Zinc in PDB 6uej: Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
Protein crystallography data
The structure of Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna, PDB code: 6uej
was solved by
J.L.Meagher,
J.L.Smith,
with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:
Resolution Low / High (Å)
|
38.00 /
2.21
|
Space group
|
P 65
|
Cell size a, b, c (Å), α, β, γ (°)
|
123.090,
123.090,
40.670,
90.00,
90.00,
120.00
|
R / Rfree (%)
|
21.1 /
25.5
|
Zinc Binding Sites:
The binding sites of Zinc atom in the Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
(pdb code 6uej). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 4 binding sites of Zinc where determined in the
Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna, PDB code: 6uej:
Jump to Zinc binding site number:
1;
2;
3;
4;
Zinc binding site 1 out
of 4 in 6uej
Go back to
Zinc Binding Sites List in 6uej
Zinc binding site 1 out
of 4 in the Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn501
b:57.9
occ:1.00
|
NE2
|
A:HIS86
|
2.2
|
54.7
|
1.0
|
SG
|
A:CYS78
|
2.3
|
60.9
|
1.0
|
SG
|
A:CYS82
|
2.3
|
57.0
|
1.0
|
SG
|
A:CYS73
|
2.3
|
56.2
|
1.0
|
CB
|
A:CYS82
|
3.0
|
54.4
|
1.0
|
CD2
|
A:HIS86
|
3.1
|
55.3
|
1.0
|
CB
|
A:CYS73
|
3.1
|
52.7
|
1.0
|
CE1
|
A:HIS86
|
3.2
|
54.2
|
1.0
|
CB
|
A:CYS78
|
3.2
|
57.7
|
1.0
|
NH1
|
A:ARG75
|
3.9
|
81.9
|
1.0
|
CG
|
A:HIS86
|
4.3
|
53.9
|
1.0
|
ND1
|
A:HIS86
|
4.3
|
55.0
|
1.0
|
O
|
A:HOH609
|
4.3
|
52.4
|
1.0
|
CA
|
A:CYS82
|
4.5
|
55.9
|
1.0
|
CA
|
A:CYS73
|
4.5
|
52.9
|
1.0
|
CD
|
A:ARG75
|
4.6
|
65.1
|
1.0
|
CA
|
A:CYS78
|
4.6
|
58.1
|
1.0
|
CB
|
A:ASN84
|
4.9
|
52.4
|
1.0
|
CZ
|
A:ARG75
|
5.0
|
94.3
|
1.0
|
|
Zinc binding site 2 out
of 4 in 6uej
Go back to
Zinc Binding Sites List in 6uej
Zinc binding site 2 out
of 4 in the Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn502
b:69.1
occ:1.00
|
NE2
|
A:HIS110
|
2.2
|
72.4
|
1.0
|
SG
|
A:CYS96
|
2.3
|
78.0
|
1.0
|
SG
|
A:CYS106
|
2.3
|
74.5
|
1.0
|
SG
|
A:CYS88
|
2.3
|
63.2
|
1.0
|
CE1
|
A:HIS110
|
3.1
|
71.8
|
1.0
|
CB
|
A:CYS106
|
3.1
|
72.2
|
1.0
|
CB
|
A:CYS88
|
3.2
|
59.0
|
1.0
|
CD2
|
A:HIS110
|
3.2
|
72.5
|
1.0
|
CB
|
A:CYS96
|
3.4
|
75.1
|
1.0
|
ND1
|
A:HIS110
|
4.2
|
72.4
|
1.0
|
O
|
A:TYR108
|
4.3
|
62.4
|
1.0
|
N2
|
B:G3
|
4.3
|
70.0
|
1.0
|
CG
|
A:HIS110
|
4.3
|
70.1
|
1.0
|
CB
|
A:ASN91
|
4.4
|
60.6
|
1.0
|
CA
|
A:CYS106
|
4.6
|
73.6
|
1.0
|
CA
|
A:CYS88
|
4.6
|
58.6
|
1.0
|
N
|
A:ASN91
|
4.6
|
62.9
|
1.0
|
N1
|
B:G3
|
4.7
|
71.5
|
1.0
|
CA
|
A:CYS96
|
4.7
|
76.4
|
1.0
|
CB
|
A:TYR108
|
5.0
|
56.2
|
1.0
|
|
Zinc binding site 3 out
of 4 in 6uej
Go back to
Zinc Binding Sites List in 6uej
Zinc binding site 3 out
of 4 in the Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 3 of Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn503
b:70.3
occ:1.00
|
NE2
|
A:HIS191
|
2.1
|
58.3
|
1.0
|
SG
|
A:CYS182
|
2.2
|
76.1
|
1.0
|
SG
|
A:CYS174
|
2.3
|
66.7
|
1.0
|
SG
|
A:CYS187
|
2.5
|
78.6
|
1.0
|
CE1
|
A:HIS191
|
3.0
|
58.4
|
1.0
|
CB
|
A:CYS174
|
3.1
|
63.0
|
1.0
|
CD2
|
A:HIS191
|
3.2
|
58.9
|
1.0
|
CB
|
A:CYS187
|
3.2
|
76.0
|
1.0
|
CB
|
A:CYS182
|
3.3
|
73.5
|
1.0
|
ND1
|
A:HIS191
|
4.2
|
59.4
|
1.0
|
CB
|
A:PHE177
|
4.2
|
58.1
|
1.0
|
O
|
A:ARG189
|
4.2
|
68.3
|
1.0
|
CG
|
A:HIS191
|
4.3
|
58.3
|
1.0
|
CA
|
A:CYS182
|
4.6
|
74.7
|
1.0
|
CB
|
A:ARG189
|
4.6
|
68.2
|
1.0
|
CA
|
A:CYS174
|
4.6
|
63.5
|
1.0
|
N
|
A:PHE177
|
4.7
|
60.0
|
1.0
|
CA
|
A:CYS187
|
4.7
|
77.9
|
1.0
|
NH1
|
A:ARG183
|
4.9
|
0.4
|
1.0
|
CA
|
A:PHE177
|
4.9
|
58.2
|
1.0
|
|
Zinc binding site 4 out
of 4 in 6uej
Go back to
Zinc Binding Sites List in 6uej
Zinc binding site 4 out
of 4 in the Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna
 Mono view
 Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 4 of Crystal Structure of Human Zinc Finger Antiviral Protein Bound to Rna within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn504
b:84.9
occ:1.00
|
NE2
|
A:HIS172
|
2.1
|
84.2
|
1.0
|
SG
|
A:CYS150
|
2.3
|
75.5
|
1.0
|
SG
|
A:CYS168
|
2.4
|
0.4
|
1.0
|
SG
|
A:CYS162
|
2.6
|
0.8
|
1.0
|
CB
|
A:CYS162
|
2.9
|
0.9
|
1.0
|
CE1
|
A:HIS172
|
2.9
|
84.1
|
1.0
|
CB
|
A:CYS150
|
3.0
|
72.3
|
1.0
|
CD2
|
A:HIS172
|
3.2
|
84.3
|
1.0
|
CB
|
A:CYS168
|
3.8
|
0.2
|
1.0
|
ND1
|
A:HIS172
|
4.1
|
84.6
|
1.0
|
N
|
A:CYS168
|
4.1
|
0.6
|
1.0
|
CG
|
A:HIS172
|
4.2
|
81.9
|
1.0
|
CA
|
A:CYS168
|
4.4
|
0.3
|
1.0
|
CA
|
A:CYS162
|
4.4
|
0.9
|
1.0
|
CA
|
A:CYS150
|
4.4
|
72.8
|
1.0
|
OG
|
A:SER152
|
4.6
|
93.3
|
1.0
|
C
|
A:CYS168
|
4.8
|
0.6
|
1.0
|
O
|
A:ARG170
|
4.9
|
81.2
|
1.0
|
O
|
A:CYS168
|
4.9
|
0.7
|
1.0
|
|
Reference:
J.L.Meagher,
M.Takata,
D.Goncalves-Carneiro,
S.C.Keane,
A.Rebendenne,
H.Ong,
V.K.Orr,
M.R.Macdonald,
J.A.Stuckey,
P.D.Bieniasz,
J.L.Smith.
Structure of the Zinc-Finger Antiviral Protein in Complex with Rna Reveals A Mechanism For Selective Targeting of Cg-Rich Viral Sequences. Proc.Natl.Acad.Sci.Usa 2019.
ISSN: ESSN 1091-6490
PubMed: 31719195
DOI: 10.1073/PNAS.1913232116
Page generated: Tue Oct 29 08:32:47 2024
|