1.0
|
C12
|
B:SKE802
|
4.2
|
48.4
|
0.3
|
N6
|
B:SKE802
|
4.2
|
48.5
|
0.3
|
O
|
B:HOH1014
|
4.3
|
59.4
|
1.0
|
S
|
B:SO4801
|
4.6
|
39.5
|
1.0
|
C
|
B:GLY528
|
4.6
|
38.1
|
1.0
|
N
|
B:SER689
|
4.6
|
42.5
|
1.0
|
CA
|
B:GLY688
|
4.7
|
41.0
|
1.0
|
F1
|
B:SKE802
|
4.7
|
53.6
|
0.7
|
N5
|
B:SKE802
|
4.8
|
45.5
|
0.7
|
N5
|
B:SKE802
|
4.8
|
46.0
|
0.3
|
C
|
B:GLY688
|
4.9
|
41.8
|
1.0
|
F1
|
B:SKE802
|
4.9
|
52.8
|
0.3
|
CB
|
B:ASN527
|
5.0
|
52.3
|
1.0
|
O1
|
B:SO4801
|
5.0
|
40.4
|
1.0
|
|
Fluorine binding site 4 out
of 4 in 6p11
Go back to
Fluorine Binding Sites List in 6p11
Fluorine binding site 4 out
of 4 in the Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor
Mono view
Stereo pair view
|
A full contact list of Fluorine with other atoms in the F binding
site number 4 of Structure of Spastin Aaa Domain (T692A Mutant) in Complex with Jnj- 7706621 Inhibitor within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:F802
b:45.5
occ:0.35
|
F2
|
B:SKE802
|
0.0
|
45.5
|
0.3
|
F2
|
B:SKE802
|
0.3
|
46.4
|
0.7
|
C15
|
B:SKE802
|
1.2
|
48.8
|
0.7
|
C15
|
B:SKE802
|
1.3
|
48.5
|
0.3
|
C10
|
B:SKE802
|
2.2
|
47.4
|
0.7
|
C14
|
B:SKE802
|
2.3
|
45.6
|
0.3
|
C14
|
B:SKE802
|
2.4
|
45.4
|
0.7
|
C10
|
B:SKE802
|
2.4
|
47.5
|
0.3
|
C9
|
B:SKE802
|
2.7
|
49.1
|
0.7
|
N
|
B:GLY528
|
2.7
|
37.7
|
1.0
|
O3
|
B:SKE802
|
2.9
|
49.9
|
0.7
|
C9
|
B:SKE802
|
2.9
|
48.5
|
0.3
|
O3
|
B:SKE802
|
3.1
|
48.6
|
0.3
|
CA
|
B:GLY528
|
3.2
|
35.3
|
1.0
|
C
|
B:ASN527
|
3.2
|
36.9
|
1.0
|
O3
|
B:SO4801
|
3.4
|
48.2
|
1.0
|
C11
|
B:SKE802
|
3.4
|
50.7
|
0.7
|
N
|
B:ASN527
|
3.5
|
43.8
|
1.0
|
O
|
B:GLY526
|
3.5
|
41.6
|
1.0
|
C
|
B:GLY526
|
3.5
|
42.1
|
1.0
|
CA
|
B:ASN527
|
3.5
|
39.3
|
1.0
|
C11
|
B:SKE802
|
3.6
|
50.6
|
0.3
|
C13
|
B:SKE802
|
3.6
|
50.1
|
0.7
|
C13
|
B:SKE802
|
3.6
|
50.0
|
0.3
|
O
|
B:HOH942
|
3.6
|
43.5
|
1.0
|
CD1
|
B:LEU531
|
3.8
|
59.6
|
1.0
|
N6
|
B:SKE802
|
3.8
|
48.6
|
0.7
|
N6
|
B:SKE802
|
4.0
|
48.5
|
0.3
|
C12
|
B:SKE802
|
4.0
|
48.4
|
0.7
|
C12
|
B:SKE802
|
4.1
|
48.4
|
0.3
|
O
|
B:ASN527
|
4.1
|
40.1
|
1.0
|
CA
|
B:GLY526
|
4.3
|
38.6
|
1.0
|
N5
|
B:SKE802
|
4.5
|
45.5
|
0.7
|
O
|
B:HOH1014
|
4.5
|
59.4
|
1.0
|
F1
|
B:SKE802
|
4.5
|
53.6
|
0.7
|
N5
|
B:SKE802
|
4.6
|
46.0
|
0.3
|
C
|
B:GLY528
|
4.6
|
38.1
|
1.0
|
CA
|
B:GLY688
|
4.7
|
41.0
|
1.0
|
F1
|
B:SKE802
|
4.7
|
52.8
|
0.3
|
N
|
B:SER689
|
4.7
|
42.5
|
1.0
|
S
|
B:SO4801
|
4.8
|
39.5
|
1.0
|
C
|
B:GLY688
|
4.9
|
41.8
|
1.0
|
C1
|
B:SKE802
|
4.9
|
47.3
|
0.7
|
|
Reference:
R.Pisa,
T.Cupido,
J.B.Steinman,
N.H.Jones,
T.M.Kapoor.
Analyzing Resistance to Design Selective Chemical Inhibitors For Aaa Proteins. Cell Chem Biol V. 26 1263 2019.
ISSN: ESSN 2451-9456
PubMed: 31257183
DOI: 10.1016/J.CHEMBIOL.2019.06.001
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