Sodium in PDB 3wnj: 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans

The structure of 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans, PDB code: 3wnj was solved by Y.Fukuda, T.Inoue, with X-Ray Crystallography technique. A brief refinement statistics is given in the table below:

Resolution Low / High (Å)	28.73 / 1.20
Space group	H 3
Cell size a, b, c (Å), α, β, γ (°)	114.903, 114.903, 84.022, 90.00, 90.00, 120.00
R / Rfree (%)	11.9 / 14.6

The structure of 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans also contains other interesting chemical elements:

Copper

(Cu)

8 atoms

The binding sites of Sodium atom in the 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans (pdb code 3wnj). This binding sites where shown within 5.0 Angstroms radius around Sodium atom.
In total only one binding site of Sodium was determined in the 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans, PDB code: 3wnj:

Sodium binding site 1 out of 1 in the 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans


Mono view


Stereo pair view

A full contact list of Sodium with other atoms in the Na binding site number 1 of 1.20 A Resolution Crystal Structure of Dioxygen Bound Copper- Containing Nitrite Reductase From Geobacillus Thermodenitrificans within 5.0Å range: probe atom residue distance (Å) B Occ A:Na407 b:82.1 occ:0.50 O A:HOH835 1.2 28.1 0.5 OD2 A:ASP40 2.2 14.0 1.0 CG A:ASP40 3.2 12.1 1.0 O A:HOH649 3.2 21.9 1.0 O A:HOH681 3.3 31.7 1.0 OD1 A:ASP40 3.5 11.4 1.0 O A:HOH552 3.6 13.4 1.0 O A:HOH742 3.6 27.4 1.0 O A:HOH575 3.7 22.8 1.0 CB A:ASP40 4.4 10.7 1.0

Y.Fukuda, T.Inoue. Crystallographic Evidence For Side-on Dioxygen Trapped on Type 2 Copper in Copper-Containing Nitrite Reductase To Be Published.