Zinc in PDB 6bbo: Crystal Structure of Human APOBEC3H/Rna Complex

The structure of Crystal Structure of Human APOBEC3H/Rna Complex, PDB code: 6bbo was solved by N.M.Shaban, K.Shi, S.Banerjee, R.S.Harris, H.Aihara, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	49.25 / 3.43
Space group	P 31 1 2
Cell size a, b, c (Å), α, β, γ (°)	101.293, 101.293, 211.217, 90.00, 90.00, 120.00
R / Rfree (%)	36.4 / 39.2

The binding sites of Zinc atom in the Crystal Structure of Human APOBEC3H/Rna Complex (pdb code 6bbo). 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 Human APOBEC3H/Rna Complex, PDB code: 6bbo:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Human APOBEC3H/Rna Complex


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 Human APOBEC3H/Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn201 b:96.8 occ:1.00 ND1 A:HIS54 2.0 98.3 1.0 SG A:CYS88 2.3 0.4 1.0 SG A:CYS85 2.3 78.6 1.0 O1 A:GOL202 2.4 65.4 1.0 CE1 A:HIS54 2.9 0.6 1.0 CG A:HIS54 3.1 95.1 1.0 CB A:CYS88 3.2 85.8 1.0 CB A:CYS85 3.4 0.9 1.0 C1 A:GOL202 3.4 82.9 1.0 CB A:HIS54 3.6 95.2 1.0 N A:CYS85 3.7 68.0 1.0 CA A:CYS85 4.1 79.5 1.0 NE2 A:HIS54 4.1 0.4 1.0 N A:CYS88 4.1 1.0 1.0 CD2 A:HIS54 4.2 0.4 1.0 CA A:CYS88 4.3 85.6 1.0 C2 A:GOL202 4.3 92.8 1.0 O2 A:GOL202 4.5 0.3 1.0 C A:CYS85 4.6 77.5 1.0 OG A:SER87 4.6 0.6 1.0 C A:PRO84 4.9 86.2 1.0 O A:CYS85 4.9 93.2 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Human APOBEC3H/Rna Complex


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 Human APOBEC3H/Rna Complex within 5.0Å range: probe atom residue distance (Å) B Occ E:Zn201 b:0.4 occ:1.00 ND1 E:HIS54 2.0 79.8 1.0 SG E:CYS88 2.3 98.3 1.0 SG E:CYS85 2.3 0.3 1.0 O1 E:GOL202 2.3 45.4 1.0 CE1 E:HIS54 2.9 0.9 1.0 CG E:HIS54 3.1 66.9 1.0 CB E:CYS88 3.2 94.6 1.0 CB E:CYS85 3.4 0.5 1.0 C1 E:GOL202 3.4 84.6 1.0 CB E:HIS54 3.6 85.9 1.0 N E:CYS85 3.7 51.2 1.0 CA E:CYS85 4.0 69.3 1.0 NE2 E:HIS54 4.1 0.3 1.0 N E:CYS88 4.1 99.2 1.0 CD2 E:HIS54 4.2 88.2 1.0 CA E:CYS88 4.2 96.5 1.0 C2 E:GOL202 4.3 0.6 1.0 O2 E:GOL202 4.5 0.7 1.0 C E:CYS85 4.6 50.4 1.0 OG E:SER87 4.6 0.0 1.0 C E:PRO84 4.8 76.5 1.0 O E:CYS85 4.8 57.9 1.0

N.M.Shaban, K.Shi, K.V.Lauer, M.A.Carpenter, C.M.Richards, D.Salamango, J.Wang, M.W.Lopresti, S.Banerjee, R.Levin-Klein, W.L.Brown, H.Aihara, R.S.Harris. The Antiviral and Cancer Genomic Dna Deaminase APOBEC3H Is Regulated By An Rna-Mediated Dimerization Mechanism. Mol. Cell V. 69 75 2018.
ISSN: ISSN 1097-4164
PubMed: 29290613
DOI: 10.1016/J.MOLCEL.2017.12.010