Sodium in the structure of Crystal Structure of Hemopexin Fold Protein CP4 From Cow Pea (pdb 3oyo)

The binding sites of Sodium atom in the structure of Crystal Structure of Hemopexin Fold Protein CP4 From Cow Pea (pdb code 3oyo). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3oyo structure was solved by V.GAUR, V.CHANANA, D.M.SALUNKE, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 26.2-2.1 Space group C121 a (A) 125.087 b (A) 60.138 c (A) 67.574 alpha (°) 90.00 beta (°) 111.18 gamma (°) 90.00 Rfactor (%) 20.5 Rfree (%) 24.6 Sodium Binding Sites: Sodium binding site 1 out of 2 in 3oyo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3oyo. 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: Ala9, A: Phe10, A: Arg11, A: Ser67, A: Phe68, A: His69, A: Ala123, A: Phe124, A: Arg125, A: Cys176, A: Phe177, A: Ala178, A: Hoh231, conact list: Atom Atom Distance (A) Na O A:Ala9 4.56 Na CB A:Phe10 4.34 Na C A:Phe10 4.83 Na CA A:Phe10 4.20 Na N A:Arg11 4.28 Na NH1 A:Arg11 4.97 Na O A:Ser67 4.69 Na N A:Phe68 4.95 Na CB A:Phe68 3.94 Na C A:Phe68 4.05 Na CA A:Phe68 3.74 Na O A:His69 4.67 Na N A:His69 3.29 Na CB A:His69 3.87 Na C A:His69 4.97 Na CA A:His69 4.21 Na O A:Ala123 4.35 Na N A:Phe124 4.88 Na CB A:Phe124 4.20 Na C A:Phe124 4.09 Na CA A:Phe124 3.78 Na N A:Arg125 3.37 Na CB A:Arg125 3.99 Na CA A:Arg125 4.33 Na O A:Cys176 4.88 Na CB A:Phe177 4.14 Na C A:Phe177 4.25 Na CA A:Phe177 3.90 Na N A:Ala178 3.55 Na CB A:Ala178 4.31 Na CA A:Ala178 4.54 Na O A:Hoh231 4.21 interactive model: Sodium binding site 2 out of 2 in 3oyo Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 3oyo. 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: B: Ala9, B: Phe10, B: Arg11, B: Ser67, B: Phe68, B: His69, B: Ala123, B: Phe124, B: Arg125, B: Cys176, B: Phe177, B: Ala178, B: Hoh231, conact list: Atom Atom Distance (A) Na O B:Ala9 4.38 Na N B:Phe10 4.95 Na CB B:Phe10 4.16 Na C B:Phe10 4.40 Na CA B:Phe10 3.87 Na N B:Arg11 3.84 Na CB B:Arg11 4.88 Na CA B:Arg11 4.95 Na O B:Ser67 4.74 Na CB B:Phe68 4.17 Na C B:Phe68 4.30 Na CA B:Phe68 3.90 Na O B:His69 4.91 Na N B:His69 3.60 Na CB B:His69 4.23 Na ND1 B:His69 4.56 Na CG B:His69 4.89 Na CA B:His69 4.54 Na O B:Ala123 4.48 Na CB B:Phe124 4.25 Na C B:Phe124 4.45 Na CA B:Phe124 4.02 Na N B:Arg125 3.74 Na CB B:Arg125 4.20 Na CA B:Arg125 4.64 Na O B:Cys176 4.71 Na N B:Phe177 4.98 Na CB B:Phe177 4.00 Na C B:Phe177 4.16 Na CA B:Phe177 3.81 Na O B:Ala178 4.95 Na N B:Ala178 3.46 Na CB B:Ala178 4.22 Na CA B:Ala178 4.43 Na O B:Hoh231 4.14 interactive model: