Zinc in PDB 2ec7: Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein
Zinc Binding Sites:
The binding sites of Zinc atom in the Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein
(pdb code 2ec7). This binding sites where shown within
5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the
Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein, PDB code: 2ec7:
Jump to Zinc binding site number:
1;
2;
Zinc binding site 1 out
of 2 in 2ec7
Go back to
Zinc Binding Sites List in 2ec7
Zinc binding site 1 out
of 2 in the Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 1 of Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn50
b:0.0
occ:1.00
|
NE2
|
A:HIS17
|
2.0
|
0.0
|
1.0
|
HB3
|
A:LYS14
|
2.2
|
0.0
|
1.0
|
HE1
|
A:HIS17
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS12
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS22
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS9
|
2.3
|
0.0
|
1.0
|
CE1
|
A:HIS17
|
2.4
|
0.0
|
1.0
|
HB3
|
A:CYS9
|
3.0
|
0.0
|
1.0
|
CB
|
A:CYS9
|
3.1
|
0.0
|
1.0
|
CB
|
A:LYS14
|
3.1
|
0.0
|
1.0
|
HB2
|
A:LYS14
|
3.2
|
0.0
|
1.0
|
HB2
|
A:CYS9
|
3.2
|
0.0
|
1.0
|
CD2
|
A:HIS17
|
3.3
|
0.0
|
1.0
|
HG2
|
A:LYS14
|
3.6
|
0.0
|
1.0
|
ND1
|
A:HIS17
|
3.7
|
0.0
|
1.0
|
CG
|
A:LYS14
|
3.8
|
0.0
|
1.0
|
CB
|
A:CYS12
|
3.8
|
0.0
|
1.0
|
HG3
|
A:LYS14
|
3.9
|
0.0
|
1.0
|
HD2
|
A:HIS17
|
3.9
|
0.0
|
1.0
|
CB
|
A:CYS22
|
3.9
|
0.0
|
1.0
|
HB2
|
A:CYS22
|
4.1
|
0.0
|
1.0
|
HB2
|
A:CYS12
|
4.1
|
0.0
|
1.0
|
H
|
A:LYS14
|
4.1
|
0.0
|
1.0
|
CG
|
A:HIS17
|
4.1
|
0.0
|
1.0
|
HB3
|
A:CYS12
|
4.2
|
0.0
|
1.0
|
CA
|
A:LYS14
|
4.3
|
0.0
|
1.0
|
OD1
|
A:ASN11
|
4.3
|
0.0
|
1.0
|
N
|
A:LYS14
|
4.3
|
0.0
|
1.0
|
HD1
|
A:HIS17
|
4.4
|
0.0
|
1.0
|
O
|
A:LYS14
|
4.5
|
0.0
|
1.0
|
HB3
|
A:CYS22
|
4.5
|
0.0
|
1.0
|
CA
|
A:CYS9
|
4.5
|
0.0
|
1.0
|
HA
|
A:CYS22
|
4.5
|
0.0
|
1.0
|
H
|
A:GLY13
|
4.6
|
0.0
|
1.0
|
O
|
A:CYS9
|
4.7
|
0.0
|
1.0
|
H
|
A:CYS12
|
4.8
|
0.0
|
1.0
|
C
|
A:LYS14
|
4.9
|
0.0
|
1.0
|
CA
|
A:CYS22
|
4.9
|
0.0
|
1.0
|
N
|
A:GLY13
|
4.9
|
0.0
|
1.0
|
C
|
A:CYS9
|
4.9
|
0.0
|
1.0
|
H
|
A:CYS9
|
5.0
|
0.0
|
1.0
|
|
Zinc binding site 2 out
of 2 in 2ec7
Go back to
Zinc Binding Sites List in 2ec7
Zinc binding site 2 out
of 2 in the Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein
Mono view
Stereo pair view
|
A full contact list of Zinc with other atoms in the Zn binding
site number 2 of Solution Structure of Human Immunodificiency Virus Type-2 Nucleocapsid Protein within 5.0Å range:
probe
|
atom
|
residue
|
distance (Å)
|
B
|
Occ
|
A:Zn51
b:0.0
occ:1.00
|
HB2
|
A:CYS30
|
1.7
|
0.0
|
1.0
|
NE2
|
A:HIS38
|
2.0
|
0.0
|
1.0
|
CB
|
A:CYS30
|
2.0
|
0.0
|
1.0
|
HB3
|
A:CYS30
|
2.1
|
0.0
|
1.0
|
SG
|
A:CYS30
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS33
|
2.3
|
0.0
|
1.0
|
SG
|
A:CYS43
|
2.3
|
0.0
|
1.0
|
CE1
|
A:HIS38
|
2.7
|
0.0
|
1.0
|
HB2
|
A:CYS43
|
2.8
|
0.0
|
1.0
|
HE1
|
A:HIS38
|
2.8
|
0.0
|
1.0
|
CD2
|
A:HIS38
|
3.1
|
0.0
|
1.0
|
CB
|
A:CYS43
|
3.1
|
0.0
|
1.0
|
CA
|
A:CYS30
|
3.5
|
0.0
|
1.0
|
HD2
|
A:HIS38
|
3.5
|
0.0
|
1.0
|
H
|
A:GLY34
|
3.7
|
0.0
|
1.0
|
H
|
A:CYS33
|
3.8
|
0.0
|
1.0
|
HB2
|
A:LYS35
|
3.8
|
0.0
|
1.0
|
ND1
|
A:HIS38
|
3.8
|
0.0
|
1.0
|
HA
|
A:VAL39
|
3.9
|
0.0
|
1.0
|
HB3
|
A:CYS43
|
3.9
|
0.0
|
1.0
|
HA
|
A:CYS43
|
3.9
|
0.0
|
1.0
|
HA
|
A:CYS30
|
4.0
|
0.0
|
1.0
|
HA
|
A:MET40
|
4.0
|
0.0
|
1.0
|
CG
|
A:HIS38
|
4.0
|
0.0
|
1.0
|
HG2
|
A:MET40
|
4.0
|
0.0
|
1.0
|
CB
|
A:CYS33
|
4.1
|
0.0
|
1.0
|
H
|
A:TRP31
|
4.1
|
0.0
|
1.0
|
H
|
A:CYS30
|
4.1
|
0.0
|
1.0
|
CA
|
A:CYS43
|
4.1
|
0.0
|
1.0
|
C
|
A:VAL39
|
4.2
|
0.0
|
1.0
|
C
|
A:CYS30
|
4.2
|
0.0
|
1.0
|
N
|
A:MET40
|
4.2
|
0.0
|
1.0
|
HD2
|
A:PRO44
|
4.3
|
0.0
|
1.0
|
N
|
A:CYS30
|
4.3
|
0.0
|
1.0
|
H
|
A:MET40
|
4.4
|
0.0
|
1.0
|
N
|
A:TRP31
|
4.4
|
0.0
|
1.0
|
HB3
|
A:LYS32
|
4.4
|
0.0
|
1.0
|
CA
|
A:VAL39
|
4.4
|
0.0
|
1.0
|
O
|
A:VAL39
|
4.4
|
0.0
|
1.0
|
N
|
A:CYS33
|
4.5
|
0.0
|
1.0
|
N
|
A:GLY34
|
4.5
|
0.0
|
1.0
|
HB3
|
A:CYS33
|
4.5
|
0.0
|
1.0
|
O
|
A:HIS38
|
4.5
|
0.0
|
1.0
|
H
|
A:LYS32
|
4.6
|
0.0
|
1.0
|
HG3
|
A:LYS35
|
4.6
|
0.0
|
1.0
|
HD1
|
A:HIS38
|
4.6
|
0.0
|
1.0
|
HB2
|
A:CYS33
|
4.6
|
0.0
|
1.0
|
CA
|
A:MET40
|
4.6
|
0.0
|
1.0
|
N
|
A:VAL39
|
4.8
|
0.0
|
1.0
|
CB
|
A:LYS35
|
4.8
|
0.0
|
1.0
|
C
|
A:HIS38
|
4.8
|
0.0
|
1.0
|
HD3
|
A:LYS35
|
4.8
|
0.0
|
1.0
|
CA
|
A:CYS33
|
4.8
|
0.0
|
1.0
|
HG3
|
A:MET40
|
4.9
|
0.0
|
1.0
|
CG
|
A:MET40
|
4.9
|
0.0
|
1.0
|
O
|
A:CYS30
|
4.9
|
0.0
|
1.0
|
H
|
A:LYS35
|
5.0
|
0.0
|
1.0
|
H
|
A:GLU45
|
5.0
|
0.0
|
1.0
|
|
Reference:
T.Matsui,
T.Tanaka,
H.Endoh,
K.Sato,
H.Tanaka,
E.Miyauchi,
Y.Kawashima,
M.Nagai-Makabe,
H.Komatsu,
T.Kohno,
T.Maeda,
Y.Kodera.
The Rna Recognition Mechanism of Human Immunodeficiency Virus (Hiv) Type 2 NCP8 Is Different From That of Hiv-1 NCP7 Biochemistry V. 48 4314 2009.
ISSN: ISSN 0006-2960
PubMed: 19334676
DOI: 10.1021/BI802364B
Page generated: Wed Oct 16 23:03:29 2024
|