Sodium in the structure of Effect of Ariginine on Lysozyme (pdb 3a34)

The binding sites of Sodium atom in the structure of Effect of Ariginine on Lysozyme (pdb code 3a34). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3a34 structure was solved by L.ITO, K.SHIRAKI, T.MATSUURA, H.YAMAGUCHI, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 33.7-1.6 Space group P43212 a (A) 78.357 b (A) 78.357 c (A) 37.312 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 19.6 Rfree (%) 22.6 Sodium Binding Sites: Sodium binding site 1 out of 1 in 3a34 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3a34. 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: Ser60, A: Arg61, A: Trp62, A: Cys64, A: Asn65, A: Asp66, A: Thr69, A: Ser72, A: Arg73, A: Asn74, A: Cl136, A: Hoh158, A: Hoh167, conact list: Atom Atom Distance (A) Na O A:Ser60 2.37 Na CB A:Ser60 4.37 Na C A:Ser60 3.53 Na CA A:Ser60 4.18 Na O A:Arg61 4.72 Na N A:Arg61 4.62 Na C A:Arg61 4.64 Na CA A:Arg61 4.90 Na CA A:Arg61 4.90 Na N A:Trp62 4.89 Na O A:Cys64 2.49 Na N A:Cys64 4.52 Na C A:Cys64 3.55 Na CA A:Cys64 4.67 Na N A:Asn65 4.16 Na CB A:Asn65 4.77 Na C A:Asn65 4.84 Na OD1 A:Asn65 4.64 Na CA A:Asn65 3.93 Na N A:Asp66 4.64 Na O A:Thr69 4.98 Na CB A:Thr69 4.70 Na O A:Ser72 4.60 Na CB A:Ser72 3.36 Na OG A:Ser72 2.54 Na C A:Ser72 4.11 Na CA A:Ser72 4.38 Na O A:Arg73 2.50 Na N A:Arg73 3.96 Na C A:Arg73 3.51 Na CA A:Arg73 4.33 Na N A:Asn74 4.38 Na CB A:Asn74 4.70 Na CA A:Asn74 4.56 Na CL A:Cl136 4.67 Na O A:Hoh158 2.48 Na O A:Hoh167 2.31 interactive model: