Chlorine in PDB 4gjw: Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Protein crystallography data
The structure of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein, PDB code: 4gjw
was solved by
F.Yabukarski,
N.Tarbouriech,
M.Jamin,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
48.75 /
3.00
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
59.500,
85.600,
122.600,
90.00,
94.70,
90.00
|
R / Rfree (%)
|
17.5 /
22.9
|
Chlorine Binding Sites:
The binding sites of Chlorine atom in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
(pdb code 4gjw). This binding sites where shown within
5.0 Angstroms radius around Chlorine atom.
In total 6 binding sites of Chlorine where determined in the
Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein, PDB code: 4gjw:
Jump to Chlorine binding site number:
1;
2;
3;
4;
5;
6;
Chlorine binding site 1 out
of 6 in 4gjw
Go back to
Chlorine Binding Sites List in 4gjw
Chlorine binding site 1 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 1 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Cl601
b:57.6
occ:1.00
|
N
|
B:HIS491
|
3.4
|
56.1
|
1.0
|
CB
|
B:PHE489
|
3.7
|
49.5
|
1.0
|
CB
|
B:PRO490
|
3.7
|
51.1
|
1.0
|
N
|
B:PRO490
|
3.9
|
53.5
|
1.0
|
CB
|
B:HIS491
|
3.9
|
76.3
|
1.0
|
CD
|
B:PRO490
|
3.9
|
55.4
|
1.0
|
CG
|
B:PRO490
|
4.0
|
55.9
|
1.0
|
NH2
|
B:ARG602
|
4.1
|
61.1
|
1.0
|
CA
|
B:PRO490
|
4.2
|
46.6
|
1.0
|
C
|
B:PRO490
|
4.3
|
48.8
|
1.0
|
CA
|
B:HIS491
|
4.3
|
57.1
|
1.0
|
C
|
B:PHE489
|
4.3
|
55.4
|
1.0
|
CD2
|
B:PHE489
|
4.3
|
72.5
|
1.0
|
CG
|
B:PHE489
|
4.5
|
70.5
|
1.0
|
CA
|
B:PHE489
|
4.6
|
50.2
|
1.0
|
O
|
B:PHE489
|
4.9
|
51.3
|
1.0
|
|
Chlorine binding site 2 out
of 6 in 4gjw
Go back to
Chlorine Binding Sites List in 4gjw
Chlorine binding site 2 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 2 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Cl601
b:61.8
occ:1.00
|
NE
|
D:ARG532
|
3.0
|
38.6
|
1.0
|
ND1
|
D:HIS535
|
3.5
|
72.6
|
1.0
|
NH2
|
D:ARG532
|
3.6
|
66.0
|
1.0
|
CZ
|
D:ARG532
|
3.8
|
55.5
|
1.0
|
CG
|
A:GLU537
|
3.9
|
43.4
|
1.0
|
CG
|
D:ARG532
|
3.9
|
36.2
|
1.0
|
CD
|
D:ARG532
|
4.0
|
33.7
|
1.0
|
CD
|
A:GLU537
|
4.0
|
59.7
|
1.0
|
CB
|
A:GLU537
|
4.2
|
42.5
|
1.0
|
CB
|
D:ARG532
|
4.2
|
31.6
|
1.0
|
OE1
|
A:GLU537
|
4.3
|
69.8
|
1.0
|
CE1
|
D:HIS535
|
4.4
|
77.3
|
1.0
|
CA
|
D:ARG532
|
4.5
|
38.6
|
1.0
|
CG
|
D:HIS535
|
4.5
|
51.6
|
1.0
|
OE2
|
A:GLU537
|
4.5
|
68.0
|
1.0
|
CB
|
D:HIS535
|
4.6
|
39.3
|
1.0
|
O
|
D:ARG532
|
4.7
|
43.4
|
1.0
|
|
Chlorine binding site 3 out
of 6 in 4gjw
Go back to
Chlorine Binding Sites List in 4gjw
Chlorine binding site 3 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 3 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Cl601
b:62.0
occ:1.00
|
NE
|
F:ARG532
|
3.1
|
45.7
|
1.0
|
NH2
|
F:ARG532
|
3.6
|
64.0
|
1.0
|
ND1
|
F:HIS535
|
3.6
|
69.2
|
1.0
|
CZ
|
F:ARG532
|
3.8
|
57.6
|
1.0
|
CG
|
E:GLU537
|
3.8
|
44.6
|
1.0
|
CD
|
E:GLU537
|
3.9
|
54.7
|
1.0
|
CG
|
F:ARG532
|
4.0
|
34.8
|
1.0
|
CB
|
E:GLU537
|
4.1
|
47.0
|
1.0
|
CD
|
F:ARG532
|
4.1
|
30.5
|
1.0
|
OE1
|
E:GLU537
|
4.1
|
62.9
|
1.0
|
CB
|
F:ARG532
|
4.2
|
31.7
|
1.0
|
CA
|
F:ARG532
|
4.4
|
42.1
|
1.0
|
OE2
|
E:GLU537
|
4.4
|
65.9
|
1.0
|
CE1
|
F:HIS535
|
4.5
|
70.6
|
1.0
|
CG
|
F:HIS535
|
4.5
|
58.1
|
1.0
|
CB
|
F:HIS535
|
4.6
|
44.1
|
1.0
|
O
|
F:ARG532
|
4.6
|
43.5
|
1.0
|
C
|
F:ARG532
|
4.9
|
47.7
|
1.0
|
CG1
|
F:ILE536
|
5.0
|
38.8
|
1.0
|
|
Chlorine binding site 4 out
of 6 in 4gjw
Go back to
Chlorine Binding Sites List in 4gjw
Chlorine binding site 4 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 4 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Cl601
b:64.1
occ:1.00
|
NE
|
G:ARG532
|
3.0
|
44.4
|
1.0
|
NH2
|
G:ARG532
|
3.5
|
61.6
|
1.0
|
ND1
|
G:HIS535
|
3.6
|
72.2
|
1.0
|
CZ
|
G:ARG532
|
3.7
|
54.4
|
1.0
|
CG
|
C:GLU537
|
3.8
|
51.2
|
1.0
|
CD
|
C:GLU537
|
3.8
|
61.3
|
1.0
|
OE1
|
C:GLU537
|
3.9
|
63.4
|
1.0
|
CG
|
G:ARG532
|
4.0
|
36.5
|
1.0
|
CB
|
C:GLU537
|
4.0
|
44.9
|
1.0
|
CD
|
G:ARG532
|
4.0
|
34.6
|
1.0
|
CB
|
G:ARG532
|
4.2
|
28.1
|
1.0
|
OE2
|
C:GLU537
|
4.3
|
70.5
|
1.0
|
CA
|
G:ARG532
|
4.4
|
34.7
|
1.0
|
CE1
|
G:HIS535
|
4.5
|
71.5
|
1.0
|
CG
|
G:HIS535
|
4.5
|
56.1
|
1.0
|
CB
|
G:HIS535
|
4.5
|
43.2
|
1.0
|
O
|
G:ARG532
|
4.6
|
48.4
|
1.0
|
CG1
|
G:ILE536
|
4.7
|
32.1
|
1.0
|
C
|
G:ARG532
|
5.0
|
42.9
|
1.0
|
NH1
|
G:ARG532
|
5.0
|
56.0
|
1.0
|
|
Chlorine binding site 5 out
of 6 in 4gjw
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Chlorine Binding Sites List in 4gjw
Chlorine binding site 5 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 5 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Cl602
b:71.3
occ:1.00
|
N
|
G:HIS491
|
3.2
|
52.2
|
1.0
|
CB
|
G:PRO490
|
3.6
|
47.5
|
1.0
|
CB
|
G:HIS491
|
3.7
|
73.9
|
1.0
|
N
|
G:PRO490
|
3.8
|
54.0
|
1.0
|
CD
|
G:PRO490
|
3.9
|
48.5
|
1.0
|
CG
|
G:PRO490
|
3.9
|
57.5
|
1.0
|
CB
|
G:PHE489
|
4.0
|
51.6
|
1.0
|
CA
|
G:PRO490
|
4.0
|
52.6
|
1.0
|
CA
|
G:HIS491
|
4.0
|
58.1
|
1.0
|
C
|
G:PRO490
|
4.0
|
48.3
|
1.0
|
C
|
G:PHE489
|
4.2
|
61.8
|
1.0
|
O1
|
G:GOL603
|
4.7
|
0.5
|
1.0
|
C2
|
G:GOL603
|
4.7
|
0.8
|
1.0
|
O
|
G:PHE489
|
4.7
|
53.7
|
1.0
|
CA
|
G:PHE489
|
4.7
|
54.4
|
1.0
|
CG
|
G:PHE489
|
4.9
|
75.7
|
1.0
|
O2
|
G:GOL603
|
4.9
|
95.7
|
1.0
|
C1
|
G:GOL603
|
5.0
|
0.9
|
1.0
|
|
Chlorine binding site 6 out
of 6 in 4gjw
Go back to
Chlorine Binding Sites List in 4gjw
Chlorine binding site 6 out
of 6 in the Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein
Mono view
Stereo pair view
|
A full contact list of Chlorine with other atoms in the Cl binding
site number 6 of Structure of the Tetramerization Domain of Nipah Virus Phosphoprotein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Cl601
b:55.5
occ:1.00
|
NE
|
H:ARG532
|
3.2
|
40.6
|
1.0
|
ND1
|
H:HIS535
|
3.5
|
69.3
|
1.0
|
NH2
|
H:ARG532
|
3.8
|
61.2
|
1.0
|
CG
|
B:GLU537
|
3.9
|
42.1
|
1.0
|
CZ
|
H:ARG532
|
4.0
|
52.7
|
1.0
|
CD
|
B:GLU537
|
4.0
|
58.8
|
1.0
|
CG
|
H:ARG532
|
4.1
|
37.6
|
1.0
|
CD
|
H:ARG532
|
4.2
|
30.0
|
1.0
|
CB
|
B:GLU537
|
4.3
|
42.7
|
1.0
|
OE1
|
B:GLU537
|
4.3
|
69.2
|
1.0
|
CB
|
H:ARG532
|
4.4
|
34.2
|
1.0
|
CE1
|
H:HIS535
|
4.4
|
75.8
|
1.0
|
CG
|
H:HIS535
|
4.4
|
52.4
|
1.0
|
CB
|
H:HIS535
|
4.5
|
45.5
|
1.0
|
OE2
|
B:GLU537
|
4.5
|
74.1
|
1.0
|
CA
|
H:ARG532
|
4.6
|
41.1
|
1.0
|
O
|
H:ARG532
|
4.8
|
40.9
|
1.0
|
|
Reference:
F.Yabukarski,
N.Tarbouriech,
M.Jamin.
Nipah Virus Phosphoprotein Oligomerisation Domain To Be Published.
Page generated: Sun Jul 21 14:44:26 2024
|