The binding sites of Potassium atom in the structure of Detailed Analysis of Rna-Protein Interactions Within the Bacterial Ribosomal Protein L5/5S Rrna Complex (pdb code 1mji). This binding sites where shown with 5.0 Angstroms radius around Potassium atom. The 1mji structure was solved by A.PEREDERINA, N.NEVSKAYA, O.NIKONOV, A.NIKULIN, P.DUMAS, M.YAO, I.TANAKA, M.GARBER, G.GONGADZE, S.NIKONOV, with X-Ray Crystallography technique, brief refinement statistics is given in the table below:
Resolution (A) | 14.9-2.5 | Space group | P1211 | a (A) | 51.890 | b (A) | 99.600 | c (A) | 65.730 | alpha (°) | 90.00 | beta (°) | 100.05 | gamma (°) | 90.00 | Rfactor (%) | 21 | Rfree (%) | 28.8 |
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Potassium binding site 1 out of 2 in 1mji
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 1 of Potassium in the PDB 1mji. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Potassium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: C: U32, C: G33, C: G44, C: A45, C: A46, C: Hoh219, C: Hoh221, | conact list:
Atom | Atom | Distance (A) | K | C5 C:U32 | 4.37 | K | C4 C:U32 | 4.23 | K | O4 C:U32 | 3.77 | K | C6 C:G33 | 4.52 | K | C5 C:G33 | 4.62 | K | N7 C:G33 | 3.95 | K | O6 C:G33 | 3.73 | K | O2' C:G44 | 4.93 | K | OP2 C:A45 | 4.40 | K | OP2 C:A46 | 4.24 | K | O C:Hoh219 | 4.75 | K | O C:Hoh221 | 3.34 |
| interactive model:
| Potassium binding site 2 out of 2 in 1mji
|  Click to enlarge |  Click to enlarge | Mono- and Stereo- picture of 5.0 Angstrom coordination sphere 2 of Potassium in the PDB 1mji. Coordination sphere was calculated for all residues within 5.0 Angstroms distance from the central Potassium atom, shown by VdW sphere Residues shown as a stick model or VDW spheres: D: U32, D: G33, D: A46, D: Hoh221, | conact list:
Atom | Atom | Distance (A) | K | C5 D:U32 | 4.01 | K | C4 D:U32 | 3.92 | K | O4 D:U32 | 3.39 | K | C6 D:G33 | 4.70 | K | C5 D:G33 | 4.77 | K | N7 D:G33 | 4.06 | K | O6 D:G33 | 3.91 | K | OP2 D:A46 | 4.71 | K | O D:Hoh221 | 2.35 |
| interactive model:
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