Sodium in the structure of Hera Helicase Rna Binding Domain Is An Rrm Fold (pdb 3i31)

The binding sites of Sodium atom in the structure of Hera Helicase Rna Binding Domain Is An Rrm Fold (pdb code 3i31). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 3i31 structure was solved by M.G.RUDOLPH, D.KLOSTERMEIER, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 34.2-1.8 Space group P41212 a (A) 37.516 b (A) 37.516 c (A) 136.890 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 20 Rfree (%) 22.4 Sodium Binding Sites: Sodium binding site 1 out of 3 in 3i31 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 3i31. 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: Arg426, A: Glu433, A: Hoh37, conact list: Atom Atom Distance (A) Na CZ A:Arg426 4.72 Na NH2 A:Arg426 3.50 Na OE1 A:Glu433 2.89 Na OE2 A:Glu433 3.28 Na CD A:Glu433 3.33 Na CG A:Glu433 4.62 Na O A:Hoh37 3.08 interactive model: Sodium binding site 2 out of 3 in 3i31 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 3i31. 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: Glu466, A: Na4, A: Hoh25, A: Hoh33, conact list: Atom Atom Distance (A) Na OE1 A:Glu466 2.77 Na OE2 A:Glu466 2.69 Na CD A:Glu466 3.06 Na CG A:Glu466 4.53 Na NA A:Na4 3.61 Na O A:Hoh25 4.98 Na O A:Hoh33 4.67 interactive model: Sodium binding site 3 out of 3 in 3i31 Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Sodium in the PDB 3i31. 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: Glu466, A: Zn1, A: Na3, A: Hoh23, A: Hoh25, A: Hoh33, A: Hoh515, conact list: Atom Atom Distance (A) Na OE2 A:Glu466 4.06 Na ZN A:Zn1 4.17 Na NA A:Na3 3.61 Na O A:Hoh23 4.23 Na O A:Hoh25 3.29 Na O A:Hoh33 3.15 Na O A:Hoh515 2.13 interactive model: