Zinc in PDB 8edd: Staphylococcus Aureus Endonuclease IV Y33F Mutant

All present enzymatic activity of Staphylococcus Aureus Endonuclease IV Y33F Mutant:
3.1.21.2;

The structure of Staphylococcus Aureus Endonuclease IV Y33F Mutant, PDB code: 8edd was solved by M.A.Saper, S.Kirillov, M.N.Isupov, R.Wiener, A.Rouvinski, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	40.49 / 1.50
Space group	P 21 21 21
Cell size a, b, c (Å), α, β, γ (°)	39.477, 41.987, 152.773, 90, 90, 90
R / Rfree (%)	17 / 20.4

The structure of Staphylococcus Aureus Endonuclease IV Y33F Mutant also contains other interesting chemical elements:

Iron	(Fe)	2 atoms
Chlorine	(Cl)	3 atoms

The binding sites of Zinc atom in the Staphylococcus Aureus Endonuclease IV Y33F Mutant (pdb code 8edd). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total only one binding site of Zinc was determined in the Staphylococcus Aureus Endonuclease IV Y33F Mutant, PDB code: 8edd:

Zinc binding site 1 out of 1 in the Staphylococcus Aureus Endonuclease IV Y33F Mutant


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of Staphylococcus Aureus Endonuclease IV Y33F Mutant within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn303 b:18.1 occ:1.00 O3 A:PO4304 1.9 23.5 1.0 OD1 A:ASP226 2.0 19.7 1.0 NE2 A:HIS181 2.2 16.9 1.0 NE2 A:HIS228 2.2 17.3 1.0 CG A:ASP226 2.8 20.4 1.0 O2 A:PO4304 2.9 25.5 1.0 OD2 A:ASP226 2.9 22.8 1.0 P A:PO4304 2.9 23.2 1.0 CD2 A:HIS181 3.1 15.6 1.0 CE1 A:HIS228 3.1 17.5 1.0 CD2 A:HIS228 3.2 18.1 1.0 CE1 A:HIS181 3.2 16.3 1.0 HD2 A:HIS181 3.2 18.7 1.0 HE1 A:HIS228 3.3 20.9 1.0 HD2 A:HIS228 3.4 21.8 1.0 HE1 A:HIS181 3.4 19.6 1.0 O A:HOH495 3.8 35.4 1.0 O4 A:PO4304 3.9 25.9 1.0 O1 A:PO4304 4.0 25.3 1.0 ND1 A:HIS228 4.2 19.1 1.0 CB A:ASP226 4.2 19.0 1.0 CG A:HIS181 4.3 15.2 1.0 ND1 A:HIS181 4.3 15.3 1.0 CG A:HIS228 4.3 18.3 1.0 HA A:ASP226 4.4 24.0 1.0 OD2 A:ASP178 4.5 15.1 1.0 O A:HOH514 4.6 41.4 1.0 O A:HOH530 4.7 23.1 1.0 FE A:FE302 4.7 15.7 1.0 HB2 A:ASP226 4.7 22.8 1.0 O A:ASP226 4.7 19.7 1.0 HG A:CYS180 4.7 24.8 1.0 HB3 A:CYS180 4.7 22.3 1.0 CA A:ASP226 4.7 20.0 1.0 HB3 A:ASP226 4.8 22.8 1.0 C A:ASP226 4.9 19.4 1.0

S.Kirillov, M.N.Isupov, N.Paterson, R.Wiener, S.Abeldenov, M.A.Saper, A.Rouvinski. Octahedrally Coordinated Iron in the Catalytic Site of Endonuclease IV From Staphylococcus Aureus To Be Published.