Sodium in the structure of Disorder and Twin Refinement of Rna Heptamer Double Helix (pdb 464d)

The binding sites of Sodium atom in the structure of Disorder and Twin Refinement of Rna Heptamer Double Helix (pdb code 464d). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 464d structure was solved by U.MUELLER, Y.A.MULLER, R.HERBST-IRMER, M.SPRINZL, U.HEINEMANN, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 15.0-1.2 Space group P1 a (A) 26.375 b (A) 28.995 c (A) 28.995 alpha (°) 110.37 beta (°) 96.62 gamma (°) 96.62 Rfactor (%) 12.9 Rfree (%) 19.3 Sodium Binding Sites: Sodium binding site 1 out of 1 in 464d Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 464d. 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: G10, B: G11, A: Hoh1011, A: Hoh1090, B: Hoh1014, B: Hoh1045, B: Hoh1109, B: Hoh1131, B: Hoh1136, B: Hoh1143, conact list: Atom Atom Distance (A) Na OP2 B:G10 4.98 Na O6 B:G11 4.90 Na O A:Hoh1011 4.50 Na O A:Hoh1090 3.92 Na O B:Hoh1014 2.65 Na O B:Hoh1045 2.51 Na O B:Hoh1109 4.70 Na O B:Hoh1131 2.33 Na O B:Hoh1136 3.15 Na O B:Hoh1143 4.35 interactive model: