Zinc in PDB 4n9v: High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine

All present enzymatic activity of High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine:
1.7.3.3;

The structure of High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine, PDB code: 4n9v was solved by E.Oksanen, M.P.Blakeley, M.Budayova-Spano, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	35.16 / 1.10
Space group	I 2 2 2
Cell size a, b, c (Å), α, β, γ (°)	79.800, 95.080, 104.490, 90.00, 90.00, 90.00
R / Rfree (%)	13.9 / 15.3

The structure of High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine also contains other interesting chemical elements:

Chlorine	(Cl)	1 atom
Sodium	(Na)	1 atom

The binding sites of Zinc atom in the High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine (pdb code 4n9v). This binding sites where shown within 5.0 Angstroms radius around Zinc atom.
In total 2 binding sites of Zinc where determined in the High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine, PDB code: 4n9v:
Jump to Zinc binding site number: 1; 2;

Zinc binding site 1 out of 2 in the High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 1 of High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn405 b:8.2 occ:0.40 N3 A:AZA403 2.0 7.8 0.4 N9 A:AZA402 2.1 8.8 0.4 NE2 A:HIS98 2.1 8.3 0.4 SG A:CYS35 2.4 8.1 0.5 O A:DOD1027 2.5 16.9 0.6 C2 A:AZA403 2.9 8.5 0.4 C4 A:AZA402 3.0 8.6 0.4 O2 A:AZA403 3.0 8.9 0.4 N8 A:AZA402 3.0 9.2 0.4 C4 A:AZA403 3.0 8.0 0.4 CD2 A:HIS98 3.0 7.6 0.4 CE1 A:HIS98 3.1 8.8 0.4 HB2 A:ASN100 3.2 11.6 1.0 ZN A:ZN406 3.2 8.0 0.4 N3 A:AZA402 3.4 8.6 0.4 HB3 A:CYS35 3.5 13.1 0.6 CB A:CYS35 3.5 7.5 0.5 N9 A:AZA403 3.5 7.6 0.4 HB3 A:ASN100 3.6 11.6 1.0 SG A:CYS35 3.6 10.3 0.6 O A:DOD821 3.8 31.9 1.0 CB A:ASN100 3.8 9.6 1.0 HD12 A:LEU37 4.0 20.9 1.0 HD11 A:LEU37 4.0 20.9 1.0 CB A:CYS35 4.1 10.9 0.6 N7 A:AZA402 4.1 10.3 0.4 C5 A:AZA402 4.1 10.1 0.4 HG A:LEU37 4.1 15.6 1.0 ND1 A:HIS98 4.2 9.1 0.4 CG A:HIS98 4.2 8.4 0.4 N1 A:AZA403 4.2 9.3 0.4 OE1 A:GLN131 4.2 13.1 0.4 C5 A:AZA403 4.3 9.0 0.4 CD1 A:LEU37 4.4 17.4 1.0 HB2 A:CYS35 4.5 13.1 0.6 H A:ASN100 4.6 8.9 1.0 CG A:ASN100 4.6 10.7 0.7 N8 A:AZA403 4.7 8.0 0.4 CG A:LEU37 4.8 13.0 1.0 C2 A:AZA402 4.8 9.7 0.4 C6 A:AZA403 4.8 10.1 0.4 HG A:CYS35 4.8 12.4 0.6 O A:CYS35 4.8 8.0 0.5 NE2 A:GLN131 4.9 12.9 0.4 CA A:CYS35 4.9 7.8 0.5 N A:ASN100 4.9 7.4 1.0 O A:DOD967 5.0 35.7 1.0 CD A:GLN131 5.0 11.8 0.4

Zinc binding site 2 out of 2 in the High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine


Mono view


Stereo pair view

A full contact list of Zinc with other atoms in the Zn binding site number 2 of High Resolution X-Ray Structure of Urate Oxidase in Complex with 8- Azaxanthine within 5.0Å range: probe atom residue distance (Å) B Occ A:Zn406 b:8.0 occ:0.40 OD2 A:ASP11 1.9 7.6 0.4 N3 A:AZA402 2.0 8.6 0.4 N9 A:AZA403 2.0 7.6 0.4 SG A:CYS35 2.4 8.1 0.5 CG A:ASP11 2.6 7.1 0.4 OD1 A:ASP11 2.8 7.4 0.4 OD2 A:ASP11 2.8 9.1 0.6 C2 A:AZA402 2.9 9.7 0.4 C4 A:AZA403 2.9 8.0 0.4 OD1 A:ASP11 2.9 8.8 0.6 N8 A:AZA403 3.0 8.0 0.4 SG A:CYS35 3.0 10.3 0.6 CG A:ASP11 3.0 8.8 0.6 O2 A:AZA402 3.0 10.1 0.4 C4 A:AZA402 3.0 8.6 0.4 HB2 A:CYS35 3.2 13.1 0.6 ZN A:ZN405 3.2 8.2 0.4 N3 A:AZA403 3.4 7.8 0.4 CB A:CYS35 3.4 7.5 0.5 CB A:CYS35 3.5 10.9 0.6 HB3 A:CYS35 3.5 13.1 0.6 N9 A:AZA402 3.5 8.8 0.4 HG A:CYS35 3.6 12.4 0.6 HB2 A:ASP11 3.9 11.3 0.6 CB A:ASP11 4.0 6.0 0.4 N7 A:AZA403 4.0 8.7 0.4 C5 A:AZA403 4.1 9.0 0.4 CB A:ASP11 4.1 9.4 0.6 O A:DOD849 4.1 28.3 1.0 N1 A:AZA402 4.2 10.6 0.4 C5 A:AZA402 4.3 10.1 0.4 HD11 A:LEU37 4.5 20.9 1.0 HA A:ASP11 4.5 9.3 0.6 O A:DOD584 4.6 15.6 1.0 CA A:CYS35 4.6 7.8 0.5 N8 A:AZA402 4.7 9.2 0.4 C2 A:AZA403 4.7 8.5 0.4 HB3 A:ASP11 4.8 11.3 0.6 C6 A:AZA402 4.8 11.7 0.4 HD22 A:LEU37 4.9 22.0 1.0 HB3 A:ASN100 4.9 11.6 1.0 CA A:ASP11 4.9 7.7 0.6 CA A:CYS35 4.9 10.8 0.6 O A:DOD1027 4.9 16.9 0.6 O A:DOD564 4.9 13.8 1.0 CA A:ASP11 5.0 6.2 0.4

E.Oksanen, M.P.Blakeley, M.El-Hajji, U.Ryde, M.Budayova-Spano. The Neutron Structure of Urate Oxidase Resolves A Long-Standing Mechanistic Conundrum and Reveals Unexpected Changes in Protonation. Plos One V. 9 86651 2014.
ISSN: ESSN 1932-6203
PubMed: 24466188
DOI: 10.1371/JOURNAL.PONE.0086651