Rubidium in the structure of Crystal Structure of The the Open Nak Channel- Rb+ Complex (pdb 3e8b)

The binding sites of Rubidium atom in the structure of Crystal Structure of The the Open Nak Channel- Rb+ Complex (pdb code 3e8b). This binding sites where shown with 5.0 Angstroms radius around Rubidium atom. The 3e8b structure was solved by Y.JIANG, A.ALAM, with X-Ray Crystallography technique, brief refinement statistics is given in the table below: Resolution (A) 27.1-1.7 Space group I4 a (A) 68.134 b (A) 68.134 c (A) 89.359 alpha (°) 90.00 beta (°) 90.00 gamma (°) 90.00 Rfactor (%) 22 Rfree (%) 22.9 Rubidium Binding Sites: Rubidium binding site 1 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Thr63, A: Val64, A: Gly65, A: Rb3, A: Rb6, conact list: Atom Atom Distance (A) Rb O A:Thr63 2.94 Rb C A:Thr63 4.05 Rb O A:Val64 2.97 Rb N A:Val64 4.59 Rb C A:Val64 3.59 Rb CA A:Val64 4.15 Rb N A:Gly65 4.42 Rb CA A:Gly65 4.77 Rb RB A:Rb3 2.85 Rb RB A:Rb6 3.79 interactive model: Rubidium binding site 2 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Val64, A: Gly65, A: Rb2, A: Rb10, A: Hoh506, conact list: Atom Atom Distance (A) Rb O A:Val64 3.11 Rb C A:Val64 4.17 Rb O A:Gly65 4.77 Rb N A:Gly65 4.66 Rb C A:Gly65 4.57 Rb CA A:Gly65 4.23 Rb RB A:Rb2 2.85 Rb RB A:Rb10 3.03 Rb O A:Hoh506 2.85 interactive model: Rubidium binding site 3 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 3 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Gly67, A: Asn68, A: Rb9, A: Hoh505, A: Hoh534, conact list: Atom Atom Distance (A) Rb O A:Gly67 2.50 Rb C A:Gly67 3.69 Rb CA A:Gly67 4.50 Rb N A:Asn68 4.63 Rb ND2 A:Asn68 4.77 Rb CA A:Asn68 4.61 Rb RB A:Rb9 4.12 Rb O A:Hoh505 2.77 Rb O A:Hoh534 4.81 interactive model: Rubidium binding site 4 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 4 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Thr63, A: Val64, A: Rb2, conact list: Atom Atom Distance (A) Rb O A:Thr63 2.98 Rb CB A:Thr63 3.52 Rb CG2 A:Thr63 4.76 Rb OG1 A:Thr63 2.89 Rb C A:Thr63 3.85 Rb CA A:Thr63 4.35 Rb N A:Val64 4.82 Rb RB A:Rb2 3.79 interactive model: Rubidium binding site 5 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 5 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Rb4, A: Hoh505, A: Hoh534, conact list: Atom Atom Distance (A) Rb RB A:Rb4 4.12 Rb O A:Hoh505 3.27 Rb O A:Hoh534 3.73 interactive model: Rubidium binding site 6 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 6 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: A: Asp66, A: Gly67, A: Rb3, A: Hoh506, conact list: Atom Atom Distance (A) Rb O A:Asp66 3.80 Rb C A:Asp66 4.16 Rb N A:Gly67 4.22 Rb C A:Gly67 4.96 Rb CA A:Gly67 3.83 Rb RB A:Rb3 3.03 Rb O A:Hoh506 2.71 interactive model: Rubidium binding site 7 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 7 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Thr63, B: Val64, B: Gly65, B: Rb5, B: Rb7, B: Hoh513, conact list: Atom Atom Distance (A) Rb O B:Thr63 2.91 Rb C B:Thr63 4.05 Rb O B:Val64 3.00 Rb N B:Val64 4.63 Rb C B:Val64 3.63 Rb CA B:Val64 4.22 Rb N B:Gly65 4.41 Rb CA B:Gly65 4.69 Rb RB B:Rb5 3.95 Rb RB B:Rb7 2.84 Rb O B:Hoh513 4.80 interactive model: Rubidium binding site 8 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 8 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Thr63, B: Val64, B: Rb1, conact list: Atom Atom Distance (A) Rb O B:Thr63 3.09 Rb CB B:Thr63 3.44 Rb CG2 B:Thr63 4.64 Rb OG1 B:Thr63 2.88 Rb C B:Thr63 3.90 Rb CA B:Thr63 4.34 Rb N B:Val64 4.88 Rb RB B:Rb1 3.95 interactive model: Rubidium binding site 9 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 9 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Val64, B: Gly65, B: Rb1, B: Hoh513, conact list: Atom Atom Distance (A) Rb O B:Val64 3.22 Rb C B:Val64 4.25 Rb O B:Gly65 4.93 Rb N B:Gly65 4.69 Rb C B:Gly65 4.61 Rb CA B:Gly65 4.19 Rb RB B:Rb1 2.84 Rb O B:Hoh513 2.62 interactive model: Rubidium binding site 10 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 10 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Gly67, B: Asn68, B: Rb11, conact list: Atom Atom Distance (A) Rb O B:Gly67 2.77 Rb C B:Gly67 3.80 Rb CA B:Gly67 4.64 Rb N B:Asn68 4.62 Rb OD1 B:Asn68 4.45 Rb CA B:Asn68 4.62 Rb RB B:Rb11 4.19 interactive model: Rubidium binding site 11 out of 11 in 3e8b Click to enlarge Click to enlarge Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 11 of Rubidium in the PDB 3e8b. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Rubidium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: B: Rb8, conact list: Atom Atom Distance (A) Rb RB B:Rb8 4.19 interactive model: