Zinc in PDB 5w45: Crystal Structure of APOBEC3H

The structure of Crystal Structure of APOBEC3H, PDB code: 5w45 was solved by F.Ito, H.J.Yang, X.Xiao, S.X.Li, A.Wolfe, B.Zirkle, V.Arutiunian, X.J.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.75 / 2.49
Space group	P 1 21 1
Cell size a, b, c (Å), α, β, γ (°)	46.749, 65.006, 65.540, 90.00, 90.08, 90.00
R / Rfree (%)	21.1 / 23.5

The binding sites of Zinc atom in the Crystal Structure of APOBEC3H (pdb code 5w45). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the Crystal Structure of APOBEC3H, PDB code: 5w45:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of APOBEC3H


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 APOBEC3H within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:45.0 occ:1.00 O A:HOH513 2.1 54.4 1.0 ND1 A:HIS54 2.2 56.9 1.0 SG A:CYS88 2.3 50.5 1.0 SG A:CYS85 2.4 49.5 1.0 CE1 A:HIS54 3.0 63.9 1.0 CG A:HIS54 3.3 60.6 1.0 CB A:CYS88 3.3 49.2 1.0 CB A:CYS85 3.6 51.6 1.0 CB A:HIS54 3.7 55.1 1.0 O A:HOH514 3.8 54.4 1.0 N A:CYS85 4.0 46.8 1.0 NE2 A:HIS54 4.2 64.8 1.0 N A:CYS88 4.2 50.9 1.0 CD2 A:HIS54 4.3 65.0 1.0 CA A:CYS88 4.4 48.5 1.0 CA A:CYS85 4.4 51.2 1.0 C A:CYS85 5.0 52.8 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of APOBEC3H


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 APOBEC3H within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn401 b:46.4 occ:1.00 O B:HOH512 2.0 55.7 1.0 ND1 B:HIS54 2.1 57.7 1.0 SG B:CYS88 2.3 50.6 1.0 SG B:CYS85 2.4 52.2 1.0 CE1 B:HIS54 3.0 63.9 1.0 CG B:HIS54 3.2 60.2 1.0 CB B:CYS88 3.3 50.3 1.0 CB B:CYS85 3.6 52.8 1.0 CB B:HIS54 3.7 52.9 1.0 O B:HOH515 3.9 45.0 1.0 N B:CYS85 4.0 47.1 1.0 NE2 B:HIS54 4.2 64.0 1.0 N B:CYS88 4.2 52.1 1.0 CD2 B:HIS54 4.3 64.0 1.0 CA B:CYS88 4.3 49.9 1.0 CA B:CYS85 4.4 51.5 1.0 C B:CYS85 5.0 54.2 1.0

F.Ito, H.Yang, X.Xiao, S.X.Li, A.Wolfe, B.Zirkle, V.Arutiunian, X.S.Chen. Understanding the Structure, Multimerization, Subcellular Localization and Mc Selectivity of A Genomic Mutator and Anti-Hiv Factor APOBEC3H. Sci Rep V. 8 3763 2018.
ISSN: ESSN 2045-2322
PubMed: 29491387
DOI: 10.1038/S41598-018-21955-0