Sodium in the structure of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans (pdb 1o4y)

The binding sites of Sodium atom in the structure of The Three-Dimensional Structure of Beta-Agarase A From Zobellia Galactanivorans (pdb code 1o4y). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1o4y structure was solved by J.ALLOUCH, M.JAM, W.HELBERT, T.BARBEYRON, B.KLOAREG, B.HENRISSAT, M.CZJZEK, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 34.0-1.5 Space group P212121 a (A) 50.314 b (A) 57.487 c (A) 89.054 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 14.8 Rfree (%) 17.6 Sodium Binding Sites: Sodium binding site 1 out of 1 in 1o4y Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1o4y. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Sodium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Asp157, A: Gly160, A: Thr161, A: Hoh769, A: Hoh954, conact list: Atom Atom Distance (A) Na O A:Asp157 4.77 Na N A:Gly160 4.99 Na C A:Gly160 4.16 Na CA A:Gly160 3.95 Na N A:Thr161 3.38 Na CB A:Thr161 4.15 Na CG2 A:Thr161 4.06 Na OG1 A:Thr161 3.40 Na CA A:Thr161 4.36 Na O A:Hoh769 3.37 Na O A:Hoh954 3.87 interactive model: