Zinc in PDB 2b9d: Crystal Structure of Hpv E7 CR3 Domain

The structure of Crystal Structure of Hpv E7 CR3 Domain, PDB code: 2b9d was solved by X.Liu, A.Clements, K.Zhao, R.Marmorstein, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	50.00 / 1.60
Space group	P 21 21 2
Cell size a, b, c (Å), α, β, γ (°)	33.908, 44.935, 58.670, 90.00, 90.00, 90.00
R / Rfree (%)	20.8 / 25.2

The binding sites of Zinc atom in the Crystal Structure of Hpv E7 CR3 Domain (pdb code 2b9d). 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 Hpv E7 CR3 Domain, PDB code: 2b9d:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the Crystal Structure of Hpv E7 CR3 Domain


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 Hpv E7 CR3 Domain within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn1002 b:20.9 occ:1.00 SG A:CYS88 2.3 13.8 1.0 SG A:CYS55 2.3 12.8 1.0 SG A:CYS52 2.4 8.6 1.0 SG A:CYS85 2.4 10.1 1.0 CB A:CYS88 3.1 19.7 1.0 CB A:CYS55 3.3 12.2 1.0 CB A:CYS52 3.3 8.8 1.0 CB A:CYS85 3.4 15.6 1.0 N A:CYS55 3.8 18.9 1.0 N A:CYS85 4.1 10.3 1.0 CA A:CYS55 4.1 18.7 1.0 OE1 A:GLN93 4.2 46.4 1.0 N A:CYS88 4.3 14.3 1.0 CA A:CYS88 4.3 12.3 1.0 CA A:CYS85 4.3 13.5 1.0 CG A:GLN93 4.4 63.7 1.0 CB A:TYR54 4.7 17.6 1.0 C A:TYR54 4.7 30.9 1.0 CA A:CYS52 4.7 9.6 1.0 C A:CYS55 4.8 19.4 1.0 CB A:LYS57 4.8 28.6 1.0 CD A:GLN93 4.8 73.3 1.0 N A:TYR54 4.9 13.4 1.0 C A:CYS85 4.9 14.5 1.0 N A:GLU56 5.0 15.0 1.0 O A:CYS85 5.0 12.3 1.0 CA A:TYR54 5.0 11.5 1.0

Zinc binding site 2 out of 2 in the Crystal Structure of Hpv E7 CR3 Domain


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 Hpv E7 CR3 Domain within 5.0Å range: probe atom residue distance (Å) B Occ B:Zn1001 b:21.6 occ:1.00 SG B:CYS55 2.3 11.7 1.0 SG B:CYS88 2.3 12.9 1.0 SG B:CYS85 2.4 12.2 1.0 SG B:CYS52 2.4 12.1 1.0 CB B:CYS88 3.1 14.0 1.0 CB B:CYS52 3.2 9.1 1.0 CB B:CYS55 3.5 6.4 1.0 CB B:CYS85 3.5 15.1 1.0 N B:CYS55 3.7 13.1 1.0 N B:CYS85 4.1 11.5 1.0 CA B:CYS55 4.1 17.5 1.0 CA B:CYS88 4.3 13.6 1.0 N B:CYS88 4.3 14.2 1.0 CA B:CYS85 4.3 12.2 1.0 O B:HOH1024 4.4 48.1 1.0 CA B:CYS52 4.7 10.8 1.0 CB B:TYR54 4.7 12.4 1.0 C B:CYS55 4.8 23.3 1.0 C B:TYR54 4.8 25.9 1.0 N B:GLU56 4.8 14.4 1.0 N B:TYR54 4.9 14.9 1.0 C B:CYS85 5.0 11.7 1.0 CD B:LYS57 5.0 47.2 1.0

X.Liu, A.Clements, K.Zhao, R.Marmorstein. Structure of the Human Papillomavirus E7 Oncoprotein and Its Mechanism For Inactivation of the Retinoblastoma Tumor Suppressor. J.Biol.Chem. V. 281 578 2006.
ISSN: ISSN 0021-9258
PubMed: 16249186
DOI: 10.1074/JBC.M508455200