Bromine in PDB 4d45: Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Enzymatic activity of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
All present enzymatic activity of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile:
1.3.1.10;
1.3.1.39;
Protein crystallography data
The structure of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile, PDB code: 4d45
was solved by
M.Tareilus,
J.Schiebel,
A.Chang,
P.J.Tonge,
C.A.Sotriffer,
C.Kisker,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
46.58 /
2.15
|
Space group
|
P 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
90.077,
95.168,
95.200,
98.43,
97.53,
111.47
|
R / Rfree (%)
|
17.417 /
22.679
|
Other elements in 4d45:
The structure of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile also contains other interesting chemical elements:
Bromine Binding Sites:
The binding sites of Bromine atom in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
(pdb code 4d45). This binding sites where shown within
5.0 Angstroms radius around Bromine atom.
In total 8 binding sites of Bromine where determined in the
Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile, PDB code: 4d45:
Jump to Bromine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Bromine binding site 1 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 1 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 1 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Br1258
b:44.9
occ:1.00
|
BR1
|
A:J471258
|
0.0
|
44.9
|
1.0
|
C4
|
A:J471258
|
1.9
|
35.0
|
1.0
|
C3
|
A:J471258
|
2.8
|
31.4
|
1.0
|
C5
|
A:J471258
|
2.8
|
30.1
|
1.0
|
O
|
A:ALA97
|
3.1
|
29.8
|
1.0
|
N
|
A:ALA97
|
3.4
|
29.4
|
1.0
|
CD1
|
A:LEU102
|
3.5
|
41.9
|
1.0
|
O
|
A:HOH2065
|
3.7
|
36.2
|
1.0
|
C
|
A:ALA97
|
4.0
|
29.0
|
1.0
|
CA
|
A:ALA97
|
4.1
|
28.2
|
1.0
|
CB
|
A:ALA97
|
4.1
|
25.7
|
1.0
|
C2
|
A:J471258
|
4.1
|
29.6
|
1.0
|
C6
|
A:J471258
|
4.1
|
29.2
|
1.0
|
C
|
A:PHE96
|
4.2
|
28.1
|
1.0
|
CE
|
A:MET160
|
4.3
|
29.9
|
1.0
|
CA
|
A:PHE96
|
4.4
|
27.1
|
1.0
|
C7
|
A:J471258
|
4.6
|
29.1
|
1.0
|
CG
|
A:LEU102
|
4.7
|
38.6
|
1.0
|
O
|
A:HOH2064
|
4.8
|
16.9
|
1.0
|
O
|
A:HOH2028
|
4.9
|
41.4
|
1.0
|
CD1
|
A:PHE96
|
4.9
|
31.0
|
1.0
|
CA
|
A:GLY200
|
5.0
|
35.7
|
1.0
|
|
Bromine binding site 2 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 2 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 2 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Br1258
b:48.4
occ:1.00
|
BR1
|
B:J471258
|
0.0
|
48.4
|
1.0
|
C4
|
B:J471258
|
1.9
|
38.2
|
1.0
|
C5
|
B:J471258
|
2.8
|
32.8
|
1.0
|
C3
|
B:J471258
|
2.8
|
36.7
|
1.0
|
O
|
B:ALA97
|
3.2
|
30.2
|
1.0
|
N
|
B:ALA97
|
3.5
|
29.7
|
1.0
|
CD1
|
B:LEU102
|
3.5
|
26.8
|
1.0
|
C
|
B:ALA97
|
4.0
|
30.4
|
1.0
|
O
|
B:HOH2074
|
4.1
|
40.7
|
1.0
|
CB
|
B:ALA97
|
4.1
|
28.2
|
1.0
|
CA
|
B:ALA97
|
4.1
|
29.6
|
1.0
|
C6
|
B:J471258
|
4.1
|
33.5
|
1.0
|
C2
|
B:J471258
|
4.1
|
30.6
|
1.0
|
C
|
B:PHE96
|
4.3
|
27.4
|
1.0
|
CE
|
B:MET160
|
4.4
|
32.7
|
1.0
|
CA
|
B:PHE96
|
4.4
|
28.1
|
1.0
|
C7
|
B:J471258
|
4.6
|
28.6
|
1.0
|
CG
|
B:LEU102
|
4.8
|
32.2
|
1.0
|
CD1
|
B:PHE96
|
4.9
|
30.3
|
1.0
|
|
Bromine binding site 3 out
of 8 in 4d45
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Bromine Binding Sites List in 4d45
Bromine binding site 3 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 3 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Br1258
b:48.0
occ:1.00
|
BR1
|
C:J471258
|
0.0
|
48.0
|
1.0
|
C4
|
C:J471258
|
1.9
|
40.5
|
1.0
|
C3
|
C:J471258
|
2.8
|
39.5
|
1.0
|
C5
|
C:J471258
|
2.8
|
35.6
|
1.0
|
O
|
C:ALA97
|
3.1
|
26.8
|
1.0
|
N
|
C:ALA97
|
3.6
|
29.9
|
1.0
|
CD1
|
C:LEU102
|
3.6
|
36.2
|
1.0
|
C
|
C:ALA97
|
4.0
|
30.1
|
1.0
|
C2
|
C:J471258
|
4.1
|
36.5
|
1.0
|
C6
|
C:J471258
|
4.1
|
37.0
|
1.0
|
O
|
C:HOH2078
|
4.3
|
48.9
|
1.0
|
CA
|
C:ALA97
|
4.3
|
30.1
|
1.0
|
C
|
C:PHE96
|
4.4
|
29.6
|
1.0
|
CB
|
C:ALA97
|
4.5
|
30.6
|
1.0
|
CA
|
C:PHE96
|
4.5
|
27.9
|
1.0
|
CE
|
C:MET160
|
4.6
|
35.3
|
1.0
|
C7
|
C:J471258
|
4.7
|
35.0
|
1.0
|
CD1
|
C:PHE96
|
4.8
|
22.3
|
1.0
|
CA
|
C:GLY200
|
4.9
|
38.1
|
1.0
|
O
|
C:SER197
|
4.9
|
30.3
|
1.0
|
CG
|
C:LEU102
|
5.0
|
41.7
|
1.0
|
|
Bromine binding site 4 out
of 8 in 4d45
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Bromine Binding Sites List in 4d45
Bromine binding site 4 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 4 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Br1258
b:60.6
occ:1.00
|
BR1
|
D:J471258
|
0.0
|
60.6
|
1.0
|
C4
|
D:J471258
|
1.9
|
50.6
|
1.0
|
C3
|
D:J471258
|
2.8
|
46.3
|
1.0
|
C5
|
D:J471258
|
2.8
|
42.8
|
1.0
|
O
|
D:ALA97
|
3.3
|
44.4
|
1.0
|
N
|
D:ALA97
|
3.4
|
36.8
|
1.0
|
CD1
|
D:LEU102
|
3.6
|
61.5
|
1.0
|
C
|
D:ALA97
|
4.0
|
41.8
|
1.0
|
CA
|
D:ALA97
|
4.1
|
38.5
|
1.0
|
C2
|
D:J471258
|
4.1
|
44.0
|
1.0
|
C6
|
D:J471258
|
4.1
|
40.8
|
1.0
|
CE
|
D:MET160
|
4.2
|
40.1
|
1.0
|
CB
|
D:ALA97
|
4.3
|
35.2
|
1.0
|
C
|
D:PHE96
|
4.3
|
35.6
|
1.0
|
CA
|
D:PHE96
|
4.4
|
35.4
|
1.0
|
C7
|
D:J471258
|
4.7
|
44.6
|
1.0
|
CD1
|
D:PHE96
|
4.7
|
36.3
|
1.0
|
CG
|
D:LEU102
|
4.9
|
62.8
|
1.0
|
|
Bromine binding site 5 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 5 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 5 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Br1258
b:45.1
occ:1.00
|
BR1
|
E:J471258
|
0.0
|
45.1
|
1.0
|
C4
|
E:J471258
|
1.9
|
35.1
|
1.0
|
C3
|
E:J471258
|
2.8
|
32.7
|
1.0
|
C5
|
E:J471258
|
2.8
|
34.8
|
1.0
|
O
|
E:ALA97
|
3.2
|
25.8
|
1.0
|
N
|
E:ALA97
|
3.4
|
25.3
|
1.0
|
CD1
|
E:LEU102
|
3.5
|
38.1
|
1.0
|
C
|
E:ALA97
|
4.0
|
25.8
|
1.0
|
C2
|
E:J471258
|
4.1
|
29.5
|
1.0
|
C6
|
E:J471258
|
4.1
|
29.9
|
1.0
|
CA
|
E:ALA97
|
4.2
|
25.4
|
1.0
|
C
|
E:PHE96
|
4.3
|
24.5
|
1.0
|
CA
|
E:PHE96
|
4.3
|
25.2
|
1.0
|
CB
|
E:ALA97
|
4.4
|
24.4
|
1.0
|
CE
|
E:MET160
|
4.4
|
35.2
|
1.0
|
C7
|
E:J471258
|
4.7
|
30.8
|
1.0
|
CG
|
E:LEU102
|
4.7
|
43.3
|
1.0
|
O
|
E:HOH2044
|
4.8
|
16.1
|
1.0
|
CD1
|
E:PHE96
|
4.8
|
31.1
|
1.0
|
|
Bromine binding site 6 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 6 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 6 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Br1258
b:49.3
occ:1.00
|
BR1
|
F:J471258
|
0.0
|
49.3
|
1.0
|
C4
|
F:J471258
|
1.9
|
40.1
|
1.0
|
C3
|
F:J471258
|
2.8
|
35.7
|
1.0
|
C5
|
F:J471258
|
2.8
|
31.2
|
1.0
|
O
|
F:ALA97
|
3.0
|
29.2
|
1.0
|
CD1
|
F:LEU102
|
3.3
|
40.6
|
1.0
|
N
|
F:ALA97
|
3.4
|
28.7
|
1.0
|
C
|
F:ALA97
|
3.9
|
30.8
|
1.0
|
CA
|
F:ALA97
|
4.0
|
29.8
|
1.0
|
CB
|
F:ALA97
|
4.1
|
26.4
|
1.0
|
C2
|
F:J471258
|
4.1
|
34.4
|
1.0
|
C6
|
F:J471258
|
4.1
|
29.8
|
1.0
|
CE
|
F:MET160
|
4.3
|
39.7
|
1.0
|
C
|
F:PHE96
|
4.3
|
27.9
|
1.0
|
CA
|
F:PHE96
|
4.4
|
28.8
|
1.0
|
C7
|
F:J471258
|
4.6
|
28.9
|
1.0
|
CG
|
F:LEU102
|
4.7
|
38.5
|
1.0
|
CD1
|
F:PHE96
|
4.8
|
33.1
|
1.0
|
CA
|
F:GLY200
|
5.0
|
30.1
|
1.0
|
|
Bromine binding site 7 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 7 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 7 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Br1258
b:50.1
occ:1.00
|
BR1
|
G:J471258
|
0.0
|
50.1
|
1.0
|
C4
|
G:J471258
|
1.9
|
41.0
|
1.0
|
C3
|
G:J471258
|
2.8
|
39.5
|
1.0
|
C5
|
G:J471258
|
2.8
|
38.2
|
1.0
|
O
|
G:ALA97
|
3.0
|
30.6
|
1.0
|
N
|
G:ALA97
|
3.6
|
29.1
|
1.0
|
CD1
|
G:LEU102
|
3.6
|
37.4
|
1.0
|
C
|
G:ALA97
|
4.0
|
31.9
|
1.0
|
C2
|
G:J471258
|
4.1
|
36.5
|
1.0
|
C6
|
G:J471258
|
4.1
|
34.6
|
1.0
|
CA
|
G:ALA97
|
4.2
|
30.8
|
1.0
|
CB
|
G:ALA97
|
4.3
|
29.4
|
1.0
|
CE
|
G:MET160
|
4.4
|
31.7
|
1.0
|
C
|
G:PHE96
|
4.4
|
29.8
|
1.0
|
CA
|
G:PHE96
|
4.4
|
29.5
|
1.0
|
C7
|
G:J471258
|
4.6
|
34.2
|
1.0
|
CD2
|
G:PHE96
|
4.8
|
27.8
|
1.0
|
O
|
G:HOH2067
|
4.9
|
16.9
|
1.0
|
O
|
G:SER197
|
4.9
|
32.3
|
1.0
|
CG
|
G:LEU102
|
5.0
|
45.7
|
1.0
|
|
Bromine binding site 8 out
of 8 in 4d45
Go back to
Bromine Binding Sites List in 4d45
Bromine binding site 8 out
of 8 in the Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile
Mono view
Stereo pair view
|
A full contact list of Bromine with other atoms in the Br binding
site number 8 of Crystal Structure of S. Aureus Fabi in Complex with Nadp and 5-Bromo-2-(4-Chloro-2-Hydroxyphenoxy)Benzonitrile within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Br1258
b:63.7
occ:1.00
|
BR1
|
H:J471258
|
0.0
|
63.7
|
1.0
|
C4
|
H:J471258
|
1.9
|
52.7
|
1.0
|
C3
|
H:J471258
|
2.8
|
49.9
|
1.0
|
C5
|
H:J471258
|
2.8
|
47.7
|
1.0
|
O
|
H:ALA97
|
3.4
|
40.6
|
1.0
|
CD1
|
H:LEU102
|
3.5
|
60.3
|
1.0
|
N
|
H:ALA97
|
3.5
|
36.9
|
1.0
|
C
|
H:ALA97
|
4.0
|
41.3
|
1.0
|
C6
|
H:J471258
|
4.1
|
44.9
|
1.0
|
C2
|
H:J471258
|
4.1
|
44.6
|
1.0
|
CA
|
H:ALA97
|
4.2
|
38.5
|
1.0
|
CE
|
H:MET160
|
4.4
|
40.7
|
1.0
|
CB
|
H:ALA97
|
4.4
|
37.0
|
1.0
|
C
|
H:PHE96
|
4.5
|
36.1
|
1.0
|
CG
|
H:MET99
|
4.5
|
71.2
|
1.0
|
CA
|
H:PHE96
|
4.5
|
36.2
|
1.0
|
C7
|
H:J471258
|
4.7
|
42.2
|
1.0
|
CD1
|
H:PHE96
|
4.7
|
41.5
|
1.0
|
CE
|
H:MET99
|
4.7
|
86.6
|
1.0
|
CG
|
H:LEU102
|
4.9
|
62.4
|
1.0
|
|
Reference:
J.Schiebel,
A.Chang,
B.Merget,
G.R.Bommineni,
W.Yu,
L.A.Spagnuolo,
M.V.Baxter,
M.Tareilus,
P.J.Tonge,
C.Kisker,
C.A.Sotriffer.
An Ordered Water Channel in Staphylococcus Aureus Fabi: Unraveling the Mechanism of Substrate Recognition and Reduction. Biochemistry 2015.
ISSN: ESSN 1520-4995
PubMed: 25706582
DOI: 10.1021/BI5014358
Page generated: Wed Jul 10 21:00:16 2024
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