Chlorine in PDB 9auw: Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
Enzymatic activity of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
All present enzymatic activity of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979:
1.1.1.205;
Protein crystallography data
The structure of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979, PDB code: 9auw
was solved by
S.F.Harris,
P.Wu,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
46.00 /
2.30
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
113.72,
127.299,
127.478,
90,
101.82,
90
|
R / Rfree (%)
|
24.4 /
26.5
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
(pdb code 9auw). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 8 binding sites of Chlorine where determined in the
Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979, PDB code: 9auw:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Chlorine binding site 1 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 1 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_01.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_01_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl802
b:30.3
occ:1.00
|
CL15
|
A:VP4802
|
0.0
|
30.3
|
1.0
|
C9
|
A:VP4802
|
1.7
|
21.4
|
1.0
|
C8
|
A:VP4802
|
2.7
|
17.2
|
1.0
|
C10
|
A:VP4802
|
2.7
|
18.1
|
1.0
|
N12
|
A:VP4802
|
3.0
|
16.7
|
1.0
|
O
|
A:HOH944
|
3.2
|
14.6
|
1.0
|
O
|
B:GLY444
|
3.2
|
16.6
|
1.0
|
C
|
B:GLY444
|
3.3
|
16.5
|
1.0
|
C13
|
A:VP4802
|
3.7
|
15.2
|
1.0
|
CA
|
B:GLY444
|
3.7
|
14.3
|
1.0
|
N
|
B:TYR445
|
3.8
|
11.6
|
1.0
|
C7
|
A:VP4802
|
4.0
|
14.2
|
1.0
|
C11
|
A:VP4802
|
4.0
|
14.6
|
1.0
|
CD
|
B:PRO25
|
4.1
|
21.5
|
1.0
|
CD2
|
A:HIS250
|
4.1
|
15.1
|
1.0
|
CG
|
B:PRO25
|
4.2
|
25.8
|
1.0
|
CB
|
A:HIS250
|
4.2
|
11.2
|
1.0
|
C14
|
A:VP4802
|
4.2
|
16.3
|
1.0
|
O
|
B:VAL23
|
4.4
|
23.4
|
1.0
|
CA
|
B:TYR445
|
4.4
|
9.9
|
1.0
|
O
|
B:HOH949
|
4.4
|
16.2
|
1.0
|
C6
|
A:VP4802
|
4.5
|
13.1
|
1.0
|
CG
|
A:HIS250
|
4.5
|
14.2
|
1.0
|
O
|
B:SER441
|
4.6
|
18.8
|
1.0
|
OG
|
B:SER21
|
4.9
|
30.1
|
1.0
|
CG
|
B:TYR445
|
4.9
|
9.1
|
1.0
|
N
|
B:GLY444
|
5.0
|
14.7
|
1.0
|
|
Chlorine binding site 2 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 2 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_02.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_02_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl802
b:26.8
occ:1.00
|
CL15
|
B:VP4802
|
0.0
|
26.8
|
1.0
|
C9
|
B:VP4802
|
1.7
|
20.0
|
1.0
|
C8
|
B:VP4802
|
2.7
|
15.0
|
1.0
|
C10
|
B:VP4802
|
2.8
|
19.4
|
1.0
|
N12
|
B:VP4802
|
3.1
|
18.9
|
1.0
|
O
|
C:GLY444
|
3.4
|
14.8
|
1.0
|
C
|
C:GLY444
|
3.4
|
15.6
|
1.0
|
ND1
|
B:HIS250
|
3.7
|
14.6
|
1.0
|
C13
|
B:VP4802
|
3.8
|
18.1
|
1.0
|
CA
|
C:GLY444
|
3.8
|
12.9
|
1.0
|
N
|
C:TYR445
|
3.8
|
12.0
|
1.0
|
C7
|
B:VP4802
|
4.0
|
14.1
|
1.0
|
C11
|
B:VP4802
|
4.0
|
19.2
|
1.0
|
CB
|
B:HIS250
|
4.1
|
9.7
|
1.0
|
CD
|
C:PRO25
|
4.1
|
21.0
|
1.0
|
C14
|
B:VP4802
|
4.2
|
17.7
|
1.0
|
CG
|
C:PRO25
|
4.3
|
25.3
|
1.0
|
O
|
C:HOH936
|
4.3
|
18.6
|
1.0
|
CA
|
C:TYR445
|
4.3
|
10.9
|
1.0
|
CG
|
B:HIS250
|
4.4
|
12.8
|
1.0
|
O
|
C:SER441
|
4.5
|
16.2
|
1.0
|
C6
|
B:VP4802
|
4.5
|
15.7
|
1.0
|
O
|
C:VAL23
|
4.6
|
24.4
|
1.0
|
CD1
|
C:TYR445
|
4.8
|
11.1
|
1.0
|
CG
|
C:TYR445
|
4.8
|
10.0
|
1.0
|
CE1
|
B:HIS250
|
4.8
|
13.9
|
1.0
|
|
Chlorine binding site 3 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 3 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_03.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_03_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Cl802
b:27.6
occ:1.00
|
CL15
|
C:VP4802
|
0.0
|
27.6
|
1.0
|
C9
|
C:VP4802
|
1.7
|
22.8
|
1.0
|
C8
|
C:VP4802
|
2.6
|
19.6
|
1.0
|
C10
|
C:VP4802
|
2.8
|
23.1
|
1.0
|
N12
|
C:VP4802
|
3.1
|
19.8
|
1.0
|
O
|
D:GLY444
|
3.3
|
14.4
|
1.0
|
C
|
D:GLY444
|
3.3
|
15.0
|
1.0
|
CA
|
D:GLY444
|
3.6
|
11.6
|
1.0
|
C13
|
C:VP4802
|
3.7
|
19.4
|
1.0
|
N
|
D:TYR445
|
3.7
|
9.8
|
1.0
|
C7
|
C:VP4802
|
3.9
|
20.1
|
1.0
|
C11
|
C:VP4802
|
4.0
|
23.2
|
1.0
|
CD
|
D:PRO25
|
4.1
|
20.9
|
1.0
|
CD2
|
C:HIS250
|
4.2
|
18.5
|
1.0
|
CB
|
C:HIS250
|
4.2
|
13.5
|
1.0
|
CG
|
D:PRO25
|
4.2
|
25.1
|
1.0
|
CA
|
D:TYR445
|
4.3
|
8.7
|
1.0
|
C14
|
C:VP4802
|
4.3
|
17.9
|
1.0
|
O
|
D:SER441
|
4.4
|
19.8
|
1.0
|
O
|
D:HOH927
|
4.4
|
12.9
|
1.0
|
CG
|
C:HIS250
|
4.5
|
17.0
|
1.0
|
C6
|
C:VP4802
|
4.5
|
21.2
|
1.0
|
O
|
D:VAL23
|
4.6
|
27.1
|
1.0
|
CG
|
D:TYR445
|
4.8
|
8.2
|
1.0
|
CD1
|
D:TYR445
|
4.9
|
9.2
|
1.0
|
N
|
D:GLY444
|
4.9
|
11.8
|
1.0
|
|
Chlorine binding site 4 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 4 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_04.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_04_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl802
b:29.2
occ:1.00
|
CL15
|
D:VP4802
|
0.0
|
29.2
|
1.0
|
C9
|
D:VP4802
|
1.7
|
22.6
|
1.0
|
C8
|
D:VP4802
|
2.7
|
18.8
|
1.0
|
C10
|
D:VP4802
|
2.8
|
19.9
|
1.0
|
N12
|
D:VP4802
|
3.0
|
17.8
|
1.0
|
O
|
A:GLY444
|
3.2
|
16.6
|
1.0
|
C
|
A:GLY444
|
3.3
|
18.0
|
1.0
|
CA
|
A:GLY444
|
3.7
|
15.8
|
1.0
|
N
|
A:TYR445
|
3.7
|
13.9
|
1.0
|
C13
|
D:VP4802
|
3.9
|
17.7
|
1.0
|
C7
|
D:VP4802
|
4.0
|
18.1
|
1.0
|
C14
|
D:VP4802
|
4.1
|
16.1
|
1.0
|
C11
|
D:VP4802
|
4.1
|
20.1
|
1.0
|
CD2
|
D:HIS250
|
4.1
|
19.8
|
1.0
|
CD
|
A:PRO25
|
4.1
|
24.9
|
1.0
|
CB
|
D:HIS250
|
4.2
|
15.7
|
1.0
|
CG
|
A:PRO25
|
4.3
|
29.0
|
1.0
|
CA
|
A:TYR445
|
4.3
|
12.5
|
1.0
|
O
|
A:VAL23
|
4.4
|
23.4
|
1.0
|
O
|
A:SER441
|
4.5
|
20.6
|
1.0
|
CG
|
D:HIS250
|
4.5
|
18.5
|
1.0
|
C6
|
D:VP4802
|
4.5
|
18.3
|
1.0
|
CG
|
A:TYR445
|
4.8
|
13.2
|
1.0
|
CD1
|
A:TYR445
|
4.9
|
14.6
|
1.0
|
N
|
A:GLY444
|
4.9
|
16.7
|
1.0
|
OG
|
A:SER21
|
5.0
|
27.9
|
1.0
|
|
Chlorine binding site 5 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 5 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_05.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_05_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Cl802
b:26.1
occ:1.00
|
CL15
|
E:VP4802
|
0.0
|
26.1
|
1.0
|
C9
|
E:VP4802
|
1.7
|
24.3
|
1.0
|
C8
|
E:VP4802
|
2.7
|
23.1
|
1.0
|
C10
|
E:VP4802
|
2.8
|
22.4
|
1.0
|
N12
|
E:VP4802
|
3.0
|
18.8
|
1.0
|
O
|
F:GLY444
|
3.2
|
20.9
|
1.0
|
C
|
F:GLY444
|
3.4
|
20.3
|
1.0
|
C13
|
E:VP4802
|
3.8
|
17.0
|
1.0
|
CA
|
F:GLY444
|
3.9
|
17.6
|
1.0
|
N
|
F:TYR445
|
4.0
|
14.5
|
1.0
|
C7
|
E:VP4802
|
4.0
|
24.6
|
1.0
|
C11
|
E:VP4802
|
4.0
|
23.9
|
1.0
|
C14
|
E:VP4802
|
4.1
|
14.7
|
1.0
|
CD2
|
E:HIS250
|
4.2
|
23.7
|
1.0
|
CD
|
F:PRO25
|
4.2
|
31.1
|
1.0
|
CB
|
E:HIS250
|
4.2
|
19.6
|
1.0
|
CG
|
F:PRO25
|
4.2
|
35.5
|
1.0
|
CA
|
F:TYR445
|
4.4
|
13.1
|
1.0
|
C6
|
E:VP4802
|
4.5
|
24.4
|
1.0
|
O
|
F:SER441
|
4.5
|
19.6
|
1.0
|
CG
|
E:HIS250
|
4.5
|
22.7
|
1.0
|
CG
|
F:TYR445
|
4.9
|
9.5
|
1.0
|
CD1
|
F:TYR445
|
4.9
|
10.6
|
1.0
|
|
Chlorine binding site 6 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 6 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_06.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_06_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Cl802
b:28.8
occ:1.00
|
CL15
|
F:VP4802
|
0.0
|
28.8
|
1.0
|
C9
|
F:VP4802
|
1.7
|
27.5
|
1.0
|
C8
|
F:VP4802
|
2.7
|
25.9
|
1.0
|
C10
|
F:VP4802
|
2.8
|
27.3
|
1.0
|
N12
|
F:VP4802
|
3.1
|
26.1
|
1.0
|
O
|
G:GLY444
|
3.4
|
21.0
|
1.0
|
C
|
G:GLY444
|
3.5
|
20.9
|
1.0
|
C13
|
F:VP4802
|
3.8
|
26.1
|
1.0
|
CA
|
G:GLY444
|
3.9
|
18.4
|
1.0
|
C7
|
F:VP4802
|
4.0
|
26.6
|
1.0
|
N
|
G:TYR445
|
4.0
|
16.1
|
1.0
|
C11
|
F:VP4802
|
4.1
|
28.2
|
1.0
|
ND1
|
F:HIS250
|
4.2
|
22.5
|
1.0
|
CB
|
F:HIS250
|
4.2
|
17.9
|
1.0
|
C14
|
F:VP4802
|
4.3
|
23.7
|
1.0
|
CD
|
G:PRO25
|
4.3
|
28.8
|
1.0
|
CG
|
G:PRO25
|
4.4
|
33.2
|
1.0
|
CA
|
G:TYR445
|
4.5
|
15.8
|
1.0
|
C6
|
F:VP4802
|
4.5
|
26.9
|
1.0
|
O
|
G:SER441
|
4.7
|
22.0
|
1.0
|
CG
|
F:HIS250
|
4.7
|
20.8
|
1.0
|
O
|
G:VAL23
|
4.7
|
34.7
|
1.0
|
CD1
|
G:TYR445
|
4.9
|
16.9
|
1.0
|
CG
|
G:TYR445
|
4.9
|
15.6
|
1.0
|
|
Chlorine binding site 7 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 7 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_07.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_07_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 7 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Cl802
b:31.8
occ:1.00
|
CL15
|
G:VP4802
|
0.0
|
31.8
|
1.0
|
C9
|
G:VP4802
|
1.7
|
24.7
|
1.0
|
C8
|
G:VP4802
|
2.6
|
22.1
|
1.0
|
C10
|
G:VP4802
|
2.8
|
21.8
|
1.0
|
N12
|
G:VP4802
|
3.1
|
19.1
|
1.0
|
C
|
H:GLY444
|
3.5
|
20.1
|
1.0
|
O
|
H:GLY444
|
3.5
|
20.7
|
1.0
|
C13
|
G:VP4802
|
3.8
|
16.8
|
1.0
|
N
|
H:TYR445
|
3.9
|
14.8
|
1.0
|
CA
|
H:GLY444
|
3.9
|
16.9
|
1.0
|
O
|
H:HOH934
|
3.9
|
18.6
|
1.0
|
C7
|
G:VP4802
|
3.9
|
22.3
|
1.0
|
C11
|
G:VP4802
|
4.0
|
20.4
|
1.0
|
CB
|
G:HIS250
|
4.1
|
21.7
|
1.0
|
CD2
|
G:HIS250
|
4.1
|
25.8
|
1.0
|
CD
|
H:PRO25
|
4.2
|
28.2
|
1.0
|
CG
|
H:PRO25
|
4.2
|
32.4
|
1.0
|
C14
|
G:VP4802
|
4.3
|
19.2
|
1.0
|
O
|
H:SER441
|
4.4
|
21.1
|
1.0
|
CA
|
H:TYR445
|
4.4
|
13.5
|
1.0
|
CG
|
G:HIS250
|
4.4
|
25.0
|
1.0
|
C6
|
G:VP4802
|
4.5
|
19.6
|
1.0
|
CG
|
H:TYR445
|
4.7
|
12.7
|
1.0
|
CD1
|
H:TYR445
|
4.8
|
15.1
|
1.0
|
O
|
H:VAL23
|
4.9
|
34.0
|
1.0
|
|
Chlorine binding site 8 out
of 8 in 9auw
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Chlorine Binding Sites List in 9auw
Chlorine binding site 8 out
of 8 in the Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979
![](/pictures/CL/pdb/au/9auw-CL-sphere_08.jpg) Mono view
![](/pictures/CL/pdb/au/9auw-CL-sphere_08_stereo.jpg) Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 8 of Crystal Structure of A. Baumannii Guab Dcbs with Inhibitor GNE9979 within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Cl802
b:33.6
occ:1.00
|
CL15
|
H:VP4802
|
0.0
|
33.6
|
1.0
|
C9
|
H:VP4802
|
1.7
|
31.6
|
1.0
|
C8
|
H:VP4802
|
2.7
|
30.3
|
1.0
|
C10
|
H:VP4802
|
2.8
|
30.8
|
1.0
|
N12
|
H:VP4802
|
3.0
|
30.4
|
1.0
|
C
|
E:GLY444
|
3.4
|
20.2
|
1.0
|
O
|
E:GLY444
|
3.5
|
20.5
|
1.0
|
CA
|
E:GLY444
|
3.7
|
17.8
|
1.0
|
C13
|
H:VP4802
|
3.8
|
28.5
|
1.0
|
N
|
E:TYR445
|
3.8
|
15.2
|
1.0
|
CD
|
E:PRO25
|
4.0
|
29.1
|
1.0
|
C7
|
H:VP4802
|
4.0
|
29.6
|
1.0
|
CG
|
E:PRO25
|
4.0
|
33.6
|
1.0
|
C11
|
H:VP4802
|
4.0
|
30.0
|
1.0
|
C14
|
H:VP4802
|
4.1
|
31.3
|
1.0
|
CD2
|
H:HIS250
|
4.2
|
24.2
|
1.0
|
CB
|
H:HIS250
|
4.3
|
19.1
|
1.0
|
O
|
E:SER441
|
4.4
|
19.2
|
1.0
|
CA
|
E:TYR445
|
4.4
|
14.1
|
1.0
|
C6
|
H:VP4802
|
4.5
|
29.3
|
1.0
|
CG
|
H:HIS250
|
4.6
|
22.7
|
1.0
|
O
|
E:VAL23
|
4.6
|
34.9
|
1.0
|
CG
|
E:TYR445
|
4.8
|
15.7
|
1.0
|
CD1
|
E:TYR445
|
4.9
|
18.5
|
1.0
|
N
|
E:GLY444
|
4.9
|
18.3
|
1.0
|
|
Reference:
E.M.Kofoed,
I.Aliagas,
T.Crawford,
J.Mao,
S.F.Harris,
M.Xu,
S.Wang,
P.Wu,
F.Ma,
K.Clark,
J.Sims,
Y.Xu,
Y.Peng,
E.Skippington,
Y.Yang,
J.Reeder,
S.Ubhayakar,
M.Baumgardner,
Z.Yan,
J.Chen,
S.Park,
H.Zhang,
C.-W.Yen,
M.Lorenzo,
N.Skelton,
X.Liang,
L.Chen,
B.Hoag,
C.S.Li,
Z.Liu,
J.Wai,
X.Liu,
J.Liang,
M.W.Tan.
Discovery of Guab Inhibitors with Efficacy Against Acinetobacter Baumannii Infection. Mbio V. 15 89724 2024.
ISSN: ESSN 2150-7511
PubMed: 39207111
DOI: 10.1128/MBIO.00897-24
Page generated: Sat Feb 8 17:25:58 2025
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