Zinc in PDB 8j62: Cryo-Em Structure of APOBEC3G-Vif Complex

Zinc Binding Sites:

The binding sites of Zinc atom in the Cryo-Em Structure of APOBEC3G-Vif Complex (pdb code 8j62). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Cryo-Em Structure of APOBEC3G-Vif Complex, PDB code: 8j62:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in 8j62

Go back to Zinc Binding Sites List in 8j62
Zinc binding site 1 out of 2 in the Cryo-Em Structure of APOBEC3G-Vif Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Cryo-Em Structure of APOBEC3G-Vif Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
A:Zn401

b:64.1
occ:1.00
ND1 A:HIS53 2.3 42.6 1.0
SG A:CYS87 2.3 42.4 1.0
SG A:CYS84 2.3 41.9 1.0
CE1 A:HIS53 2.7 42.6 1.0
CB A:CYS84 3.2 41.9 1.0
CG A:HIS53 3.2 42.6 1.0
CB A:CYS87 3.4 42.4 1.0
N A:CYS84 3.4 41.9 1.0
NE2 A:HIS53 3.6 42.6 1.0
CD2 A:HIS53 3.9 42.6 1.0
CA A:CYS84 3.9 41.9 1.0
CB A:HIS53 3.9 42.6 1.0
OE2 A:GLU55 4.2 38.2 1.0
OE1 A:GLU55 4.2 38.2 1.0
CD A:GLU55 4.4 38.2 1.0
N A:CYS87 4.5 42.4 1.0
C A:PRO83 4.6 34.2 1.0
CA A:CYS87 4.6 42.4 1.0
CA A:PRO83 4.7 34.2 1.0
C A:CYS84 4.7 41.9 1.0

Zinc binding site 2 out of 2 in 8j62

Go back to Zinc Binding Sites List in 8j62
Zinc binding site 2 out of 2 in the Cryo-Em Structure of APOBEC3G-Vif Complex


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of Cryo-Em Structure of APOBEC3G-Vif Complex within 5.0Å range:
probe atom residue distance (Å) B Occ
B:Zn401

b:63.9
occ:1.00
SG B:CYS87 2.3 42.6 1.0
ND1 B:HIS53 2.3 42.7 1.0
SG B:CYS84 2.3 41.9 1.0
CE1 B:HIS53 2.7 42.7 1.0
CB B:CYS84 3.2 41.9 1.0
CG B:HIS53 3.2 42.7 1.0
CB B:CYS87 3.4 42.6 1.0
N B:CYS84 3.4 41.9 1.0
NE2 B:HIS53 3.6 42.7 1.0
CD2 B:HIS53 3.9 42.7 1.0
CA B:CYS84 3.9 41.9 1.0
CB B:HIS53 3.9 42.7 1.0
OE2 B:GLU55 4.2 38.2 1.0
OE1 B:GLU55 4.2 38.2 1.0
CD B:GLU55 4.4 38.2 1.0
N B:CYS87 4.5 42.6 1.0
C B:PRO83 4.6 34.2 1.0
CA B:CYS87 4.6 42.6 1.0
CA B:PRO83 4.7 34.2 1.0
C B:CYS84 4.7 41.9 1.0

Reference:

T.Kouno, S.Shibata, M.Shigematsu, J.Hyun, T.G.Kim, H.Matsuo, M.Wolf. Structural Insights Into Rna Bridging Between Hiv-1 Vif and Antiviral Factor APOBEC3G. Nat Commun V. 14 4037 2023.
ISSN: ESSN 2041-1723
PubMed: 37419875
DOI: 10.1038/S41467-023-39796-5
Page generated: Thu Oct 31 08:05:11 2024

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