Sodium in the structure of The Structure of Physarum Polycephalum Cytochrome B5 Reductase (pdb 2eix)

The binding sites of Sodium atom in the structure of The Structure of Physarum Polycephalum Cytochrome B5 Reductase (pdb code 2eix). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2eix structure was solved by S.W.KIM, M.SUGA, K.OGASAHARA, T.IKEGAMI, Y.MINAMI, T.YUBISUI, T.TSUKIHARA, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 43.4-1.6 Space group P212121 a (A) 101.084 b (A) 136.369 c (A) 45.718 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 18 Rfree (%) 22.6 Sodium Binding Sites: Sodium binding site 1 out of 2 in 2eix Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2eix. 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: Pro257, A: Pro258, A: Met259, B: Met259, B: Na1601, B: Gol1401, B: Hoh1669, B: Hoh1789, conact list: Atom Atom Distance (A) Na CB A:Pro257 4.07 Na C A:Pro257 4.48 Na CA A:Pro257 4.72 Na N A:Pro258 4.08 Na CB A:Pro258 4.74 Na CD A:Pro258 3.85 Na C A:Pro258 4.56 Na CG A:Pro258 3.89 Na CA A:Pro258 4.68 Na N A:Met259 3.57 Na CB A:Met259 3.72 Na CA A:Met259 4.26 Na N B:Met259 4.96 Na CB B:Met259 4.08 Na CG B:Met259 4.74 Na NA B:Na1601 3.56 Na O3 B:Gol1401 4.88 Na O B:Hoh1669 4.74 Na O B:Hoh1789 4.65 interactive model: Sodium binding site 2 out of 2 in 2eix Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 2eix. 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: Met259, B: Pro257, B: Pro258, B: Met259, A: Na1602, A: Gol1402, A: Hoh1801, conact list: Atom Atom Distance (A) Na N A:Met259 4.91 Na CB A:Met259 4.07 Na CG A:Met259 4.87 Na CA A:Met259 4.95 Na CB B:Pro257 4.06 Na C B:Pro257 4.42 Na CA B:Pro257 4.73 Na N B:Pro258 3.97 Na CB B:Pro258 4.72 Na CD B:Pro258 3.85 Na C B:Pro258 4.51 Na CG B:Pro258 3.80 Na CA B:Pro258 4.61 Na N B:Met259 3.52 Na CB B:Met259 3.67 Na CA B:Met259 4.23 Na NA A:Na1602 3.56 Na O1 A:Gol1402 4.99 Na O A:Hoh1801 4.72 interactive model: