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

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 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 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

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