Chlorine in PDB 9cjr: X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
Enzymatic activity of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
All present enzymatic activity of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir:
3.4.22.69;
Protein crystallography data
The structure of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir, PDB code: 9cjr
was solved by
M.A.Esler,
K.Shi,
R.S.Harris,
H.Aihara,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
33.62 /
1.65
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
54.437,
99.397,
57.077,
90,
105.76,
90
|
R / Rfree (%)
|
17.4 /
21.5
|
Other elements in 9cjr:
The structure of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir also contains other interesting chemical elements:
Chlorine Binding Sites:
The binding sites of Chlorine atom in the X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
(pdb code 9cjr). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 4 binding sites of Chlorine where determined in the
X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir, PDB code: 9cjr:
Jump to Chlorine binding site number:
1;
2;
3;
4;
Chlorine binding site 1 out
of 4 in 9cjr
Go back to
Chlorine Binding Sites List in 9cjr
Chlorine binding site 1 out
of 4 in the X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl401
b:29.7
occ:1.00
|
CL2
|
A:7YY401
|
0.0
|
29.7
|
1.0
|
C22
|
A:7YY401
|
1.7
|
28.4
|
1.0
|
C21
|
A:7YY401
|
2.7
|
30.7
|
1.0
|
C13
|
A:7YY401
|
2.7
|
44.8
|
1.0
|
H13
|
A:7YY401
|
2.8
|
36.8
|
1.0
|
N12
|
A:7YY401
|
3.0
|
27.5
|
1.0
|
N10
|
A:7YY401
|
3.1
|
25.5
|
1.0
|
H17
|
A:7YY401
|
3.2
|
28.2
|
1.0
|
C11
|
A:7YY401
|
3.2
|
23.9
|
1.0
|
SG
|
A:CYS145
|
3.4
|
28.1
|
1.0
|
CB
|
A:CYS145
|
3.5
|
20.6
|
1.0
|
H8
|
A:7YY401
|
3.6
|
33.0
|
1.0
|
CD2
|
A:HIS41
|
3.9
|
35.6
|
1.0
|
C34
|
A:7YY401
|
3.9
|
23.5
|
1.0
|
C20
|
A:7YY401
|
4.0
|
45.9
|
1.0
|
C14
|
A:7YY401
|
4.0
|
40.7
|
1.0
|
C08
|
A:7YY401
|
4.0
|
30.8
|
1.0
|
CD2
|
A:LEU27
|
4.0
|
26.5
|
1.0
|
N24
|
A:7YY401
|
4.2
|
28.9
|
1.0
|
F33
|
A:7YY401
|
4.3
|
30.3
|
1.0
|
O
|
A:HOH553
|
4.4
|
32.7
|
1.0
|
C32
|
A:7YY401
|
4.5
|
28.3
|
1.0
|
C15
|
A:7YY401
|
4.5
|
41.2
|
1.0
|
O09
|
A:7YY401
|
4.5
|
28.5
|
1.0
|
CB
|
A:LEU27
|
4.6
|
22.4
|
1.0
|
CG
|
A:HIS41
|
4.7
|
31.2
|
1.0
|
CG
|
A:LEU27
|
4.7
|
22.7
|
1.0
|
H1
|
A:7YY401
|
4.7
|
48.9
|
1.0
|
CB
|
A:HIS41
|
4.8
|
27.2
|
1.0
|
C26
|
A:7YY401
|
4.8
|
29.3
|
1.0
|
N07
|
A:7YY401
|
4.8
|
26.7
|
1.0
|
O
|
A:THR26
|
4.9
|
27.9
|
1.0
|
NE2
|
A:HIS41
|
4.9
|
36.3
|
1.0
|
C35
|
A:7YY401
|
4.9
|
33.5
|
1.0
|
C25
|
A:7YY401
|
5.0
|
31.5
|
1.0
|
CA
|
A:CYS145
|
5.0
|
25.8
|
1.0
|
|
Chlorine binding site 2 out
of 4 in 9cjr
Go back to
Chlorine Binding Sites List in 9cjr
Chlorine binding site 2 out
of 4 in the X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Cl403
b:49.4
occ:1.00
|
O
|
A:HOH623
|
2.7
|
51.3
|
1.0
|
N
|
A:LEU227
|
3.6
|
35.9
|
1.0
|
CG2
|
A:THR226
|
3.8
|
42.6
|
1.0
|
CB
|
A:LEU227
|
4.0
|
25.0
|
1.0
|
CA
|
A:THR226
|
4.3
|
35.3
|
1.0
|
CA
|
A:LEU227
|
4.4
|
24.2
|
1.0
|
C
|
A:THR226
|
4.4
|
26.8
|
1.0
|
CB
|
A:THR226
|
4.5
|
36.9
|
1.0
|
OG1
|
A:THR226
|
4.8
|
48.7
|
1.0
|
CD2
|
A:LEU262
|
4.8
|
50.4
|
1.0
|
CG
|
A:LEU262
|
4.8
|
36.2
|
1.0
|
|
Chlorine binding site 3 out
of 4 in 9cjr
Go back to
Chlorine Binding Sites List in 9cjr
Chlorine binding site 3 out
of 4 in the X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl401
b:29.4
occ:1.00
|
CL2
|
B:7YY401
|
0.0
|
29.4
|
1.0
|
C22
|
B:7YY401
|
1.7
|
26.1
|
1.0
|
C21
|
B:7YY401
|
2.7
|
28.9
|
1.0
|
C13
|
B:7YY401
|
2.7
|
30.0
|
1.0
|
H13
|
B:7YY401
|
2.8
|
34.7
|
1.0
|
N12
|
B:7YY401
|
3.0
|
27.8
|
1.0
|
N10
|
B:7YY401
|
3.1
|
29.5
|
1.0
|
C11
|
B:7YY401
|
3.2
|
33.6
|
1.0
|
H17
|
B:7YY401
|
3.2
|
31.0
|
1.0
|
SG
|
B:CYS145
|
3.5
|
26.2
|
1.0
|
CB
|
B:CYS145
|
3.5
|
22.6
|
1.0
|
H8
|
B:7YY401
|
3.5
|
33.3
|
1.0
|
CD2
|
B:LEU27
|
3.9
|
20.1
|
1.0
|
C34
|
B:7YY401
|
3.9
|
25.8
|
1.0
|
C20
|
B:7YY401
|
4.0
|
28.7
|
1.0
|
CD2
|
B:HIS41
|
4.0
|
25.9
|
1.0
|
C14
|
B:7YY401
|
4.0
|
33.5
|
1.0
|
C08
|
B:7YY401
|
4.0
|
27.5
|
1.0
|
N24
|
B:7YY401
|
4.2
|
23.1
|
1.0
|
F33
|
B:7YY401
|
4.3
|
24.5
|
1.0
|
CB
|
B:LEU27
|
4.5
|
22.6
|
1.0
|
C15
|
B:7YY401
|
4.5
|
28.0
|
1.0
|
C32
|
B:7YY401
|
4.5
|
31.1
|
1.0
|
O09
|
B:7YY401
|
4.6
|
27.3
|
1.0
|
CG
|
B:LEU27
|
4.7
|
28.8
|
1.0
|
H1
|
B:7YY401
|
4.7
|
40.2
|
1.0
|
CG
|
B:HIS41
|
4.8
|
33.3
|
1.0
|
O
|
B:THR26
|
4.8
|
28.0
|
1.0
|
O
|
B:HOH591
|
4.8
|
32.9
|
1.0
|
CB
|
B:HIS41
|
4.8
|
22.9
|
1.0
|
C26
|
B:7YY401
|
4.8
|
27.1
|
1.0
|
N07
|
B:7YY401
|
4.9
|
25.4
|
1.0
|
C25
|
B:7YY401
|
4.9
|
26.7
|
1.0
|
C35
|
B:7YY401
|
4.9
|
24.5
|
1.0
|
O
|
B:HOH564
|
5.0
|
33.1
|
1.0
|
CA
|
B:CYS145
|
5.0
|
20.1
|
1.0
|
H14
|
B:7YY401
|
5.0
|
32.0
|
1.0
|
|
Chlorine binding site 4 out
of 4 in 9cjr
Go back to
Chlorine Binding Sites List in 9cjr
Chlorine binding site 4 out
of 4 in the X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir
 Mono view
 Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl403
b:45.1
occ:1.00
|
O
|
B:HOH613
|
2.2
|
44.0
|
1.0
|
O
|
B:HOH539
|
2.9
|
50.3
|
1.0
|
OG1
|
B:THR190
|
3.2
|
48.4
|
1.0
|
CB
|
B:THR190
|
3.7
|
53.0
|
1.0
|
NH1
|
B:ARG188
|
4.0
|
54.7
|
1.0
|
CG2
|
B:THR190
|
4.2
|
45.1
|
1.0
|
CG
|
B:GLN192
|
4.4
|
29.3
|
1.0
|
O
|
B:ALA191
|
4.4
|
47.8
|
1.0
|
CZ
|
B:ARG188
|
4.6
|
70.5
|
1.0
|
|
Reference:
M.A.Esler,
K.Shi,
R.S.Harris,
H.Aihara.
X-Ray Crystal Structure of Sars-Cov-2 Main Protease Double Mutants in Complex with Ensitrelvir To Be Published.
Page generated: Mon Aug 4 21:02:48 2025
|