Sodium in the structure of Cgg A-Dna (pdb 1zey)

The binding sites of Sodium atom in the structure of Cgg A-Dna (pdb code 1zey). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 1zey structure was solved by F.A.HAYS, A.T.TEEGARDEN, Z.J.R.JONES, M.HARMS, D.RAUP, J.WATSON, E.CAVALIERE, P.S.HO, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 22.2-1.7 Space group P212121 a (A) 24.493 b (A) 44.315 c (A) 47.711 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 26.6 Rfree (%) 32.7 Sodium Binding Sites: Sodium binding site 1 out of 2 in 1zey Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 1zey. 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: Dc3, A: Hoh22, A: Hoh30, conact list: Atom Atom Distance (A) Na OP1 A:Dc3 3.07 Na P A:Dc3 4.46 Na O A:Hoh22 3.51 Na O A:Hoh30 3.64 interactive model: Sodium binding site 2 out of 2 in 1zey Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 1zey. 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: Dg19, B: Hoh29, B: Hoh63, B: Hoh67, B: Hoh73, B: Hoh90, B: Hoh98, conact list: Atom Atom Distance (A) Na OP2 B:Dg19 4.05 Na O B:Hoh29 2.79 Na O B:Hoh63 1.86 Na O B:Hoh67 3.94 Na O B:Hoh73 3.11 Na O B:Hoh90 3.18 Na O B:Hoh98 4.56 interactive model: