Sodium in the structure of Crystal Structure of Nak Channel D66E Mutant (pdb 2q6a)

The binding sites of Sodium atom in the structure of Crystal Structure of Nak Channel D66E Mutant (pdb code 2q6a). This binding sites where shown with 5.0 Angstroms radius around Sodium atom. The 2q6a structure was solved by A.ALAM, N.SHI, Y.JIANG, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 50.0-2.6 Space group C2221 a (A) 81.979 b (A) 85.630 c (A) 130.134 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 24.5 Rfree (%) 28 Sodium Binding Sites: Sodium binding site 1 out of 3 in 2q6a Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Sodium in the PDB 2q6a. 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: Thr62, A: Thr63, A: Val64, B: Thr62, B: Thr63, B: Val64, A: Ca115, A: Na117, conact list: Atom Atom Distance (A) Na O A:Thr62 4.81 Na O A:Thr63 3.43 Na CB A:Thr63 3.47 Na CG2 A:Thr63 4.56 Na OG1 A:Thr63 2.59 Na C A:Thr63 4.04 Na CA A:Thr63 4.44 Na N A:Val64 4.86 Na O B:Thr62 4.83 Na O B:Thr63 3.28 Na CB B:Thr63 3.51 Na CG2 B:Thr63 4.59 Na OG1 B:Thr63 2.72 Na C B:Thr63 4.05 Na CA B:Thr63 4.49 Na N B:Val64 4.97 Na CA A:Ca115 4.25 Na NA A:Na117 3.18 interactive model: Sodium binding site 2 out of 3 in 2q6a Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Sodium in the PDB 2q6a. 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: Thr63, B: Thr63, A: Na116, A: Hoh122, B: Hoh115, conact list: Atom Atom Distance (A) Na CB A:Thr63 4.93 Na OG1 A:Thr63 3.88 Na CB B:Thr63 4.95 Na OG1 B:Thr63 3.95 Na NA A:Na116 3.18 Na O A:Hoh122 4.33 Na O B:Hoh115 3.82 interactive model: Sodium binding site 3 out of 3 in 2q6a Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Sodium in the PDB 2q6a. 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: Val64, A: Gly65, A: Glu66, A: Gly67, B: Val64, B: Gly65, B: Glu66, B: Gly67, conact list: Atom Atom Distance (A) Na O A:Val64 4.84 Na O A:Gly65 4.86 Na C A:Gly65 4.69 Na CA A:Gly65 4.92 Na O A:Glu66 4.17 Na N A:Glu66 4.88 Na C A:Glu66 4.44 Na N A:Gly67 4.57 Na CA A:Gly67 4.37 Na O B:Val64 4.82 Na C B:Gly65 4.73 Na CA B:Gly65 4.86 Na O B:Glu66 4.25 Na N B:Glu66 4.86 Na C B:Glu66 4.51 Na N B:Gly67 4.64 Na CA B:Gly67 4.46 interactive model: