Zinc in PDB 4o6h: 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Protein crystallography data
The structure of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain, PDB code: 4o6h
was solved by
B.R.West,
K.M.Hastie,
E.O.Saphire,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
47.26 /
2.80
|
Space group
|
P 1 21 1
|
Cell size a, b, c (Å), α, β, γ (°)
|
92.856,
94.403,
145.124,
90.00,
102.30,
90.00
|
R / Rfree (%)
|
22.7 /
26.1
|
Other elements in 4o6h:
The structure of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain also contains other interesting chemical elements:
Zinc Binding Sites:
The binding sites of Zinc atom in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
(pdb code 4o6h). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 8 binding sites of Zinc where determined in the
2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain, PDB code: 4o6h:
Jump to Zinc binding site number:
1;
2;
3;
4;
5;
6;
7;
8;
Zinc binding site 1 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 1 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn601
b:53.8
occ:1.00
|
OE2
|
A:GLU392
|
1.9
|
54.1
|
1.0
|
NE2
|
A:HIS502
|
2.2
|
54.9
|
1.0
|
SG
|
A:CYS499
|
2.2
|
61.0
|
1.0
|
SG
|
A:CYS518
|
2.2
|
55.1
|
1.0
|
CD
|
A:GLU392
|
2.8
|
54.9
|
1.0
|
CD2
|
A:HIS502
|
2.9
|
63.0
|
1.0
|
HD2
|
A:HIS502
|
2.9
|
75.6
|
1.0
|
OE1
|
A:GLU392
|
3.0
|
46.9
|
1.0
|
HB2
|
A:CYS518
|
3.1
|
65.4
|
1.0
|
HB3
|
A:CYS499
|
3.1
|
76.3
|
1.0
|
CB
|
A:CYS499
|
3.2
|
63.6
|
1.0
|
CB
|
A:CYS518
|
3.2
|
54.5
|
1.0
|
HE2
|
A:HIS405
|
3.2
|
55.7
|
1.0
|
CE1
|
A:HIS502
|
3.3
|
60.7
|
1.0
|
HB2
|
A:CYS499
|
3.4
|
76.3
|
1.0
|
HA
|
A:CYS518
|
3.4
|
62.3
|
1.0
|
HE1
|
A:HIS502
|
3.6
|
72.8
|
1.0
|
HE1
|
A:HIS405
|
3.7
|
62.8
|
1.0
|
H
|
A:ALA519
|
3.8
|
67.2
|
1.0
|
CA
|
A:CYS518
|
3.8
|
51.9
|
1.0
|
NE2
|
A:HIS405
|
3.8
|
46.4
|
1.0
|
HB2
|
A:MET501
|
3.9
|
84.3
|
1.0
|
HE1
|
A:TYR407
|
3.9
|
68.2
|
1.0
|
H
|
A:LEU520
|
3.9
|
54.9
|
1.0
|
HB3
|
A:CYS518
|
4.0
|
65.4
|
1.0
|
CE1
|
A:HIS405
|
4.1
|
52.3
|
1.0
|
CG
|
A:HIS502
|
4.1
|
67.9
|
1.0
|
CG
|
A:GLU392
|
4.2
|
55.4
|
1.0
|
N
|
A:ALA519
|
4.2
|
56.0
|
1.0
|
ND1
|
A:HIS502
|
4.3
|
64.8
|
1.0
|
HG3
|
A:GLU392
|
4.4
|
66.4
|
1.0
|
HB3
|
A:LEU520
|
4.4
|
57.1
|
1.0
|
C
|
A:CYS518
|
4.4
|
56.4
|
1.0
|
H
|
A:MET501
|
4.5
|
69.7
|
1.0
|
HG2
|
A:GLU392
|
4.6
|
66.4
|
1.0
|
CA
|
A:CYS499
|
4.6
|
68.4
|
1.0
|
HG3
|
A:MET501
|
4.7
|
81.4
|
1.0
|
HH2
|
A:TRP492
|
4.7
|
73.9
|
1.0
|
HG2
|
A:MET521
|
4.8
|
73.2
|
1.0
|
N
|
A:LEU520
|
4.8
|
45.8
|
1.0
|
CB
|
A:MET501
|
4.8
|
70.3
|
1.0
|
HB3
|
A:ALA519
|
4.8
|
59.5
|
1.0
|
CE1
|
A:TYR407
|
4.9
|
56.8
|
1.0
|
H
|
A:MET521
|
4.9
|
61.9
|
1.0
|
HA
|
A:CYS499
|
4.9
|
82.0
|
1.0
|
HB2
|
A:LEU520
|
5.0
|
57.1
|
1.0
|
C
|
A:CYS499
|
5.0
|
68.5
|
1.0
|
|
Zinc binding site 2 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 2 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
B:Zn601
b:61.3
occ:1.00
|
OE2
|
B:GLU392
|
1.9
|
60.6
|
1.0
|
NE2
|
B:HIS502
|
2.0
|
63.5
|
1.0
|
SG
|
B:CYS499
|
2.2
|
53.8
|
1.0
|
SG
|
B:CYS518
|
2.3
|
61.1
|
1.0
|
CD
|
B:GLU392
|
2.8
|
59.8
|
1.0
|
CD2
|
B:HIS502
|
2.8
|
69.6
|
1.0
|
HD2
|
B:HIS502
|
2.9
|
83.5
|
1.0
|
OE1
|
B:GLU392
|
3.0
|
58.9
|
1.0
|
HB2
|
B:CYS518
|
3.1
|
86.0
|
1.0
|
CE1
|
B:HIS502
|
3.1
|
68.7
|
1.0
|
CB
|
B:CYS518
|
3.2
|
71.7
|
1.0
|
HE2
|
B:HIS405
|
3.3
|
66.3
|
1.0
|
HB3
|
B:CYS499
|
3.4
|
78.4
|
1.0
|
CB
|
B:CYS499
|
3.4
|
65.3
|
1.0
|
HE1
|
B:HIS502
|
3.4
|
82.4
|
1.0
|
HA
|
B:CYS518
|
3.4
|
73.2
|
1.0
|
HB2
|
B:CYS499
|
3.6
|
78.4
|
1.0
|
H
|
B:ALA519
|
3.7
|
77.7
|
1.0
|
HB2
|
B:MET501
|
3.8
|
91.6
|
1.0
|
CA
|
B:CYS518
|
3.8
|
61.0
|
1.0
|
HE1
|
B:HIS405
|
3.9
|
72.5
|
1.0
|
NE2
|
B:HIS405
|
3.9
|
55.3
|
1.0
|
HE1
|
B:TYR407
|
3.9
|
59.7
|
1.0
|
CG
|
B:HIS502
|
4.0
|
68.7
|
1.0
|
H
|
B:LEU520
|
4.0
|
64.7
|
1.0
|
HB3
|
B:CYS518
|
4.1
|
86.0
|
1.0
|
ND1
|
B:HIS502
|
4.1
|
69.7
|
1.0
|
CG
|
B:GLU392
|
4.2
|
54.7
|
1.0
|
CE1
|
B:HIS405
|
4.2
|
60.4
|
1.0
|
N
|
B:ALA519
|
4.2
|
64.7
|
1.0
|
HG3
|
B:GLU392
|
4.4
|
65.7
|
1.0
|
C
|
B:CYS518
|
4.4
|
64.0
|
1.0
|
H
|
B:MET501
|
4.5
|
87.6
|
1.0
|
HB3
|
B:LEU520
|
4.5
|
56.8
|
1.0
|
HG2
|
B:GLU392
|
4.6
|
65.7
|
1.0
|
CA
|
B:CYS499
|
4.7
|
68.4
|
1.0
|
CB
|
B:MET501
|
4.8
|
76.3
|
1.0
|
HH2
|
B:TRP492
|
4.8
|
79.1
|
1.0
|
CE1
|
B:TYR407
|
4.9
|
49.8
|
1.0
|
HG3
|
B:MET501
|
4.9
|
84.0
|
1.0
|
N
|
B:LEU520
|
4.9
|
53.9
|
1.0
|
HB3
|
B:ALA519
|
4.9
|
63.5
|
1.0
|
H
|
B:MET521
|
4.9
|
75.5
|
1.0
|
HD1
|
B:HIS502
|
4.9
|
83.7
|
1.0
|
HE2
|
B:MET521
|
5.0
|
79.0
|
1.0
|
|
Zinc binding site 3 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 3 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
C:Zn601
b:54.6
occ:1.00
|
OE2
|
C:GLU392
|
1.9
|
50.1
|
1.0
|
NE2
|
C:HIS502
|
2.1
|
57.1
|
1.0
|
SG
|
C:CYS499
|
2.2
|
52.8
|
1.0
|
SG
|
C:CYS518
|
2.3
|
51.7
|
1.0
|
CD
|
C:GLU392
|
2.8
|
47.5
|
1.0
|
CD2
|
C:HIS502
|
2.9
|
63.6
|
1.0
|
HD2
|
C:HIS502
|
3.0
|
76.3
|
1.0
|
OE1
|
C:GLU392
|
3.0
|
50.2
|
1.0
|
HB2
|
C:CYS518
|
3.2
|
63.5
|
1.0
|
CE1
|
C:HIS502
|
3.2
|
56.0
|
1.0
|
CB
|
C:CYS518
|
3.3
|
52.9
|
1.0
|
HE2
|
C:HIS405
|
3.3
|
56.3
|
1.0
|
HB3
|
C:CYS499
|
3.3
|
64.4
|
1.0
|
CB
|
C:CYS499
|
3.4
|
53.7
|
1.0
|
HA
|
C:CYS518
|
3.4
|
70.3
|
1.0
|
HE1
|
C:HIS502
|
3.5
|
67.2
|
1.0
|
HB2
|
C:CYS499
|
3.7
|
64.4
|
1.0
|
HB2
|
C:MET501
|
3.7
|
78.6
|
1.0
|
H
|
C:ALA519
|
3.7
|
62.7
|
1.0
|
CA
|
C:CYS518
|
3.8
|
58.6
|
1.0
|
NE2
|
C:HIS405
|
3.9
|
46.9
|
1.0
|
H
|
C:LEU520
|
4.0
|
59.2
|
1.0
|
HE1
|
C:TYR407
|
4.0
|
67.5
|
1.0
|
HE1
|
C:HIS405
|
4.0
|
64.8
|
1.0
|
HB3
|
C:CYS518
|
4.1
|
63.5
|
1.0
|
CG
|
C:HIS502
|
4.1
|
62.9
|
1.0
|
CG
|
C:GLU392
|
4.1
|
55.2
|
1.0
|
N
|
C:ALA519
|
4.2
|
52.2
|
1.0
|
ND1
|
C:HIS502
|
4.2
|
64.1
|
1.0
|
HG3
|
C:GLU392
|
4.3
|
66.2
|
1.0
|
CE1
|
C:HIS405
|
4.3
|
54.0
|
1.0
|
HB3
|
C:LEU520
|
4.4
|
53.8
|
1.0
|
C
|
C:CYS518
|
4.4
|
58.0
|
1.0
|
H
|
C:MET501
|
4.4
|
70.6
|
1.0
|
HG2
|
C:GLU392
|
4.5
|
66.2
|
1.0
|
CB
|
C:MET501
|
4.6
|
65.5
|
1.0
|
HG3
|
C:MET501
|
4.7
|
73.7
|
1.0
|
H
|
C:MET521
|
4.7
|
71.0
|
1.0
|
CA
|
C:CYS499
|
4.8
|
50.9
|
1.0
|
HH2
|
C:TRP492
|
4.8
|
68.5
|
1.0
|
N
|
C:LEU520
|
4.8
|
49.4
|
1.0
|
HB3
|
C:ALA519
|
4.9
|
65.5
|
1.0
|
CE1
|
C:TYR407
|
4.9
|
56.3
|
1.0
|
|
Zinc binding site 4 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 4 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
D:Zn601
b:51.7
occ:1.00
|
OE2
|
D:GLU392
|
2.0
|
45.7
|
1.0
|
NE2
|
D:HIS502
|
2.0
|
52.7
|
1.0
|
SG
|
D:CYS499
|
2.2
|
47.9
|
1.0
|
SG
|
D:CYS518
|
2.3
|
52.2
|
1.0
|
CD2
|
D:HIS502
|
2.9
|
61.6
|
1.0
|
CD
|
D:GLU392
|
2.9
|
45.1
|
1.0
|
HD2
|
D:HIS502
|
2.9
|
73.9
|
1.0
|
HB3
|
D:CYS499
|
3.1
|
68.2
|
1.0
|
HB2
|
D:CYS518
|
3.1
|
61.5
|
1.0
|
CE1
|
D:HIS502
|
3.2
|
55.6
|
1.0
|
CB
|
D:CYS499
|
3.2
|
56.9
|
1.0
|
OE1
|
D:GLU392
|
3.2
|
47.2
|
1.0
|
CB
|
D:CYS518
|
3.3
|
51.3
|
1.0
|
HE2
|
D:HIS405
|
3.3
|
61.7
|
1.0
|
HB2
|
D:CYS499
|
3.4
|
68.2
|
1.0
|
HE1
|
D:HIS502
|
3.4
|
66.8
|
1.0
|
HA
|
D:CYS518
|
3.5
|
59.2
|
1.0
|
HE1
|
D:HIS405
|
3.7
|
64.7
|
1.0
|
HB2
|
D:MET501
|
3.7
|
77.0
|
1.0
|
NE2
|
D:HIS405
|
3.9
|
51.4
|
1.0
|
H
|
D:ALA519
|
3.9
|
64.9
|
1.0
|
CA
|
D:CYS518
|
3.9
|
49.4
|
1.0
|
H
|
D:LEU520
|
3.9
|
57.1
|
1.0
|
HE1
|
D:TYR407
|
4.1
|
60.2
|
1.0
|
CG
|
D:HIS502
|
4.1
|
60.8
|
1.0
|
HB3
|
D:CYS518
|
4.1
|
61.5
|
1.0
|
CE1
|
D:HIS405
|
4.1
|
53.9
|
1.0
|
ND1
|
D:HIS502
|
4.2
|
61.4
|
1.0
|
HB3
|
D:LEU520
|
4.2
|
45.6
|
1.0
|
CG
|
D:GLU392
|
4.3
|
51.7
|
1.0
|
N
|
D:ALA519
|
4.3
|
54.1
|
1.0
|
H
|
D:MET501
|
4.4
|
64.6
|
1.0
|
HG3
|
D:GLU392
|
4.4
|
62.0
|
1.0
|
C
|
D:CYS518
|
4.5
|
53.3
|
1.0
|
CA
|
D:CYS499
|
4.6
|
52.0
|
1.0
|
H
|
D:MET521
|
4.6
|
66.1
|
1.0
|
HH2
|
D:TRP492
|
4.7
|
62.1
|
1.0
|
HG2
|
D:GLU392
|
4.7
|
62.0
|
1.0
|
CB
|
D:MET501
|
4.7
|
64.1
|
1.0
|
N
|
D:LEU520
|
4.8
|
47.6
|
1.0
|
C
|
D:CYS499
|
4.9
|
54.0
|
1.0
|
O
|
D:CYS499
|
4.9
|
56.2
|
1.0
|
HG3
|
D:MET501
|
4.9
|
65.0
|
1.0
|
HA
|
D:CYS499
|
4.9
|
62.4
|
1.0
|
HE2
|
D:MET521
|
4.9
|
72.2
|
1.0
|
HB2
|
D:LEU520
|
4.9
|
45.6
|
1.0
|
HB3
|
D:ALA519
|
5.0
|
59.1
|
1.0
|
CE1
|
D:TYR407
|
5.0
|
50.2
|
1.0
|
CB
|
D:LEU520
|
5.0
|
38.0
|
1.0
|
HD1
|
D:HIS502
|
5.0
|
73.7
|
1.0
|
|
Zinc binding site 5 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 5 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 5 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
E:Zn601
b:77.0
occ:1.00
|
OE2
|
E:GLU392
|
2.0
|
80.2
|
1.0
|
NE2
|
E:HIS502
|
2.0
|
79.0
|
1.0
|
SG
|
E:CYS518
|
2.3
|
62.3
|
1.0
|
SG
|
E:CYS499
|
2.3
|
70.0
|
1.0
|
CD
|
E:GLU392
|
2.9
|
78.3
|
1.0
|
CD2
|
E:HIS502
|
2.9
|
86.8
|
1.0
|
HB2
|
E:CYS518
|
2.9
|
95.7
|
1.0
|
HD2
|
E:HIS502
|
3.0
|
0.2
|
1.0
|
CB
|
E:CYS518
|
3.1
|
79.7
|
1.0
|
OE1
|
E:GLU392
|
3.1
|
79.4
|
1.0
|
CE1
|
E:HIS502
|
3.1
|
85.2
|
1.0
|
HA
|
E:CYS518
|
3.2
|
89.2
|
1.0
|
HB3
|
E:CYS499
|
3.4
|
80.8
|
1.0
|
HE1
|
E:HIS502
|
3.4
|
0.3
|
1.0
|
HE2
|
E:HIS405
|
3.4
|
79.7
|
1.0
|
CB
|
E:CYS499
|
3.4
|
67.4
|
1.0
|
H
|
E:ALA519
|
3.6
|
87.0
|
1.0
|
CA
|
E:CYS518
|
3.6
|
74.4
|
1.0
|
HB2
|
E:CYS499
|
3.6
|
80.8
|
1.0
|
HE1
|
E:TYR407
|
3.8
|
89.4
|
1.0
|
H
|
E:LEU520
|
3.9
|
78.0
|
1.0
|
HB3
|
E:CYS518
|
3.9
|
95.7
|
1.0
|
HE1
|
E:HIS405
|
4.0
|
83.3
|
1.0
|
NE2
|
E:HIS405
|
4.0
|
66.4
|
1.0
|
HB2
|
E:MET501
|
4.0
|
0.2
|
1.0
|
N
|
E:ALA519
|
4.1
|
72.5
|
1.0
|
CG
|
E:HIS502
|
4.1
|
87.1
|
1.0
|
ND1
|
E:HIS502
|
4.2
|
87.8
|
1.0
|
C
|
E:CYS518
|
4.2
|
75.0
|
1.0
|
CG
|
E:GLU392
|
4.3
|
65.8
|
1.0
|
CE1
|
E:HIS405
|
4.3
|
69.4
|
1.0
|
HG3
|
E:GLU392
|
4.4
|
79.0
|
1.0
|
HB3
|
E:LEU520
|
4.4
|
69.8
|
1.0
|
H
|
E:MET501
|
4.7
|
0.8
|
1.0
|
HG2
|
E:GLU392
|
4.7
|
79.0
|
1.0
|
CE1
|
E:TYR407
|
4.7
|
74.5
|
1.0
|
N
|
E:LEU520
|
4.7
|
65.0
|
1.0
|
HB3
|
E:ALA519
|
4.8
|
81.5
|
1.0
|
CA
|
E:CYS499
|
4.8
|
70.3
|
1.0
|
HG2
|
E:MET521
|
4.8
|
97.4
|
1.0
|
HH2
|
E:TRP492
|
4.9
|
0.9
|
1.0
|
H
|
E:MET521
|
4.9
|
90.7
|
1.0
|
N
|
E:CYS518
|
4.9
|
69.4
|
1.0
|
HG3
|
E:MET501
|
4.9
|
0.9
|
1.0
|
HD1
|
E:HIS502
|
5.0
|
0.4
|
1.0
|
CB
|
E:MET501
|
5.0
|
87.7
|
1.0
|
|
Zinc binding site 6 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 6 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 6 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
F:Zn601
b:78.2
occ:1.00
|
OE2
|
F:GLU392
|
2.1
|
83.8
|
1.0
|
SG
|
F:CYS518
|
2.3
|
73.5
|
1.0
|
NE2
|
F:HIS502
|
2.3
|
87.8
|
1.0
|
SG
|
F:CYS499
|
2.3
|
76.0
|
1.0
|
CD
|
F:GLU392
|
2.8
|
79.0
|
1.0
|
OE1
|
F:GLU392
|
2.9
|
78.5
|
1.0
|
HB2
|
F:CYS518
|
3.0
|
97.0
|
1.0
|
CB
|
F:CYS518
|
3.1
|
80.8
|
1.0
|
HA
|
F:CYS518
|
3.2
|
96.0
|
1.0
|
CE1
|
F:HIS502
|
3.2
|
85.2
|
1.0
|
CD2
|
F:HIS502
|
3.3
|
86.7
|
1.0
|
HB3
|
F:CYS499
|
3.3
|
90.6
|
1.0
|
CB
|
F:CYS499
|
3.4
|
75.5
|
1.0
|
HE1
|
F:HIS502
|
3.4
|
0.2
|
1.0
|
HD2
|
F:HIS502
|
3.4
|
0.1
|
1.0
|
HE1
|
F:HIS405
|
3.4
|
87.0
|
1.0
|
HB2
|
F:CYS499
|
3.5
|
90.6
|
1.0
|
CA
|
F:CYS518
|
3.6
|
80.0
|
1.0
|
H
|
F:ALA519
|
3.7
|
81.6
|
1.0
|
HE1
|
F:TYR407
|
3.7
|
97.0
|
1.0
|
HB2
|
F:MET501
|
3.9
|
0.4
|
1.0
|
H
|
F:LEU520
|
3.9
|
82.5
|
1.0
|
HB3
|
F:CYS518
|
4.0
|
97.0
|
1.0
|
CE1
|
F:HIS405
|
4.0
|
72.5
|
1.0
|
HE2
|
F:MET426
|
4.0
|
0.9
|
1.0
|
NE2
|
F:HIS405
|
4.1
|
67.7
|
1.0
|
N
|
F:ALA519
|
4.1
|
68.0
|
1.0
|
HH
|
F:TYR407
|
4.1
|
92.7
|
1.0
|
CG
|
F:GLU392
|
4.2
|
68.6
|
1.0
|
C
|
F:CYS518
|
4.2
|
79.9
|
1.0
|
ND1
|
F:HIS502
|
4.4
|
91.3
|
1.0
|
HG3
|
F:GLU392
|
4.4
|
82.3
|
1.0
|
HB3
|
F:LEU520
|
4.4
|
82.1
|
1.0
|
CG
|
F:HIS502
|
4.4
|
89.5
|
1.0
|
HE1
|
F:MET426
|
4.5
|
0.9
|
1.0
|
HG2
|
F:GLU392
|
4.6
|
82.3
|
1.0
|
H
|
F:MET501
|
4.6
|
1.0
|
1.0
|
CE1
|
F:TYR407
|
4.7
|
80.8
|
1.0
|
HH2
|
F:TRP492
|
4.7
|
97.4
|
1.0
|
HE2
|
F:MET521
|
4.7
|
93.7
|
1.0
|
CE
|
F:MET426
|
4.7
|
85.0
|
1.0
|
N
|
F:LEU520
|
4.8
|
68.7
|
1.0
|
CA
|
F:CYS499
|
4.8
|
76.5
|
1.0
|
HG3
|
F:MET501
|
4.8
|
0.6
|
1.0
|
CB
|
F:MET501
|
4.8
|
88.7
|
1.0
|
H
|
F:MET521
|
4.8
|
96.6
|
1.0
|
HB3
|
F:ALA519
|
4.9
|
86.2
|
1.0
|
HG2
|
F:MET501
|
4.9
|
0.6
|
1.0
|
N
|
F:CYS518
|
4.9
|
74.9
|
1.0
|
OH
|
F:TYR407
|
4.9
|
77.2
|
1.0
|
|
Zinc binding site 7 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 7 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 7 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
G:Zn601
b:72.5
occ:1.00
|
OE2
|
G:GLU392
|
2.0
|
72.8
|
1.0
|
NE2
|
G:HIS502
|
2.2
|
79.3
|
1.0
|
SG
|
G:CYS499
|
2.2
|
65.3
|
1.0
|
SG
|
G:CYS518
|
2.3
|
75.1
|
1.0
|
CD
|
G:GLU392
|
2.7
|
70.8
|
1.0
|
HD2
|
G:HIS502
|
2.8
|
0.5
|
1.0
|
CD2
|
G:HIS502
|
2.8
|
83.7
|
1.0
|
OE1
|
G:GLU392
|
2.9
|
69.7
|
1.0
|
HB2
|
G:CYS518
|
3.0
|
88.0
|
1.0
|
CB
|
G:CYS518
|
3.2
|
73.4
|
1.0
|
HE2
|
G:HIS405
|
3.2
|
72.9
|
1.0
|
HA
|
G:CYS518
|
3.3
|
85.2
|
1.0
|
CE1
|
G:HIS502
|
3.3
|
80.4
|
1.0
|
CB
|
G:CYS499
|
3.4
|
73.1
|
1.0
|
HB3
|
G:CYS499
|
3.4
|
87.8
|
1.0
|
HB2
|
G:CYS499
|
3.6
|
87.8
|
1.0
|
H
|
G:ALA519
|
3.6
|
86.2
|
1.0
|
HE1
|
G:HIS502
|
3.7
|
96.5
|
1.0
|
CA
|
G:CYS518
|
3.7
|
71.0
|
1.0
|
HE1
|
G:HIS405
|
3.8
|
82.9
|
1.0
|
HB2
|
G:MET501
|
3.8
|
0.6
|
1.0
|
NE2
|
G:HIS405
|
3.9
|
60.8
|
1.0
|
HE1
|
G:TYR407
|
3.9
|
89.2
|
1.0
|
H
|
G:LEU520
|
4.0
|
70.7
|
1.0
|
HB3
|
G:CYS518
|
4.0
|
88.0
|
1.0
|
CG
|
G:HIS502
|
4.1
|
86.3
|
1.0
|
CE1
|
G:HIS405
|
4.1
|
69.1
|
1.0
|
N
|
G:ALA519
|
4.1
|
71.8
|
1.0
|
CG
|
G:GLU392
|
4.2
|
65.6
|
1.0
|
ND1
|
G:HIS502
|
4.3
|
86.3
|
1.0
|
C
|
G:CYS518
|
4.3
|
75.2
|
1.0
|
HG3
|
G:GLU392
|
4.4
|
78.7
|
1.0
|
HB3
|
G:LEU520
|
4.5
|
62.4
|
1.0
|
HG2
|
G:GLU392
|
4.6
|
78.7
|
1.0
|
HH2
|
G:TRP492
|
4.6
|
90.8
|
1.0
|
H
|
G:MET501
|
4.7
|
97.2
|
1.0
|
CB
|
G:MET501
|
4.8
|
84.6
|
1.0
|
CA
|
G:CYS499
|
4.8
|
76.9
|
1.0
|
N
|
G:LEU520
|
4.8
|
58.9
|
1.0
|
HB3
|
G:ALA519
|
4.8
|
85.4
|
1.0
|
CE1
|
G:TYR407
|
4.9
|
74.3
|
1.0
|
H
|
G:MET521
|
4.9
|
93.5
|
1.0
|
HG2
|
G:MET521
|
4.9
|
87.1
|
1.0
|
HA
|
G:CYS499
|
5.0
|
92.3
|
1.0
|
|
Zinc binding site 8 out
of 8 in 4o6h
Go back to
Zinc Binding Sites List in 4o6h
Zinc binding site 8 out
of 8 in the 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 8 of 2.8A Crystal Structure of Lymphocytic Choriomeningitis Virus Nucleoprotein C-Terminal Domain within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
H:Zn601
b:83.3
occ:1.00
|
OE2
|
H:GLU392
|
1.9
|
80.5
|
1.0
|
NE2
|
H:HIS502
|
2.2
|
86.7
|
1.0
|
SG
|
H:CYS499
|
2.2
|
66.2
|
1.0
|
SG
|
H:CYS518
|
2.3
|
79.8
|
1.0
|
CD
|
H:GLU392
|
2.7
|
79.0
|
1.0
|
HD2
|
H:HIS502
|
2.7
|
0.6
|
1.0
|
CD2
|
H:HIS502
|
2.8
|
90.5
|
1.0
|
OE1
|
H:GLU392
|
2.8
|
80.2
|
1.0
|
HE2
|
H:HIS405
|
3.1
|
86.1
|
1.0
|
HB2
|
H:CYS518
|
3.1
|
90.9
|
1.0
|
CB
|
H:CYS518
|
3.2
|
75.7
|
1.0
|
CE1
|
H:HIS502
|
3.4
|
87.5
|
1.0
|
HA
|
H:CYS518
|
3.4
|
99.7
|
1.0
|
CB
|
H:CYS499
|
3.4
|
75.7
|
1.0
|
HB3
|
H:CYS499
|
3.5
|
90.8
|
1.0
|
HB2
|
H:CYS499
|
3.6
|
90.8
|
1.0
|
HB2
|
H:MET501
|
3.7
|
0.9
|
1.0
|
NE2
|
H:HIS405
|
3.7
|
71.7
|
1.0
|
HE1
|
H:HIS405
|
3.7
|
93.0
|
1.0
|
HE1
|
H:HIS502
|
3.8
|
0.9
|
1.0
|
H
|
H:ALA519
|
3.8
|
99.1
|
1.0
|
CA
|
H:CYS518
|
3.8
|
83.1
|
1.0
|
HE1
|
H:TYR407
|
4.0
|
92.8
|
1.0
|
H
|
H:LEU520
|
4.0
|
79.0
|
1.0
|
CE1
|
H:HIS405
|
4.0
|
77.5
|
1.0
|
CG
|
H:HIS502
|
4.1
|
93.9
|
1.0
|
HB3
|
H:CYS518
|
4.1
|
90.9
|
1.0
|
CG
|
H:GLU392
|
4.1
|
73.5
|
1.0
|
N
|
H:ALA519
|
4.3
|
82.6
|
1.0
|
HG3
|
H:GLU392
|
4.3
|
88.1
|
1.0
|
ND1
|
H:HIS502
|
4.3
|
94.7
|
1.0
|
HB3
|
H:LEU520
|
4.4
|
69.6
|
1.0
|
C
|
H:CYS518
|
4.5
|
85.0
|
1.0
|
HG2
|
H:GLU392
|
4.5
|
88.1
|
1.0
|
H
|
H:MET501
|
4.6
|
0.5
|
1.0
|
CB
|
H:MET501
|
4.6
|
87.4
|
1.0
|
CA
|
H:CYS499
|
4.8
|
75.7
|
1.0
|
HH2
|
H:TRP492
|
4.8
|
98.2
|
1.0
|
HB3
|
H:MET501
|
4.8
|
0.9
|
1.0
|
HG2
|
H:MET521
|
4.8
|
0.0
|
1.0
|
N
|
H:LEU520
|
4.9
|
65.8
|
1.0
|
CD2
|
H:HIS405
|
4.9
|
70.7
|
1.0
|
H
|
H:MET521
|
4.9
|
95.5
|
1.0
|
CE1
|
H:TYR407
|
4.9
|
77.3
|
1.0
|
SD
|
H:MET426
|
4.9
|
1.0
|
1.0
|
HB3
|
H:ALA519
|
5.0
|
99.4
|
1.0
|
HA
|
H:CYS499
|
5.0
|
90.9
|
1.0
|
|
Reference:
B.R.West,
K.M.Hastie,
E.O.Saphire.
Structure of the Lcmv Nucleoprotein Provides A Template For Understanding Arenavirus Replication and Immunosuppression. Acta Crystallogr.,Sect.D V. 70 1764 2014.
ISSN: ISSN 0907-4449
PubMed: 24914986
DOI: 10.1107/S1399004714007883
Page generated: Sun Oct 27 03:33:06 2024
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