Zinc in PDB 7uu4: Crystal Structure of APOBEC3G Complex with Ssrna

The structure of Crystal Structure of APOBEC3G Complex with Ssrna, PDB code: 7uu4 was solved by H.J.Yang, S.-X.Li, X.J.Chen, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	46.36 / 2.10
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	54.225, 67.976, 126.768, 90, 90, 90
R / Rfree (%)	18.4 / 20.4

The binding sites of Zinc atom in the Crystal Structure of APOBEC3G Complex with Ssrna (pdb code 7uu4). 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 APOBEC3G Complex with Ssrna, PDB code: 7uu4:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of APOBEC3G Complex with Ssrna


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 APOBEC3G Complex with Ssrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn401 b:37.7 occ:1.00 O A:HOH533 2.0 35.7 1.0 ND1 A:HIS65 2.0 49.6 1.0 SG A:CYS97 2.3 37.8 1.0 SG A:CYS100 2.3 36.6 1.0 CE1 A:HIS65 3.0 49.3 1.0 CG A:HIS65 3.1 47.5 1.0 CB A:CYS100 3.1 34.5 1.0 CB A:CYS97 3.3 35.8 1.0 CB A:HIS65 3.4 41.0 1.0 N A:CYS97 3.7 33.5 1.0 OE2 A:GLU67 4.0 37.3 1.0 N A:CYS100 4.1 35.4 1.0 CA A:CYS97 4.1 34.7 1.0 OE1 A:GLU67 4.1 35.5 1.0 NE2 A:HIS65 4.1 49.3 1.0 CD2 A:HIS65 4.2 49.2 1.0 CA A:CYS100 4.2 35.5 1.0 CD A:GLU67 4.3 36.4 1.0 O A:HOH549 4.5 35.4 1.0 CB A:ALA62 4.6 50.5 1.0 O A:ALA62 4.6 47.7 1.0 C A:CYS97 4.6 34.3 1.0 O A:CYS97 4.7 32.8 1.0 C A:PRO96 4.9 34.0 1.0 CA A:HIS65 5.0 37.5 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of APOBEC3G Complex with Ssrna


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 APOBEC3G Complex with Ssrna within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn402 b:41.3 occ:1.00 ND1 A:HIS257 2.1 53.0 1.0 O4 A:SO4403 2.1 42.0 1.0 SG A:CYS287 2.3 38.1 1.0 SG A:CYS290 2.4 36.4 1.0 CE1 A:HIS257 3.0 51.6 1.0 CG A:HIS257 3.1 48.4 1.0 CB A:CYS287 3.2 37.2 1.0 S A:SO4403 3.3 41.6 1.0 CB A:CYS290 3.4 36.8 1.0 O1 A:SO4403 3.4 39.6 1.0 CB A:HIS257 3.5 41.2 1.0 N A:CYS287 3.6 39.1 1.0 O A:HOH574 3.8 27.7 1.0 O A:HOH699 3.9 37.0 1.0 CA A:CYS287 3.9 39.5 1.0 O2 A:SO4403 4.0 39.7 1.0 NE2 A:HIS257 4.1 50.5 1.0 N A:CYS290 4.2 40.5 1.0 CD2 A:HIS257 4.2 49.9 1.0 O3 A:SO4403 4.3 41.4 1.0 O A:HOH640 4.4 48.4 1.0 CA A:CYS290 4.4 39.1 1.0 C A:CYS287 4.5 43.0 1.0 O A:CYS287 4.7 43.4 1.0 C A:PRO286 4.7 39.9 1.0 O A:HOH613 4.8 49.0 1.0 O A:HOH635 4.9 34.3 1.0 CA A:PRO286 4.9 38.5 1.0 CA A:HIS257 5.0 32.6 1.0

H.Yang, K.Kim, S.Li, J.Pacheco, X.S.Chen. Structural Basis of Sequence-Specific Rna Recognition By the Antiviral Factor APOBEC3G. Nat Commun V. 13 7498 2022.
ISSN: ESSN 2041-1723
PubMed: 36470880
DOI: 10.1038/S41467-022-35201-9